-- dump date 20140619_082233 -- class Genbank::misc_feature -- table misc_feature_note -- id note 331112000001 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 331112000002 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 331112000003 putative catalytic residues [active] 331112000004 putative nucleotide binding site [chemical binding]; other site 331112000005 putative aspartate binding site [chemical binding]; other site 331112000006 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 331112000007 dimer interface [polypeptide binding]; other site 331112000008 putative threonine allosteric regulatory site; other site 331112000009 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 331112000010 putative threonine allosteric regulatory site; other site 331112000011 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 331112000012 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 331112000013 homoserine kinase; Region: thrB; TIGR00191 331112000014 Protein of unknown function; Region: YhfT; pfam10797 331112000015 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 331112000016 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 331112000017 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 331112000018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112000019 catalytic residue [active] 331112000020 hypothetical protein; Validated; Region: PRK02101 331112000021 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 331112000022 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 331112000023 transaldolase-like protein; Provisional; Region: PTZ00411 331112000024 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 331112000025 active site 331112000026 dimer interface [polypeptide binding]; other site 331112000027 catalytic residue [active] 331112000028 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 331112000029 MPT binding site; other site 331112000030 trimer interface [polypeptide binding]; other site 331112000031 hypothetical protein; Provisional; Region: PRK10659 331112000032 hypothetical protein; Provisional; Region: PRK10236 331112000033 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 331112000034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 331112000035 hypothetical protein; Provisional; Region: PRK10154 331112000036 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 331112000037 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 331112000038 nucleotide binding site [chemical binding]; other site 331112000039 NEF interaction site [polypeptide binding]; other site 331112000040 SBD interface [polypeptide binding]; other site 331112000041 chaperone protein DnaJ; Provisional; Region: PRK10767 331112000042 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 331112000043 HSP70 interaction site [polypeptide binding]; other site 331112000044 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 331112000045 substrate binding site [polypeptide binding]; other site 331112000046 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 331112000047 Zn binding sites [ion binding]; other site 331112000048 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 331112000049 dimer interface [polypeptide binding]; other site 331112000050 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 331112000051 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 331112000052 Hok/gef family; Region: HOK_GEF; pfam01848 331112000053 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 331112000054 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 331112000055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112000056 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 331112000057 putative dimerization interface [polypeptide binding]; other site 331112000058 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 331112000059 Protein of unknown function (DUF2575); Region: DUF2575; pfam10837 331112000060 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 331112000061 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 331112000062 active site 331112000063 Riboflavin kinase; Region: Flavokinase; smart00904 331112000064 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 331112000065 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 331112000066 HIGH motif; other site 331112000067 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 331112000068 active site 331112000069 KMSKS motif; other site 331112000070 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 331112000071 tRNA binding surface [nucleotide binding]; other site 331112000072 anticodon binding site; other site 331112000073 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 331112000074 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 331112000075 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 331112000076 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 331112000077 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 331112000078 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 331112000079 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 331112000080 active site 331112000081 tetramer interface [polypeptide binding]; other site 331112000082 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 331112000083 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 331112000084 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 331112000085 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 331112000086 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 331112000087 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 331112000088 catalytic site [active] 331112000089 subunit interface [polypeptide binding]; other site 331112000090 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 331112000091 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 331112000092 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 331112000093 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 331112000094 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 331112000095 ATP-grasp domain; Region: ATP-grasp_4; cl17255 331112000096 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 331112000097 IMP binding site; other site 331112000098 dimer interface [polypeptide binding]; other site 331112000099 interdomain contacts; other site 331112000100 partial ornithine binding site; other site 331112000101 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 331112000102 carnitine operon protein CaiE; Provisional; Region: PRK13627 331112000103 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 331112000104 putative trimer interface [polypeptide binding]; other site 331112000105 putative metal binding site [ion binding]; other site 331112000106 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 331112000107 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 331112000108 substrate binding site [chemical binding]; other site 331112000109 oxyanion hole (OAH) forming residues; other site 331112000110 trimer interface [polypeptide binding]; other site 331112000111 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 331112000112 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 331112000113 acyl-activating enzyme (AAE) consensus motif; other site 331112000114 putative AMP binding site [chemical binding]; other site 331112000115 putative active site [active] 331112000116 putative CoA binding site [chemical binding]; other site 331112000117 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 331112000118 CoA-transferase family III; Region: CoA_transf_3; pfam02515 331112000119 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 331112000120 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 331112000121 active site 331112000122 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 331112000123 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 331112000124 Ligand binding site [chemical binding]; other site 331112000125 Electron transfer flavoprotein domain; Region: ETF; pfam01012 331112000126 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 331112000127 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 331112000128 Ligand binding site [chemical binding]; other site 331112000129 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 331112000130 putative oxidoreductase FixC; Provisional; Region: PRK10157 331112000131 ferredoxin-like protein FixX; Provisional; Region: PRK15449 331112000132 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112000133 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 331112000134 putative substrate translocation pore; other site 331112000135 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 331112000136 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 331112000137 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 331112000138 TrkA-N domain; Region: TrkA_N; pfam02254 331112000139 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 331112000140 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 331112000141 folate binding site [chemical binding]; other site 331112000142 NADP+ binding site [chemical binding]; other site 331112000143 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 331112000144 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 331112000145 active site 331112000146 metal binding site [ion binding]; metal-binding site 331112000147 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 331112000148 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 331112000149 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 331112000150 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 331112000151 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 331112000152 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 331112000153 SurA N-terminal domain; Region: SurA_N; pfam09312 331112000154 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 331112000155 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 331112000156 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 331112000157 OstA-like protein; Region: OstA; pfam03968 331112000158 Organic solvent tolerance protein; Region: OstA_C; pfam04453 331112000159 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 331112000160 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 331112000161 putative metal binding site [ion binding]; other site 331112000162 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 331112000163 HSP70 interaction site [polypeptide binding]; other site 331112000164 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 331112000165 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 331112000166 active site 331112000167 ATP-dependent helicase HepA; Validated; Region: PRK04914 331112000168 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 331112000169 ATP binding site [chemical binding]; other site 331112000170 putative Mg++ binding site [ion binding]; other site 331112000171 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 331112000172 nucleotide binding region [chemical binding]; other site 331112000173 ATP-binding site [chemical binding]; other site 331112000174 DNA polymerase II; Reviewed; Region: PRK05762 331112000175 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 331112000176 active site 331112000177 catalytic site [active] 331112000178 substrate binding site [chemical binding]; other site 331112000179 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 331112000180 active site 331112000181 metal-binding site 331112000182 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 331112000183 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 331112000184 intersubunit interface [polypeptide binding]; other site 331112000185 active site 331112000186 Zn2+ binding site [ion binding]; other site 331112000187 L-arabinose isomerase; Provisional; Region: PRK02929 331112000188 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 331112000189 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 331112000190 trimer interface [polypeptide binding]; other site 331112000191 putative substrate binding site [chemical binding]; other site 331112000192 putative metal binding site [ion binding]; other site 331112000193 ribulokinase; Provisional; Region: PRK04123 331112000194 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 331112000195 N- and C-terminal domain interface [polypeptide binding]; other site 331112000196 active site 331112000197 MgATP binding site [chemical binding]; other site 331112000198 catalytic site [active] 331112000199 metal binding site [ion binding]; metal-binding site 331112000200 carbohydrate binding site [chemical binding]; other site 331112000201 homodimer interface [polypeptide binding]; other site 331112000202 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 331112000203 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 331112000204 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112000205 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112000206 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 331112000207 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 331112000208 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 331112000209 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 331112000210 Walker A/P-loop; other site 331112000211 ATP binding site [chemical binding]; other site 331112000212 Q-loop/lid; other site 331112000213 ABC transporter signature motif; other site 331112000214 Walker B; other site 331112000215 D-loop; other site 331112000216 H-loop/switch region; other site 331112000217 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 331112000218 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 331112000219 dimer interface [polypeptide binding]; other site 331112000220 conserved gate region; other site 331112000221 putative PBP binding loops; other site 331112000222 ABC-ATPase subunit interface; other site 331112000223 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 331112000224 dimer interface [polypeptide binding]; other site 331112000225 conserved gate region; other site 331112000226 putative PBP binding loops; other site 331112000227 ABC-ATPase subunit interface; other site 331112000228 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 331112000229 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 331112000230 transcriptional regulator SgrR; Provisional; Region: PRK13626 331112000231 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 331112000232 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 331112000233 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112000234 sugar efflux transporter; Region: 2A0120; TIGR00899 331112000235 putative substrate translocation pore; other site 331112000236 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 331112000237 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 331112000238 substrate binding site [chemical binding]; other site 331112000239 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 331112000240 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 331112000241 substrate binding site [chemical binding]; other site 331112000242 ligand binding site [chemical binding]; other site 331112000243 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 331112000244 tartrate dehydrogenase; Region: TTC; TIGR02089 331112000245 2-isopropylmalate synthase; Validated; Region: PRK00915 331112000246 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 331112000247 active site 331112000248 catalytic residues [active] 331112000249 metal binding site [ion binding]; metal-binding site 331112000250 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 331112000251 leu operon leader peptide; Provisional; Region: PRK09925 331112000252 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 331112000253 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112000254 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 331112000255 putative substrate binding pocket [chemical binding]; other site 331112000256 putative dimerization interface [polypeptide binding]; other site 331112000257 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 331112000258 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 331112000259 PYR/PP interface [polypeptide binding]; other site 331112000260 dimer interface [polypeptide binding]; other site 331112000261 TPP binding site [chemical binding]; other site 331112000262 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 331112000263 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 331112000264 TPP-binding site [chemical binding]; other site 331112000265 dimer interface [polypeptide binding]; other site 331112000266 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 331112000267 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 331112000268 putative valine binding site [chemical binding]; other site 331112000269 dimer interface [polypeptide binding]; other site 331112000270 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 331112000271 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 331112000272 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112000273 DNA binding site [nucleotide binding] 331112000274 domain linker motif; other site 331112000275 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 331112000276 dimerization interface [polypeptide binding]; other site 331112000277 ligand binding site [chemical binding]; other site 331112000278 mraZ protein; Region: TIGR00242 331112000279 MraZ protein; Region: MraZ; pfam02381 331112000280 MraZ protein; Region: MraZ; pfam02381 331112000281 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 331112000282 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 331112000283 cell division protein FtsL; Provisional; Region: PRK10772 331112000284 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 331112000285 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 331112000286 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 331112000287 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 331112000288 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331112000289 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331112000290 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331112000291 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 331112000292 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331112000293 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331112000294 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331112000295 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 331112000296 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 331112000297 Mg++ binding site [ion binding]; other site 331112000298 putative catalytic motif [active] 331112000299 putative substrate binding site [chemical binding]; other site 331112000300 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 331112000301 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331112000302 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331112000303 cell division protein FtsW; Provisional; Region: PRK10774 331112000304 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 331112000305 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 331112000306 active site 331112000307 homodimer interface [polypeptide binding]; other site 331112000308 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 331112000309 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331112000310 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331112000311 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331112000312 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 331112000313 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 331112000314 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 331112000315 cell division protein FtsQ; Provisional; Region: PRK10775 331112000316 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 331112000317 Cell division protein FtsQ; Region: FtsQ; pfam03799 331112000318 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 331112000319 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 331112000320 Cell division protein FtsA; Region: FtsA; pfam14450 331112000321 cell division protein FtsZ; Validated; Region: PRK09330 331112000322 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 331112000323 nucleotide binding site [chemical binding]; other site 331112000324 SulA interaction site; other site 331112000325 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 331112000326 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 331112000327 SecA regulator SecM; Provisional; Region: PRK02943 331112000328 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 331112000329 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 331112000330 SEC-C motif; Region: SEC-C; pfam02810 331112000331 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 331112000332 active site 331112000333 8-oxo-dGMP binding site [chemical binding]; other site 331112000334 nudix motif; other site 331112000335 metal binding site [ion binding]; metal-binding site 331112000336 DNA gyrase inhibitor; Reviewed; Region: PRK00418 331112000337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 331112000338 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 331112000339 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 331112000340 CoA-binding site [chemical binding]; other site 331112000341 ATP-binding [chemical binding]; other site 331112000342 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 331112000343 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 331112000344 active site 331112000345 type IV pilin biogenesis protein; Provisional; Region: PRK10573 331112000346 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 331112000347 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 331112000348 hypothetical protein; Provisional; Region: PRK10436 331112000349 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 331112000350 Walker A motif; other site 331112000351 ATP binding site [chemical binding]; other site 331112000352 Walker B motif; other site 331112000353 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 331112000354 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 331112000355 dimerization interface [polypeptide binding]; other site 331112000356 active site 331112000357 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 331112000358 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 331112000359 amidase catalytic site [active] 331112000360 Zn binding residues [ion binding]; other site 331112000361 substrate binding site [chemical binding]; other site 331112000362 regulatory protein AmpE; Provisional; Region: PRK10987 331112000363 aromatic amino acid transporter; Provisional; Region: PRK10238 331112000364 Transcriptional regulators [Transcription]; Region: FadR; COG2186 331112000365 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112000366 DNA-binding site [nucleotide binding]; DNA binding site 331112000367 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 331112000368 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 331112000369 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 331112000370 dimer interface [polypeptide binding]; other site 331112000371 TPP-binding site [chemical binding]; other site 331112000372 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 331112000373 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 331112000374 E3 interaction surface; other site 331112000375 lipoyl attachment site [posttranslational modification]; other site 331112000376 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 331112000377 E3 interaction surface; other site 331112000378 lipoyl attachment site [posttranslational modification]; other site 331112000379 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 331112000380 E3 interaction surface; other site 331112000381 lipoyl attachment site [posttranslational modification]; other site 331112000382 e3 binding domain; Region: E3_binding; pfam02817 331112000383 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 331112000384 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 331112000385 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 331112000386 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112000387 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 331112000388 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 331112000389 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 331112000390 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 331112000391 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 331112000392 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 331112000393 substrate binding site [chemical binding]; other site 331112000394 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 331112000395 substrate binding site [chemical binding]; other site 331112000396 ligand binding site [chemical binding]; other site 331112000397 hypothetical protein; Provisional; Region: PRK05248 331112000398 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 331112000399 spermidine synthase; Provisional; Region: PRK00811 331112000400 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 331112000401 S-adenosylmethionine binding site [chemical binding]; other site 331112000402 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 331112000403 multicopper oxidase; Provisional; Region: PRK10965 331112000404 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 331112000405 Multicopper oxidase; Region: Cu-oxidase; pfam00394 331112000406 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 331112000407 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 331112000408 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 331112000409 Trp docking motif [polypeptide binding]; other site 331112000410 putative active site [active] 331112000411 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331112000412 active site 331112000413 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 331112000414 active site clefts [active] 331112000415 zinc binding site [ion binding]; other site 331112000416 dimer interface [polypeptide binding]; other site 331112000417 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 331112000418 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 331112000419 Walker A/P-loop; other site 331112000420 ATP binding site [chemical binding]; other site 331112000421 Q-loop/lid; other site 331112000422 ABC transporter signature motif; other site 331112000423 Walker B; other site 331112000424 D-loop; other site 331112000425 H-loop/switch region; other site 331112000426 inner membrane transport permease; Provisional; Region: PRK15066 331112000427 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 331112000428 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 331112000429 active pocket/dimerization site; other site 331112000430 active site 331112000431 phosphorylation site [posttranslational modification] 331112000432 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 331112000433 putative active site [active] 331112000434 putative metal binding site [ion binding]; other site 331112000435 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 331112000436 tetramerization interface [polypeptide binding]; other site 331112000437 active site 331112000438 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 331112000439 Uncharacterized conserved protein [Function unknown]; Region: COG5464 331112000440 pantoate--beta-alanine ligase; Region: panC; TIGR00018 331112000441 Pantoate-beta-alanine ligase; Region: PanC; cd00560 331112000442 active site 331112000443 ATP-binding site [chemical binding]; other site 331112000444 pantoate-binding site; other site 331112000445 HXXH motif; other site 331112000446 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 331112000447 oligomerization interface [polypeptide binding]; other site 331112000448 active site 331112000449 metal binding site [ion binding]; metal-binding site 331112000450 putative fimbrial-like adhesin protein; Provisional; Region: PRK09723 331112000451 putative fimbrial protein StaF; Provisional; Region: PRK15262 331112000452 putative transposase OrfB; Reviewed; Region: PHA02517 331112000453 HTH-like domain; Region: HTH_21; pfam13276 331112000454 Integrase core domain; Region: rve; pfam00665 331112000455 Integrase core domain; Region: rve_2; pfam13333 331112000456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112000457 Transposase; Region: HTH_Tnp_1; pfam01527 331112000458 putative chaperone protein EcpD; Provisional; Region: PRK09926 331112000459 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 331112000460 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 331112000461 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 331112000462 catalytic center binding site [active] 331112000463 ATP binding site [chemical binding]; other site 331112000464 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 331112000465 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 331112000466 active site 331112000467 NTP binding site [chemical binding]; other site 331112000468 metal binding triad [ion binding]; metal-binding site 331112000469 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 331112000470 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 331112000471 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 331112000472 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 331112000473 active site 331112000474 nucleotide binding site [chemical binding]; other site 331112000475 HIGH motif; other site 331112000476 KMSKS motif; other site 331112000477 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 331112000478 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 331112000479 2'-5' RNA ligase; Provisional; Region: PRK15124 331112000480 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 331112000481 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 331112000482 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 331112000483 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 331112000484 ATP binding site [chemical binding]; other site 331112000485 putative Mg++ binding site [ion binding]; other site 331112000486 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 331112000487 nucleotide binding region [chemical binding]; other site 331112000488 ATP-binding site [chemical binding]; other site 331112000489 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 331112000490 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 331112000491 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 331112000492 Transglycosylase; Region: Transgly; pfam00912 331112000493 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 331112000494 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 331112000495 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 331112000496 N-terminal plug; other site 331112000497 ligand-binding site [chemical binding]; other site 331112000498 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 331112000499 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 331112000500 Walker A/P-loop; other site 331112000501 ATP binding site [chemical binding]; other site 331112000502 Q-loop/lid; other site 331112000503 ABC transporter signature motif; other site 331112000504 Walker B; other site 331112000505 D-loop; other site 331112000506 H-loop/switch region; other site 331112000507 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 331112000508 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 331112000509 siderophore binding site; other site 331112000510 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 331112000511 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 331112000512 ABC-ATPase subunit interface; other site 331112000513 dimer interface [polypeptide binding]; other site 331112000514 putative PBP binding regions; other site 331112000515 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 331112000516 ABC-ATPase subunit interface; other site 331112000517 dimer interface [polypeptide binding]; other site 331112000518 putative PBP binding regions; other site 331112000519 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 331112000520 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 331112000521 inhibitor-cofactor binding pocket; inhibition site 331112000522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112000523 catalytic residue [active] 331112000524 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 331112000525 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 331112000526 Cl- selectivity filter; other site 331112000527 Cl- binding residues [ion binding]; other site 331112000528 pore gating glutamate residue; other site 331112000529 dimer interface [polypeptide binding]; other site 331112000530 H+/Cl- coupling transport residue; other site 331112000531 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 331112000532 hypothetical protein; Provisional; Region: PRK10578 331112000533 UPF0126 domain; Region: UPF0126; pfam03458 331112000534 UPF0126 domain; Region: UPF0126; pfam03458 331112000535 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 331112000536 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 331112000537 cobalamin binding residues [chemical binding]; other site 331112000538 putative BtuC binding residues; other site 331112000539 dimer interface [polypeptide binding]; other site 331112000540 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 331112000541 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 331112000542 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 331112000543 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 331112000544 Zn2+ binding site [ion binding]; other site 331112000545 Mg2+ binding site [ion binding]; other site 331112000546 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 331112000547 serine endoprotease; Provisional; Region: PRK10942 331112000548 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 331112000549 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 331112000550 protein binding site [polypeptide binding]; other site 331112000551 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 331112000552 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 331112000553 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 331112000554 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 331112000555 hypothetical protein; Provisional; Region: PRK13677 331112000556 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 331112000557 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 331112000558 trimer interface [polypeptide binding]; other site 331112000559 active site 331112000560 substrate binding site [chemical binding]; other site 331112000561 CoA binding site [chemical binding]; other site 331112000562 PII uridylyl-transferase; Provisional; Region: PRK05007 331112000563 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 331112000564 metal binding triad; other site 331112000565 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 331112000566 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 331112000567 Zn2+ binding site [ion binding]; other site 331112000568 Mg2+ binding site [ion binding]; other site 331112000569 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 331112000570 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 331112000571 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 331112000572 active site 331112000573 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 331112000574 rRNA interaction site [nucleotide binding]; other site 331112000575 S8 interaction site; other site 331112000576 putative laminin-1 binding site; other site 331112000577 elongation factor Ts; Provisional; Region: tsf; PRK09377 331112000578 UBA/TS-N domain; Region: UBA; pfam00627 331112000579 Elongation factor TS; Region: EF_TS; pfam00889 331112000580 Elongation factor TS; Region: EF_TS; pfam00889 331112000581 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 331112000582 putative nucleotide binding site [chemical binding]; other site 331112000583 uridine monophosphate binding site [chemical binding]; other site 331112000584 homohexameric interface [polypeptide binding]; other site 331112000585 ribosome recycling factor; Reviewed; Region: frr; PRK00083 331112000586 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 331112000587 hinge region; other site 331112000588 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 331112000589 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 331112000590 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 331112000591 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 331112000592 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 331112000593 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 331112000594 catalytic residue [active] 331112000595 putative FPP diphosphate binding site; other site 331112000596 putative FPP binding hydrophobic cleft; other site 331112000597 dimer interface [polypeptide binding]; other site 331112000598 putative IPP diphosphate binding site; other site 331112000599 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 331112000600 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 331112000601 zinc metallopeptidase RseP; Provisional; Region: PRK10779 331112000602 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 331112000603 active site 331112000604 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 331112000605 protein binding site [polypeptide binding]; other site 331112000606 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 331112000607 putative substrate binding region [chemical binding]; other site 331112000608 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 331112000609 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 331112000610 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 331112000611 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 331112000612 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 331112000613 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 331112000614 Surface antigen; Region: Bac_surface_Ag; pfam01103 331112000615 periplasmic chaperone; Provisional; Region: PRK10780 331112000616 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 331112000617 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 331112000618 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 331112000619 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 331112000620 trimer interface [polypeptide binding]; other site 331112000621 active site 331112000622 UDP-GlcNAc binding site [chemical binding]; other site 331112000623 lipid binding site [chemical binding]; lipid-binding site 331112000624 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 331112000625 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 331112000626 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 331112000627 active site 331112000628 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 331112000629 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 331112000630 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 331112000631 RNA/DNA hybrid binding site [nucleotide binding]; other site 331112000632 active site 331112000633 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 331112000634 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 331112000635 putative active site [active] 331112000636 putative PHP Thumb interface [polypeptide binding]; other site 331112000637 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 331112000638 generic binding surface II; other site 331112000639 generic binding surface I; other site 331112000640 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 331112000641 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 331112000642 lysine decarboxylase LdcC; Provisional; Region: PRK15399 331112000643 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 331112000644 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 331112000645 homodimer interface [polypeptide binding]; other site 331112000646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112000647 catalytic residue [active] 331112000648 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 331112000649 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 331112000650 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 331112000651 putative metal binding site [ion binding]; other site 331112000652 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 331112000653 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 331112000654 Ligand Binding Site [chemical binding]; other site 331112000655 TilS substrate binding domain; Region: TilS; pfam09179 331112000656 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 331112000657 Rho-binding antiterminator; Provisional; Region: PRK11625 331112000658 hypothetical protein; Provisional; Region: PRK04964 331112000659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 331112000660 hypothetical protein; Provisional; Region: PRK09256 331112000661 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 331112000662 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 331112000663 NlpE N-terminal domain; Region: NlpE; pfam04170 331112000664 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112000665 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112000666 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112000667 hypothetical protein; Provisional; Region: PRK11479 331112000668 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 331112000669 prolyl-tRNA synthetase; Provisional; Region: PRK09194 331112000670 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 331112000671 dimer interface [polypeptide binding]; other site 331112000672 motif 1; other site 331112000673 active site 331112000674 motif 2; other site 331112000675 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 331112000676 putative deacylase active site [active] 331112000677 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 331112000678 active site 331112000679 motif 3; other site 331112000680 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 331112000681 anticodon binding site; other site 331112000682 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 331112000683 homodimer interaction site [polypeptide binding]; other site 331112000684 cofactor binding site; other site 331112000685 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 331112000686 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 331112000687 lipoprotein, YaeC family; Region: TIGR00363 331112000688 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 331112000689 dimer interface [polypeptide binding]; other site 331112000690 conserved gate region; other site 331112000691 ABC-ATPase subunit interface; other site 331112000692 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 331112000693 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 331112000694 Walker A/P-loop; other site 331112000695 ATP binding site [chemical binding]; other site 331112000696 Q-loop/lid; other site 331112000697 ABC transporter signature motif; other site 331112000698 Walker B; other site 331112000699 D-loop; other site 331112000700 H-loop/switch region; other site 331112000701 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 331112000702 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 331112000703 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 331112000704 active site 331112000705 motif I; other site 331112000706 motif II; other site 331112000707 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 331112000708 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 331112000709 active site 331112000710 catalytic tetrad [active] 331112000711 Transcriptional regulator [Transcription]; Region: LysR; COG0583 331112000712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112000713 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 331112000714 putative effector binding pocket; other site 331112000715 dimerization interface [polypeptide binding]; other site 331112000716 hypothetical protein; Provisional; Region: PRK05421 331112000717 putative catalytic site [active] 331112000718 putative metal binding site [ion binding]; other site 331112000719 putative phosphate binding site [ion binding]; other site 331112000720 putative catalytic site [active] 331112000721 putative phosphate binding site [ion binding]; other site 331112000722 putative metal binding site [ion binding]; other site 331112000723 Methyltransferase domain; Region: Methyltransf_31; pfam13847 331112000724 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 331112000725 S-adenosylmethionine binding site [chemical binding]; other site 331112000726 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 331112000727 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 331112000728 N-acetyl-D-glucosamine binding site [chemical binding]; other site 331112000729 catalytic residue [active] 331112000730 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331112000731 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331112000732 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 331112000733 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 331112000734 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 331112000735 RNA/DNA hybrid binding site [nucleotide binding]; other site 331112000736 active site 331112000737 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 331112000738 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 331112000739 active site 331112000740 catalytic site [active] 331112000741 substrate binding site [chemical binding]; other site 331112000742 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 331112000743 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 331112000744 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 331112000745 ImpA domain protein; Region: DUF3702; pfam12486 331112000746 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 331112000747 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 331112000748 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 331112000749 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 331112000750 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 331112000751 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 331112000752 type VI secretion-associated protein, VC_A0118 family; Region: VI_minor_1; TIGR03360 331112000753 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 331112000754 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 331112000755 Walker A motif; other site 331112000756 ATP binding site [chemical binding]; other site 331112000757 Walker B motif; other site 331112000758 arginine finger; other site 331112000759 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 331112000760 Walker A motif; other site 331112000761 ATP binding site [chemical binding]; other site 331112000762 Walker B motif; other site 331112000763 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 331112000764 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 331112000765 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 331112000766 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 331112000767 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 331112000768 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 331112000769 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 331112000770 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 331112000771 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 331112000772 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 331112000773 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 331112000774 Protein of unknown function (DUF877); Region: DUF877; pfam05943 331112000775 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 331112000776 Protein of unknown function (DUF770); Region: DUF770; pfam05591 331112000777 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 331112000778 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 331112000779 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 331112000780 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 331112000781 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 331112000782 PAAR motif; Region: PAAR_motif; cl15808 331112000783 RHS Repeat; Region: RHS_repeat; pfam05593 331112000784 RHS Repeat; Region: RHS_repeat; pfam05593 331112000785 RHS Repeat; Region: RHS_repeat; pfam05593 331112000786 RHS Repeat; Region: RHS_repeat; cl11982 331112000787 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 331112000788 RHS Repeat; Region: RHS_repeat; pfam05593 331112000789 RHS Repeat; Region: RHS_repeat; cl11982 331112000790 RHS Repeat; Region: RHS_repeat; pfam05593 331112000791 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 331112000792 RHS protein; Region: RHS; pfam03527 331112000793 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 331112000794 C-N hydrolase family amidase; Provisional; Region: PRK10438 331112000795 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 331112000796 putative active site [active] 331112000797 catalytic triad [active] 331112000798 dimer interface [polypeptide binding]; other site 331112000799 multimer interface [polypeptide binding]; other site 331112000800 C-lysozyme inhibitor; Provisional; Region: PRK09993 331112000801 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 331112000802 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 331112000803 active site 331112000804 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 331112000805 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 331112000806 dimer interface [polypeptide binding]; other site 331112000807 active site 331112000808 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 331112000809 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 331112000810 putative active site [active] 331112000811 putative dimer interface [polypeptide binding]; other site 331112000812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 331112000813 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 331112000814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 331112000815 RelB antitoxin; Region: RelB; cl01171 331112000816 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 331112000817 NlpC/P60 family; Region: NLPC_P60; pfam00877 331112000818 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 331112000819 HicB family; Region: HicB; pfam05534 331112000820 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 331112000821 FHIPEP family; Region: FHIPEP; pfam00771 331112000822 hypothetical protein; Validated; Region: PRK06778 331112000823 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 331112000824 ligand binding site [chemical binding]; other site 331112000825 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 331112000826 active site 331112000827 DNA polymerase IV; Validated; Region: PRK02406 331112000828 DNA binding site [nucleotide binding] 331112000829 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 331112000830 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112000831 Coenzyme A binding pocket [chemical binding]; other site 331112000832 hypothetical protein; Reviewed; Region: PRK09588 331112000833 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 331112000834 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 331112000835 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 331112000836 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 331112000837 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 331112000838 metal binding site [ion binding]; metal-binding site 331112000839 dimer interface [polypeptide binding]; other site 331112000840 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331112000841 active site 331112000842 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 331112000843 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 331112000844 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 331112000845 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 331112000846 trimer interface [polypeptide binding]; other site 331112000847 eyelet of channel; other site 331112000848 gamma-glutamyl kinase; Provisional; Region: PRK05429 331112000849 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 331112000850 nucleotide binding site [chemical binding]; other site 331112000851 homotetrameric interface [polypeptide binding]; other site 331112000852 putative phosphate binding site [ion binding]; other site 331112000853 putative allosteric binding site; other site 331112000854 PUA domain; Region: PUA; pfam01472 331112000855 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 331112000856 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 331112000857 putative catalytic cysteine [active] 331112000858 integrase; Provisional; Region: int; PHA02601 331112000859 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 331112000860 Int/Topo IB signature motif; other site 331112000861 Protein of unknown function (DUF550); Region: DUF550; pfam04447 331112000862 Protein of unknown function (DUF551); Region: DUF551; pfam04448 331112000863 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 331112000864 Protein of unknown function (DUF2737); Region: DUF2737; pfam10930 331112000865 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 331112000866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112000867 Transposase; Region: HTH_Tnp_1; pfam01527 331112000868 putative transposase OrfB; Reviewed; Region: PHA02517 331112000869 HTH-like domain; Region: HTH_21; pfam13276 331112000870 Integrase core domain; Region: rve; pfam00665 331112000871 Integrase core domain; Region: rve_2; pfam13333 331112000872 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 331112000873 RecT family; Region: RecT; pfam03837 331112000874 Protein of unknown function (DUF2528); Region: DUF2528; pfam10800 331112000875 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 331112000876 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 331112000877 non-specific DNA binding site [nucleotide binding]; other site 331112000878 salt bridge; other site 331112000879 sequence-specific DNA binding site [nucleotide binding]; other site 331112000880 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 331112000881 Catalytic site [active] 331112000882 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 331112000883 Bacteriophage CII protein; Region: Phage_CII; pfam05269 331112000884 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 331112000885 phage replicative helicase, DnaB family, HK022 subfamily; Region: phage_DnaB; TIGR03600 331112000886 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 331112000887 Walker A motif; other site 331112000888 ATP binding site [chemical binding]; other site 331112000889 Walker B motif; other site 331112000890 NinB protein; Region: NinB; pfam05772 331112000891 NINE Protein; Region: NinE; pfam05322 331112000892 Protein of unknown function (DUF2591); Region: DUF2591; pfam10765 331112000893 NinF protein; Region: NinF; pfam05810 331112000894 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 331112000895 Endodeoxyribonuclease RusA; Region: RusA; cl01885 331112000896 Phage NinH protein; Region: Phage_NinH; pfam06322 331112000897 Antitermination protein; Region: Antiterm; pfam03589 331112000898 Antitermination protein; Region: Antiterm; pfam03589 331112000899 phage holin, lambda family; Region: holin_lambda; TIGR01594 331112000900 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 331112000901 N-acetyl-D-glucosamine binding site [chemical binding]; other site 331112000902 catalytic residue [active] 331112000903 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 331112000904 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 331112000905 ORF11CD3 domain; Region: ORF11CD3; pfam10549 331112000906 Protein of unknown function (DUF2560); Region: DUF2560; pfam10834 331112000907 Phage terminase large subunit; Region: Terminase_3; pfam04466 331112000908 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 331112000909 P22 tail accessory factor; Region: P22_Tail-4; pfam11650 331112000910 Phage stabilisation protein; Region: Phage_stabilise; pfam11134 331112000911 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331112000912 Protein of unknown function (DUF2824); Region: DUF2824; pfam11039 331112000913 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 331112000914 non-specific DNA binding site [nucleotide binding]; other site 331112000915 salt bridge; other site 331112000916 sequence-specific DNA binding site [nucleotide binding]; other site 331112000917 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 331112000918 Catalytic site [active] 331112000919 BRO family, N-terminal domain; Region: Bro-N; smart01040 331112000920 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 331112000921 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112000922 Transposase; Region: HTH_Tnp_1; pfam01527 331112000923 putative transposase OrfB; Reviewed; Region: PHA02517 331112000924 HTH-like domain; Region: HTH_21; pfam13276 331112000925 Integrase core domain; Region: rve; pfam00665 331112000926 Integrase core domain; Region: rve_2; pfam13333 331112000927 Head binding; Region: Head_binding; pfam09008 331112000928 Right handed beta helix region; Region: Beta_helix; pfam13229 331112000929 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 331112000930 integrase; Provisional; Region: PRK09692 331112000931 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 331112000932 active site 331112000933 Int/Topo IB signature motif; other site 331112000934 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 331112000935 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 331112000936 S-adenosylmethionine binding site [chemical binding]; other site 331112000937 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 331112000938 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 331112000939 Protein of unknown function DUF91; Region: DUF91; cl00709 331112000940 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 331112000941 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 331112000942 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331112000943 Methyltransferase domain; Region: Methyltransf_26; pfam13659 331112000944 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 331112000945 Methyltransferase domain; Region: Methyltransf_26; pfam13659 331112000946 TIGR02687 family protein; Region: TIGR02687 331112000947 PglZ domain; Region: PglZ; pfam08665 331112000948 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 331112000949 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 331112000950 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 331112000951 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 331112000952 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 331112000953 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; cl00342 331112000954 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 331112000955 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112000956 Transposase; Region: HTH_Tnp_1; pfam01527 331112000957 putative transposase OrfB; Reviewed; Region: PHA02517 331112000958 HTH-like domain; Region: HTH_21; pfam13276 331112000959 Integrase core domain; Region: rve; pfam00665 331112000960 Integrase core domain; Region: rve_2; pfam13333 331112000961 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 331112000962 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 331112000963 DNA binding residues [nucleotide binding] 331112000964 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 331112000965 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 331112000966 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 331112000967 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 331112000968 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 331112000969 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 331112000970 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 331112000971 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 331112000972 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112000973 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 331112000974 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 331112000975 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 331112000976 active site 331112000977 catalytic tetrad [active] 331112000978 Predicted membrane protein [Function unknown]; Region: COG3059 331112000979 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 331112000980 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 331112000981 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112000982 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 331112000983 Cupin; Region: Cupin_6; pfam12852 331112000984 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 331112000985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112000986 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 331112000987 Cysteine-rich domain; Region: CCG; pfam02754 331112000988 Cysteine-rich domain; Region: CCG; pfam02754 331112000989 iron-sulfur cluster-binding protein; Region: TIGR00273 331112000990 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 331112000991 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 331112000992 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 331112000993 Uncharacterized conserved protein [Function unknown]; Region: COG1556 331112000994 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 331112000995 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 331112000996 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 331112000997 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331112000998 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 331112000999 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 331112001000 DNA binding residues [nucleotide binding] 331112001001 dimerization interface [polypeptide binding]; other site 331112001002 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 331112001003 active site 331112001004 DNA binding site [nucleotide binding] 331112001005 Int/Topo IB signature motif; other site 331112001006 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112001007 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112001008 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112001009 choline dehydrogenase; Validated; Region: PRK02106 331112001010 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 331112001011 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 331112001012 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 331112001013 tetrameric interface [polypeptide binding]; other site 331112001014 NAD binding site [chemical binding]; other site 331112001015 catalytic residues [active] 331112001016 transcriptional regulator BetI; Validated; Region: PRK00767 331112001017 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112001018 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 331112001019 choline transport protein BetT; Provisional; Region: PRK09928 331112001020 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 331112001021 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 331112001022 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 331112001023 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331112001024 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 331112001025 DNA binding residues [nucleotide binding] 331112001026 dimerization interface [polypeptide binding]; other site 331112001027 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 331112001028 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 331112001029 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112001030 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 331112001031 dimerization interface [polypeptide binding]; other site 331112001032 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 331112001033 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 331112001034 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 331112001035 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 331112001036 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 331112001037 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 331112001038 CoA binding domain; Region: CoA_binding; pfam02629 331112001039 CoA-ligase; Region: Ligase_CoA; pfam00549 331112001040 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 331112001041 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 331112001042 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 331112001043 putative substrate binding site [chemical binding]; other site 331112001044 nucleotide binding site [chemical binding]; other site 331112001045 nucleotide binding site [chemical binding]; other site 331112001046 homodimer interface [polypeptide binding]; other site 331112001047 putative deaminase; Validated; Region: PRK06846 331112001048 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 331112001049 active site 331112001050 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 331112001051 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 331112001052 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 331112001053 ligand binding site [chemical binding]; other site 331112001054 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 331112001055 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 331112001056 Walker A/P-loop; other site 331112001057 ATP binding site [chemical binding]; other site 331112001058 Q-loop/lid; other site 331112001059 ABC transporter signature motif; other site 331112001060 Walker B; other site 331112001061 D-loop; other site 331112001062 H-loop/switch region; other site 331112001063 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 331112001064 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 331112001065 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112001066 TM-ABC transporter signature motif; other site 331112001067 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112001068 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 331112001069 TM-ABC transporter signature motif; other site 331112001070 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 331112001071 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 331112001072 putative NAD(P) binding site [chemical binding]; other site 331112001073 putative substrate binding site [chemical binding]; other site 331112001074 catalytic Zn binding site [ion binding]; other site 331112001075 structural Zn binding site [ion binding]; other site 331112001076 dimer interface [polypeptide binding]; other site 331112001077 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 331112001078 hypothetical protein; Provisional; Region: PRK09929 331112001079 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 331112001080 Propionate catabolism activator; Region: PrpR_N; pfam06506 331112001081 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 331112001082 Walker A motif; other site 331112001083 ATP binding site [chemical binding]; other site 331112001084 Walker B motif; other site 331112001085 arginine finger; other site 331112001086 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 331112001087 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 331112001088 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 331112001089 tetramer interface [polypeptide binding]; other site 331112001090 active site 331112001091 Mg2+/Mn2+ binding site [ion binding]; other site 331112001092 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 331112001093 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 331112001094 dimer interface [polypeptide binding]; other site 331112001095 active site 331112001096 citrylCoA binding site [chemical binding]; other site 331112001097 oxalacetate/citrate binding site [chemical binding]; other site 331112001098 coenzyme A binding site [chemical binding]; other site 331112001099 catalytic triad [active] 331112001100 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 331112001101 2-methylcitrate dehydratase; Region: prpD; TIGR02330 331112001102 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 331112001103 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 331112001104 acyl-activating enzyme (AAE) consensus motif; other site 331112001105 putative AMP binding site [chemical binding]; other site 331112001106 putative active site [active] 331112001107 putative CoA binding site [chemical binding]; other site 331112001108 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 331112001109 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 331112001110 Na binding site [ion binding]; other site 331112001111 putative substrate binding site [chemical binding]; other site 331112001112 cytosine deaminase; Provisional; Region: PRK09230 331112001113 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 331112001114 active site 331112001115 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 331112001116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112001117 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 331112001118 dimerization interface [polypeptide binding]; other site 331112001119 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 331112001120 active site clefts [active] 331112001121 zinc binding site [ion binding]; other site 331112001122 dimer interface [polypeptide binding]; other site 331112001123 Cyanate lyase [Inorganic ion transport and metabolism]; Region: CynS; COG1513 331112001124 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 331112001125 oligomer interface [polypeptide binding]; other site 331112001126 active site 331112001127 putative cyanate transporter; Provisional; Region: cynX; PRK09705 331112001128 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112001129 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 331112001130 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112001131 putative substrate translocation pore; other site 331112001132 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 331112001133 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 331112001134 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 331112001135 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 331112001136 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 331112001137 lac repressor; Reviewed; Region: lacI; PRK09526 331112001138 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112001139 DNA binding site [nucleotide binding] 331112001140 domain linker motif; other site 331112001141 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 331112001142 ligand binding site [chemical binding]; other site 331112001143 dimerization interface (open form) [polypeptide binding]; other site 331112001144 dimerization interface (closed form) [polypeptide binding]; other site 331112001145 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 331112001146 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 331112001147 Bacterial transcriptional regulator; Region: IclR; pfam01614 331112001148 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 331112001149 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 331112001150 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 331112001151 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 331112001152 putative active site [active] 331112001153 Fe(II) binding site [ion binding]; other site 331112001154 putative dimer interface [polypeptide binding]; other site 331112001155 putative tetramer interface [polypeptide binding]; other site 331112001156 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 331112001157 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 331112001158 nucleophilic elbow; other site 331112001159 catalytic triad; other site 331112001160 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 331112001161 acetaldehyde dehydrogenase; Validated; Region: PRK08300 331112001162 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 331112001163 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 331112001164 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 331112001165 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 331112001166 active site 331112001167 catalytic residues [active] 331112001168 metal binding site [ion binding]; metal-binding site 331112001169 DmpG-like communication domain; Region: DmpG_comm; pfam07836 331112001170 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 331112001171 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112001172 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112001173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 331112001174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112001175 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112001176 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112001177 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 331112001178 S-formylglutathione hydrolase; Region: PLN02442 331112001179 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 331112001180 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 331112001181 substrate binding site [chemical binding]; other site 331112001182 catalytic Zn binding site [ion binding]; other site 331112001183 NAD binding site [chemical binding]; other site 331112001184 structural Zn binding site [ion binding]; other site 331112001185 dimer interface [polypeptide binding]; other site 331112001186 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 331112001187 putative metal binding site [ion binding]; other site 331112001188 putative homodimer interface [polypeptide binding]; other site 331112001189 putative homotetramer interface [polypeptide binding]; other site 331112001190 putative homodimer-homodimer interface [polypeptide binding]; other site 331112001191 putative allosteric switch controlling residues; other site 331112001192 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 331112001193 putative trimer interface [polypeptide binding]; other site 331112001194 putative CoA binding site [chemical binding]; other site 331112001195 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 331112001196 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 331112001197 DXD motif; other site 331112001198 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 331112001199 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 331112001200 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 331112001201 substrate binding pocket [chemical binding]; other site 331112001202 membrane-bound complex binding site; other site 331112001203 hinge residues; other site 331112001204 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 331112001205 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 331112001206 Walker A/P-loop; other site 331112001207 ATP binding site [chemical binding]; other site 331112001208 Q-loop/lid; other site 331112001209 ABC transporter signature motif; other site 331112001210 Walker B; other site 331112001211 D-loop; other site 331112001212 H-loop/switch region; other site 331112001213 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 331112001214 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 331112001215 dimer interface [polypeptide binding]; other site 331112001216 conserved gate region; other site 331112001217 putative PBP binding loops; other site 331112001218 ABC-ATPase subunit interface; other site 331112001219 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 331112001220 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 331112001221 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 331112001222 dimer interface [polypeptide binding]; other site 331112001223 active site 331112001224 Schiff base residues; other site 331112001225 putative transposase OrfB; Reviewed; Region: PHA02517 331112001226 HTH-like domain; Region: HTH_21; pfam13276 331112001227 Integrase core domain; Region: rve; pfam00665 331112001228 Integrase core domain; Region: rve_2; pfam13333 331112001229 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112001230 Transposase; Region: HTH_Tnp_1; pfam01527 331112001231 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 331112001232 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 331112001233 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331112001234 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 331112001235 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 331112001236 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 331112001237 microcin B17 transporter; Reviewed; Region: PRK11098 331112001238 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 331112001239 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 331112001240 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 331112001241 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 331112001242 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 331112001243 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 331112001244 anti-RssB factor; Provisional; Region: PRK10244 331112001245 alkaline phosphatase; Provisional; Region: PRK10518 331112001246 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 331112001247 dimer interface [polypeptide binding]; other site 331112001248 active site 331112001249 hypothetical protein; Provisional; Region: PRK11505 331112001250 psiF repeat; Region: PsiF_repeat; pfam07769 331112001251 psiF repeat; Region: PsiF_repeat; pfam07769 331112001252 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 331112001253 MASE2 domain; Region: MASE2; pfam05230 331112001254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112001255 metal binding site [ion binding]; metal-binding site 331112001256 active site 331112001257 I-site; other site 331112001258 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 331112001259 pyrroline-5-carboxylate reductase; Region: PLN02688 331112001260 hypothetical protein; Validated; Region: PRK00124 331112001261 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 331112001262 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 331112001263 ADP binding site [chemical binding]; other site 331112001264 magnesium binding site [ion binding]; other site 331112001265 putative shikimate binding site; other site 331112001266 hypothetical protein; Provisional; Region: PRK10380 331112001267 hypothetical protein; Provisional; Region: PRK10481 331112001268 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 331112001269 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 331112001270 fructokinase; Reviewed; Region: PRK09557 331112001271 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 331112001272 nucleotide binding site [chemical binding]; other site 331112001273 MFS transport protein AraJ; Provisional; Region: PRK10091 331112001274 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112001275 putative substrate translocation pore; other site 331112001276 exonuclease subunit SbcC; Provisional; Region: PRK10246 331112001277 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112001278 Walker A/P-loop; other site 331112001279 ATP binding site [chemical binding]; other site 331112001280 Q-loop/lid; other site 331112001281 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112001282 ABC transporter signature motif; other site 331112001283 Walker B; other site 331112001284 D-loop; other site 331112001285 H-loop/switch region; other site 331112001286 exonuclease subunit SbcD; Provisional; Region: PRK10966 331112001287 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 331112001288 active site 331112001289 metal binding site [ion binding]; metal-binding site 331112001290 DNA binding site [nucleotide binding] 331112001291 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 331112001292 transcriptional regulator PhoB; Provisional; Region: PRK10161 331112001293 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 331112001294 active site 331112001295 phosphorylation site [posttranslational modification] 331112001296 intermolecular recognition site; other site 331112001297 dimerization interface [polypeptide binding]; other site 331112001298 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 331112001299 DNA binding site [nucleotide binding] 331112001300 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 331112001301 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 331112001302 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 331112001303 putative active site [active] 331112001304 heme pocket [chemical binding]; other site 331112001305 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 331112001306 dimer interface [polypeptide binding]; other site 331112001307 phosphorylation site [posttranslational modification] 331112001308 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 331112001309 ATP binding site [chemical binding]; other site 331112001310 Mg2+ binding site [ion binding]; other site 331112001311 G-X-G motif; other site 331112001312 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 331112001313 putative proline-specific permease; Provisional; Region: proY; PRK10580 331112001314 Spore germination protein; Region: Spore_permease; cl17796 331112001315 maltodextrin glucosidase; Provisional; Region: PRK10785 331112001316 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 331112001317 homodimer interface [polypeptide binding]; other site 331112001318 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 331112001319 active site 331112001320 homodimer interface [polypeptide binding]; other site 331112001321 catalytic site [active] 331112001322 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 331112001323 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 331112001324 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 331112001325 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 331112001326 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 331112001327 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 331112001328 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 331112001329 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 331112001330 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 331112001331 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 331112001332 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 331112001333 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 331112001334 Protein export membrane protein; Region: SecD_SecF; pfam02355 331112001335 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 331112001336 active site 331112001337 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 331112001338 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 331112001339 hypothetical protein; Provisional; Region: PRK11530 331112001340 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 331112001341 ATP cone domain; Region: ATP-cone; pfam03477 331112001342 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 331112001343 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 331112001344 catalytic motif [active] 331112001345 Zn binding site [ion binding]; other site 331112001346 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 331112001347 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 331112001348 homopentamer interface [polypeptide binding]; other site 331112001349 active site 331112001350 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 331112001351 putative RNA binding site [nucleotide binding]; other site 331112001352 thiamine monophosphate kinase; Provisional; Region: PRK05731 331112001353 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 331112001354 ATP binding site [chemical binding]; other site 331112001355 dimerization interface [polypeptide binding]; other site 331112001356 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 331112001357 tetramer interfaces [polypeptide binding]; other site 331112001358 binuclear metal-binding site [ion binding]; other site 331112001359 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 331112001360 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 331112001361 active site 331112001362 catalytic tetrad [active] 331112001363 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 331112001364 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 331112001365 TPP-binding site; other site 331112001366 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 331112001367 PYR/PP interface [polypeptide binding]; other site 331112001368 dimer interface [polypeptide binding]; other site 331112001369 TPP binding site [chemical binding]; other site 331112001370 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331112001371 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 331112001372 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 331112001373 substrate binding pocket [chemical binding]; other site 331112001374 chain length determination region; other site 331112001375 substrate-Mg2+ binding site; other site 331112001376 catalytic residues [active] 331112001377 aspartate-rich region 1; other site 331112001378 active site lid residues [active] 331112001379 aspartate-rich region 2; other site 331112001380 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 331112001381 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 331112001382 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 331112001383 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 331112001384 Ligand Binding Site [chemical binding]; other site 331112001385 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 331112001386 active site residue [active] 331112001387 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 331112001388 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 331112001389 conserved cys residue [active] 331112001390 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 331112001391 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 331112001392 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 331112001393 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 331112001394 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 331112001395 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112001396 Major Facilitator Superfamily; Region: MFS_1; pfam07690 331112001397 putative substrate translocation pore; other site 331112001398 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 331112001399 Sel1 repeat; Region: Sel1; pfam08238 331112001400 Sel1-like repeats; Region: SEL1; smart00671 331112001401 Sel1-like repeats; Region: SEL1; smart00671 331112001402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 331112001403 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 331112001404 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 331112001405 UbiA prenyltransferase family; Region: UbiA; pfam01040 331112001406 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 331112001407 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 331112001408 Subunit I/III interface [polypeptide binding]; other site 331112001409 Subunit III/IV interface [polypeptide binding]; other site 331112001410 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 331112001411 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 331112001412 D-pathway; other site 331112001413 Putative ubiquinol binding site [chemical binding]; other site 331112001414 Low-spin heme (heme b) binding site [chemical binding]; other site 331112001415 Putative water exit pathway; other site 331112001416 Binuclear center (heme o3/CuB) [ion binding]; other site 331112001417 K-pathway; other site 331112001418 Putative proton exit pathway; other site 331112001419 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 331112001420 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 331112001421 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 331112001422 muropeptide transporter; Reviewed; Region: ampG; PRK11902 331112001423 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112001424 putative substrate translocation pore; other site 331112001425 hypothetical protein; Provisional; Region: PRK11627 331112001426 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 331112001427 transcriptional regulator BolA; Provisional; Region: PRK11628 331112001428 trigger factor; Provisional; Region: tig; PRK01490 331112001429 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 331112001430 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 331112001431 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 331112001432 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 331112001433 oligomer interface [polypeptide binding]; other site 331112001434 active site residues [active] 331112001435 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 331112001436 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 331112001437 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 331112001438 Walker A motif; other site 331112001439 ATP binding site [chemical binding]; other site 331112001440 Walker B motif; other site 331112001441 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 331112001442 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 331112001443 Found in ATP-dependent protease La (LON); Region: LON; smart00464 331112001444 Found in ATP-dependent protease La (LON); Region: LON; smart00464 331112001445 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 331112001446 Walker A motif; other site 331112001447 ATP binding site [chemical binding]; other site 331112001448 Walker B motif; other site 331112001449 arginine finger; other site 331112001450 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 331112001451 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 331112001452 IHF dimer interface [polypeptide binding]; other site 331112001453 IHF - DNA interface [nucleotide binding]; other site 331112001454 periplasmic folding chaperone; Provisional; Region: PRK10788 331112001455 SurA N-terminal domain; Region: SurA_N_3; cl07813 331112001456 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 331112001457 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 331112001458 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 331112001459 active site 331112001460 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 331112001461 Ligand Binding Site [chemical binding]; other site 331112001462 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 331112001463 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 331112001464 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 331112001465 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 331112001466 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 331112001467 active site 331112001468 motif I; other site 331112001469 motif II; other site 331112001470 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 331112001471 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 331112001472 putative DNA binding site [nucleotide binding]; other site 331112001473 putative Zn2+ binding site [ion binding]; other site 331112001474 AsnC family; Region: AsnC_trans_reg; pfam01037 331112001475 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 331112001476 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 331112001477 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112001478 Walker A/P-loop; other site 331112001479 ATP binding site [chemical binding]; other site 331112001480 Q-loop/lid; other site 331112001481 ABC transporter signature motif; other site 331112001482 Walker B; other site 331112001483 D-loop; other site 331112001484 H-loop/switch region; other site 331112001485 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 331112001486 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 331112001487 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 331112001488 Walker A/P-loop; other site 331112001489 ATP binding site [chemical binding]; other site 331112001490 Q-loop/lid; other site 331112001491 ABC transporter signature motif; other site 331112001492 Walker B; other site 331112001493 D-loop; other site 331112001494 H-loop/switch region; other site 331112001495 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 331112001496 Nitrogen regulatory protein P-II; Region: P-II; smart00938 331112001497 ammonium transporter; Provisional; Region: PRK10666 331112001498 acyl-CoA thioesterase II; Provisional; Region: PRK10526 331112001499 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 331112001500 active site 331112001501 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 331112001502 catalytic triad [active] 331112001503 dimer interface [polypeptide binding]; other site 331112001504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 331112001505 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 331112001506 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 331112001507 DNA binding site [nucleotide binding] 331112001508 active site 331112001509 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 331112001510 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 331112001511 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 331112001512 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 331112001513 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 331112001514 maltose O-acetyltransferase; Provisional; Region: PRK10092 331112001515 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 331112001516 active site 331112001517 substrate binding site [chemical binding]; other site 331112001518 trimer interface [polypeptide binding]; other site 331112001519 CoA binding site [chemical binding]; other site 331112001520 gene expression modulator; Provisional; Region: PRK10945 331112001521 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 331112001522 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 331112001523 Protein export membrane protein; Region: SecD_SecF; cl14618 331112001524 Protein export membrane protein; Region: SecD_SecF; cl14618 331112001525 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 331112001526 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112001527 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112001528 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 331112001529 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112001530 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 331112001531 hypothetical protein; Provisional; Region: PRK11281 331112001532 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 331112001533 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 331112001534 Mechanosensitive ion channel; Region: MS_channel; pfam00924 331112001535 hypothetical protein; Provisional; Region: PRK11038 331112001536 primosomal replication protein N''; Provisional; Region: PRK10093 331112001537 hypothetical protein; Provisional; Region: PRK10527 331112001538 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331112001539 active site 331112001540 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 331112001541 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 331112001542 Walker A motif; other site 331112001543 ATP binding site [chemical binding]; other site 331112001544 Walker B motif; other site 331112001545 DNA polymerase III subunit delta'; Validated; Region: PRK08485 331112001546 arginine finger; other site 331112001547 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 331112001548 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 331112001549 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 331112001550 hypothetical protein; Validated; Region: PRK00153 331112001551 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 331112001552 RecR protein; Region: RecR; pfam02132 331112001553 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 331112001554 putative active site [active] 331112001555 putative metal-binding site [ion binding]; other site 331112001556 tetramer interface [polypeptide binding]; other site 331112001557 heat shock protein 90; Provisional; Region: PRK05218 331112001558 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 331112001559 ATP binding site [chemical binding]; other site 331112001560 Mg2+ binding site [ion binding]; other site 331112001561 G-X-G motif; other site 331112001562 adenylate kinase; Reviewed; Region: adk; PRK00279 331112001563 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 331112001564 AMP-binding site [chemical binding]; other site 331112001565 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 331112001566 ferrochelatase; Region: hemH; TIGR00109 331112001567 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 331112001568 C-terminal domain interface [polypeptide binding]; other site 331112001569 active site 331112001570 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 331112001571 active site 331112001572 N-terminal domain interface [polypeptide binding]; other site 331112001573 acetyl esterase; Provisional; Region: PRK10162 331112001574 inosine/guanosine kinase; Provisional; Region: PRK15074 331112001575 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 331112001576 putative cation:proton antiport protein; Provisional; Region: PRK10669 331112001577 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 331112001578 TrkA-N domain; Region: TrkA_N; pfam02254 331112001579 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112001580 Major Facilitator Superfamily; Region: MFS_1; pfam07690 331112001581 putative substrate translocation pore; other site 331112001582 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 331112001583 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 331112001584 active site 331112001585 metal binding site [ion binding]; metal-binding site 331112001586 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 331112001587 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 331112001588 putative deacylase active site [active] 331112001589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 331112001590 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 331112001591 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 331112001592 non-specific DNA binding site [nucleotide binding]; other site 331112001593 salt bridge; other site 331112001594 sequence-specific DNA binding site [nucleotide binding]; other site 331112001595 copper exporting ATPase; Provisional; Region: copA; PRK10671 331112001596 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 331112001597 metal-binding site [ion binding] 331112001598 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 331112001599 metal-binding site [ion binding] 331112001600 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 331112001601 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 331112001602 motif II; other site 331112001603 glutaminase; Reviewed; Region: PRK12356 331112001604 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 331112001605 amino acid transporter; Region: 2A0306; TIGR00909 331112001606 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 331112001607 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 331112001608 DNA binding residues [nucleotide binding] 331112001609 dimer interface [polypeptide binding]; other site 331112001610 copper binding site [ion binding]; other site 331112001611 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 331112001612 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 331112001613 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 331112001614 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 331112001615 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112001616 Walker A/P-loop; other site 331112001617 ATP binding site [chemical binding]; other site 331112001618 Q-loop/lid; other site 331112001619 ABC transporter signature motif; other site 331112001620 Walker B; other site 331112001621 D-loop; other site 331112001622 H-loop/switch region; other site 331112001623 Uncharacterized protein family (UPF0014); Region: UPF0014; pfam03649 331112001624 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 331112001625 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 331112001626 oxidoreductase; Provisional; Region: PRK08017 331112001627 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 331112001628 NADP binding site [chemical binding]; other site 331112001629 active site 331112001630 steroid binding site; other site 331112001631 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 331112001632 active site 331112001633 catalytic triad [active] 331112001634 oxyanion hole [active] 331112001635 switch loop; other site 331112001636 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 331112001637 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 331112001638 Walker A/P-loop; other site 331112001639 ATP binding site [chemical binding]; other site 331112001640 Q-loop/lid; other site 331112001641 ABC transporter signature motif; other site 331112001642 Walker B; other site 331112001643 D-loop; other site 331112001644 H-loop/switch region; other site 331112001645 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 331112001646 FtsX-like permease family; Region: FtsX; pfam02687 331112001647 FtsX-like permease family; Region: FtsX; pfam02687 331112001648 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 331112001649 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 331112001650 active site residue [active] 331112001651 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 331112001652 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112001653 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 331112001654 dimerization interface [polypeptide binding]; other site 331112001655 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 331112001656 ureidoglycolate hydrolase; Provisional; Region: PRK03606 331112001657 DNA-binding transcriptional repressor AllR; Provisional; Region: PRK10163 331112001658 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 331112001659 Bacterial transcriptional regulator; Region: IclR; pfam01614 331112001660 glyoxylate carboligase; Provisional; Region: PRK11269 331112001661 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 331112001662 PYR/PP interface [polypeptide binding]; other site 331112001663 dimer interface [polypeptide binding]; other site 331112001664 TPP binding site [chemical binding]; other site 331112001665 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 331112001666 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 331112001667 TPP-binding site [chemical binding]; other site 331112001668 hydroxypyruvate isomerase; Provisional; Region: PRK09997 331112001669 tartronate semialdehyde reductase; Provisional; Region: PRK15059 331112001670 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 331112001671 nucleobase-cation-symport-1 (NCS1) transporters; solute-binding domain; Region: SLC-NCS1sbd; cd10323 331112001672 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 331112001673 Na binding site [ion binding]; other site 331112001674 substrate binding site [chemical binding]; other site 331112001675 allantoinase; Provisional; Region: PRK08044 331112001676 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 331112001677 active site 331112001678 putative uracil/xanthine transporter; Provisional; Region: PRK11412 331112001679 glycerate kinase II; Provisional; Region: PRK09932 331112001680 Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]; Region: GlxB; COG3257 331112001681 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 331112001682 Cupin domain; Region: Cupin_2; cl17218 331112001683 allantoate amidohydrolase; Region: AllC; TIGR03176 331112001684 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 331112001685 active site 331112001686 metal binding site [ion binding]; metal-binding site 331112001687 dimer interface [polypeptide binding]; other site 331112001688 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 331112001689 membrane protein FdrA; Validated; Region: PRK06091 331112001690 CoA binding domain; Region: CoA_binding; pfam02629 331112001691 CoA-ligase; Region: Ligase_CoA; pfam00549 331112001692 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 331112001693 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 331112001694 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 331112001695 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 331112001696 putative substrate binding site [chemical binding]; other site 331112001697 nucleotide binding site [chemical binding]; other site 331112001698 nucleotide binding site [chemical binding]; other site 331112001699 homodimer interface [polypeptide binding]; other site 331112001700 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 331112001701 ATP-grasp domain; Region: ATP-grasp; pfam02222 331112001702 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 331112001703 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 331112001704 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 331112001705 putative active site [active] 331112001706 putative metal binding site [ion binding]; other site 331112001707 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 331112001708 substrate binding site [chemical binding]; other site 331112001709 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 331112001710 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 331112001711 active site 331112001712 HIGH motif; other site 331112001713 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 331112001714 KMSKS motif; other site 331112001715 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 331112001716 tRNA binding surface [nucleotide binding]; other site 331112001717 anticodon binding site; other site 331112001718 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 331112001719 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 331112001720 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 331112001721 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 331112001722 homodimer interface [polypeptide binding]; other site 331112001723 NADP binding site [chemical binding]; other site 331112001724 substrate binding site [chemical binding]; other site 331112001725 type-1 fimbrial protein subunit A; Provisional; Region: PRK15194 331112001726 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 331112001727 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 331112001728 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 331112001729 outer membrane usher protein FimD; Provisional; Region: PRK15198 331112001730 PapC N-terminal domain; Region: PapC_N; pfam13954 331112001731 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 331112001732 PapC C-terminal domain; Region: PapC_C; pfam13953 331112001733 fimbrial-like adhesin; Provisional; Region: fimH; PRK15199 331112001734 fimbrial-like adhesin protein SfmF; Provisional; Region: PRK09934 331112001735 transcriptional regulator FimZ; Provisional; Region: PRK09935 331112001736 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 331112001737 active site 331112001738 phosphorylation site [posttranslational modification] 331112001739 intermolecular recognition site; other site 331112001740 dimerization interface [polypeptide binding]; other site 331112001741 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 331112001742 DNA binding residues [nucleotide binding] 331112001743 dimerization interface [polypeptide binding]; other site 331112001744 Uncharacterized conserved protein [Function unknown]; Region: COG5435 331112001745 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 331112001746 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 331112001747 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 331112001748 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 331112001749 sensor kinase CusS; Provisional; Region: PRK09835 331112001750 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 331112001751 dimerization interface [polypeptide binding]; other site 331112001752 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 331112001753 dimer interface [polypeptide binding]; other site 331112001754 phosphorylation site [posttranslational modification] 331112001755 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 331112001756 ATP binding site [chemical binding]; other site 331112001757 Mg2+ binding site [ion binding]; other site 331112001758 G-X-G motif; other site 331112001759 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 331112001760 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 331112001761 active site 331112001762 phosphorylation site [posttranslational modification] 331112001763 intermolecular recognition site; other site 331112001764 dimerization interface [polypeptide binding]; other site 331112001765 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 331112001766 DNA binding site [nucleotide binding] 331112001767 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 331112001768 periplasmic copper-binding protein; Provisional; Region: PRK09838 331112001769 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 331112001770 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112001771 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 331112001772 phenylalanine transporter; Provisional; Region: PRK10249 331112001773 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 331112001774 Mechanosensitive ion channel; Region: MS_channel; pfam00924 331112001775 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 331112001776 dimer interface [polypeptide binding]; other site 331112001777 FMN binding site [chemical binding]; other site 331112001778 hypothetical protein; Provisional; Region: PRK10250 331112001779 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 331112001780 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 331112001781 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 331112001782 Hok/gef family; Region: HOK_GEF; pfam01848 331112001783 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 331112001784 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 331112001785 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 331112001786 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 331112001787 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 331112001788 outer membrane receptor FepA; Provisional; Region: PRK13524 331112001789 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 331112001790 N-terminal plug; other site 331112001791 ligand-binding site [chemical binding]; other site 331112001792 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 331112001793 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 331112001794 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 331112001795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 331112001796 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 331112001797 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 331112001798 acyl-activating enzyme (AAE) consensus motif; other site 331112001799 AMP binding site [chemical binding]; other site 331112001800 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 331112001801 LPS O-antigen length regulator; Provisional; Region: PRK10381 331112001802 Chain length determinant protein; Region: Wzz; pfam02706 331112001803 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 331112001804 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 331112001805 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 331112001806 Walker A/P-loop; other site 331112001807 ATP binding site [chemical binding]; other site 331112001808 Q-loop/lid; other site 331112001809 ABC transporter signature motif; other site 331112001810 Walker B; other site 331112001811 D-loop; other site 331112001812 H-loop/switch region; other site 331112001813 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 331112001814 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 331112001815 ABC-ATPase subunit interface; other site 331112001816 dimer interface [polypeptide binding]; other site 331112001817 putative PBP binding regions; other site 331112001818 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 331112001819 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 331112001820 ABC-ATPase subunit interface; other site 331112001821 dimer interface [polypeptide binding]; other site 331112001822 putative PBP binding regions; other site 331112001823 enterobactin exporter EntS; Provisional; Region: PRK10489 331112001824 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112001825 putative substrate translocation pore; other site 331112001826 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 331112001827 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 331112001828 siderophore binding site; other site 331112001829 isochorismate synthase EntC; Provisional; Region: PRK15016 331112001830 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 331112001831 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 331112001832 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 331112001833 acyl-activating enzyme (AAE) consensus motif; other site 331112001834 active site 331112001835 AMP binding site [chemical binding]; other site 331112001836 substrate binding site [chemical binding]; other site 331112001837 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 331112001838 hydrophobic substrate binding pocket; other site 331112001839 Isochorismatase family; Region: Isochorismatase; pfam00857 331112001840 active site 331112001841 conserved cis-peptide bond; other site 331112001842 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 331112001843 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 331112001844 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 331112001845 putative NAD(P) binding site [chemical binding]; other site 331112001846 active site 331112001847 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 331112001848 CoenzymeA binding site [chemical binding]; other site 331112001849 subunit interaction site [polypeptide binding]; other site 331112001850 PHB binding site; other site 331112001851 carbon starvation protein A; Provisional; Region: PRK15015 331112001852 Carbon starvation protein CstA; Region: CstA; pfam02554 331112001853 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 331112001854 Uncharacterized small protein [Function unknown]; Region: COG2879 331112001855 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 331112001856 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 331112001857 putative active site [active] 331112001858 metal binding site [ion binding]; metal-binding site 331112001859 methionine aminotransferase; Validated; Region: PRK09082 331112001860 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 331112001861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112001862 homodimer interface [polypeptide binding]; other site 331112001863 catalytic residue [active] 331112001864 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 331112001865 ParB-like nuclease domain; Region: ParBc; pfam02195 331112001866 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 331112001867 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 331112001868 Active Sites [active] 331112001869 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 331112001870 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 331112001871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112001872 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 331112001873 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 331112001874 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 331112001875 dimerization domain [polypeptide binding]; other site 331112001876 dimer interface [polypeptide binding]; other site 331112001877 catalytic residues [active] 331112001878 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 331112001879 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 331112001880 dimer interface [polypeptide binding]; other site 331112001881 decamer (pentamer of dimers) interface [polypeptide binding]; other site 331112001882 catalytic triad [active] 331112001883 peroxidatic and resolving cysteines [active] 331112001884 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 331112001885 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 331112001886 catalytic residue [active] 331112001887 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 331112001888 catalytic residues [active] 331112001889 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 331112001890 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112001891 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 331112001892 Ligand Binding Site [chemical binding]; other site 331112001893 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 331112001894 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 331112001895 NAD binding site [chemical binding]; other site 331112001896 catalytic Zn binding site [ion binding]; other site 331112001897 structural Zn binding site [ion binding]; other site 331112001898 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 331112001899 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 331112001900 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 331112001901 B1 nucleotide binding pocket [chemical binding]; other site 331112001902 B2 nucleotide binding pocket [chemical binding]; other site 331112001903 CAS motifs; other site 331112001904 active site 331112001905 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 331112001906 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 331112001907 transmembrane helices; other site 331112001908 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 331112001909 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 331112001910 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 331112001911 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 331112001912 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 331112001913 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 331112001914 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 331112001915 putative active site [active] 331112001916 (T/H)XGH motif; other site 331112001917 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 331112001918 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 331112001919 putative active site [active] 331112001920 heme pocket [chemical binding]; other site 331112001921 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 331112001922 ATP binding site [chemical binding]; other site 331112001923 Mg2+ binding site [ion binding]; other site 331112001924 G-X-G motif; other site 331112001925 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 331112001926 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 331112001927 active site 331112001928 phosphorylation site [posttranslational modification] 331112001929 intermolecular recognition site; other site 331112001930 dimerization interface [polypeptide binding]; other site 331112001931 Transcriptional regulator; Region: CitT; pfam12431 331112001932 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 331112001933 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 331112001934 DNA-binding site [nucleotide binding]; DNA binding site 331112001935 RNA-binding motif; other site 331112001936 chromosome condensation membrane protein; Provisional; Region: PRK14196 331112001937 Predicted amidohydrolase [General function prediction only]; Region: COG0388 331112001938 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 331112001939 putative active site [active] 331112001940 catalytic triad [active] 331112001941 putative dimer interface [polypeptide binding]; other site 331112001942 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 331112001943 lipoyl synthase; Provisional; Region: PRK05481 331112001944 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 331112001945 FeS/SAM binding site; other site 331112001946 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 331112001947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112001948 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 331112001949 substrate binding pocket [chemical binding]; other site 331112001950 dimerization interface [polypeptide binding]; other site 331112001951 lipoate-protein ligase B; Provisional; Region: PRK14342 331112001952 hypothetical protein; Provisional; Region: PRK04998 331112001953 rare lipoprotein A; Provisional; Region: PRK10672 331112001954 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 331112001955 Sporulation related domain; Region: SPOR; pfam05036 331112001956 cell wall shape-determining protein; Provisional; Region: PRK10794 331112001957 penicillin-binding protein 2; Provisional; Region: PRK10795 331112001958 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 331112001959 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 331112001960 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 331112001961 ribosome-associated protein; Provisional; Region: PRK11538 331112001962 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 331112001963 catalytic core [active] 331112001964 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 331112001965 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 331112001966 active site 331112001967 (T/H)XGH motif; other site 331112001968 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 331112001969 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 331112001970 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 331112001971 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 331112001972 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 331112001973 HIGH motif; other site 331112001974 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 331112001975 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 331112001976 active site 331112001977 KMSKS motif; other site 331112001978 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 331112001979 tRNA binding surface [nucleotide binding]; other site 331112001980 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 331112001981 hypothetical protein; Provisional; Region: PRK11032 331112001982 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 331112001983 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 331112001984 active site 331112001985 tetramer interface [polypeptide binding]; other site 331112001986 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 331112001987 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 331112001988 Walker A/P-loop; other site 331112001989 ATP binding site [chemical binding]; other site 331112001990 Q-loop/lid; other site 331112001991 ABC transporter signature motif; other site 331112001992 Walker B; other site 331112001993 D-loop; other site 331112001994 H-loop/switch region; other site 331112001995 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 331112001996 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 331112001997 dimer interface [polypeptide binding]; other site 331112001998 conserved gate region; other site 331112001999 putative PBP binding loops; other site 331112002000 ABC-ATPase subunit interface; other site 331112002001 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 331112002002 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 331112002003 dimer interface [polypeptide binding]; other site 331112002004 conserved gate region; other site 331112002005 putative PBP binding loops; other site 331112002006 ABC-ATPase subunit interface; other site 331112002007 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 331112002008 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 331112002009 substrate binding pocket [chemical binding]; other site 331112002010 membrane-bound complex binding site; other site 331112002011 hinge residues; other site 331112002012 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 331112002013 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 331112002014 putative active site [active] 331112002015 catalytic triad [active] 331112002016 putative dimer interface [polypeptide binding]; other site 331112002017 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 331112002018 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 331112002019 Transporter associated domain; Region: CorC_HlyC; smart01091 331112002020 metal-binding heat shock protein; Provisional; Region: PRK00016 331112002021 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 331112002022 PhoH-like protein; Region: PhoH; pfam02562 331112002023 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 331112002024 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 331112002025 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 331112002026 FeS/SAM binding site; other site 331112002027 TRAM domain; Region: TRAM; pfam01938 331112002028 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 331112002029 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 331112002030 asparagine synthetase B; Provisional; Region: asnB; PRK09431 331112002031 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 331112002032 active site 331112002033 dimer interface [polypeptide binding]; other site 331112002034 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 331112002035 Ligand Binding Site [chemical binding]; other site 331112002036 Molecular Tunnel; other site 331112002037 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112002038 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112002039 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112002040 UMP phosphatase; Provisional; Region: PRK10444 331112002041 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 331112002042 active site 331112002043 motif I; other site 331112002044 motif II; other site 331112002045 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 331112002046 MarR family; Region: MarR; pfam01047 331112002047 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 331112002048 ROK family; Region: ROK; pfam00480 331112002049 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 331112002050 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 331112002051 active site 331112002052 dimer interface [polypeptide binding]; other site 331112002053 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 331112002054 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 331112002055 active site 331112002056 trimer interface [polypeptide binding]; other site 331112002057 allosteric site; other site 331112002058 active site lid [active] 331112002059 hexamer (dimer of trimers) interface [polypeptide binding]; other site 331112002060 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 331112002061 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 331112002062 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 331112002063 active site turn [active] 331112002064 phosphorylation site [posttranslational modification] 331112002065 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 331112002066 HPr interaction site; other site 331112002067 glycerol kinase (GK) interaction site [polypeptide binding]; other site 331112002068 active site 331112002069 phosphorylation site [posttranslational modification] 331112002070 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 331112002071 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 331112002072 active site 331112002073 HIGH motif; other site 331112002074 nucleotide binding site [chemical binding]; other site 331112002075 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 331112002076 KMSKS motif; other site 331112002077 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 331112002078 outer membrane porin, OprD family; Region: OprD; pfam03573 331112002079 YbfN-like lipoprotein; Region: YbfN; pfam13982 331112002080 ferric uptake regulator; Provisional; Region: fur; PRK09462 331112002081 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 331112002082 metal binding site 2 [ion binding]; metal-binding site 331112002083 putative DNA binding helix; other site 331112002084 metal binding site 1 [ion binding]; metal-binding site 331112002085 dimer interface [polypeptide binding]; other site 331112002086 structural Zn2+ binding site [ion binding]; other site 331112002087 flavodoxin FldA; Validated; Region: PRK09267 331112002088 LexA regulated protein; Provisional; Region: PRK11675 331112002089 acyl-CoA esterase; Provisional; Region: PRK10673 331112002090 PGAP1-like protein; Region: PGAP1; pfam07819 331112002091 replication initiation regulator SeqA; Provisional; Region: PRK11187 331112002092 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 331112002093 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 331112002094 active site 331112002095 substrate binding site [chemical binding]; other site 331112002096 metal binding site [ion binding]; metal-binding site 331112002097 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112002098 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112002099 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112002100 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112002101 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 331112002102 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 331112002103 active site 331112002104 phosphorylation site [posttranslational modification] 331112002105 intermolecular recognition site; other site 331112002106 dimerization interface [polypeptide binding]; other site 331112002107 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 331112002108 DNA binding site [nucleotide binding] 331112002109 sensor protein KdpD; Provisional; Region: PRK10490 331112002110 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 331112002111 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 331112002112 Ligand Binding Site [chemical binding]; other site 331112002113 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 331112002114 GAF domain; Region: GAF_3; pfam13492 331112002115 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 331112002116 dimer interface [polypeptide binding]; other site 331112002117 phosphorylation site [posttranslational modification] 331112002118 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 331112002119 ATP binding site [chemical binding]; other site 331112002120 Mg2+ binding site [ion binding]; other site 331112002121 G-X-G motif; other site 331112002122 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 331112002123 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 331112002124 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 331112002125 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 331112002126 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 331112002127 PAAR motif; Region: PAAR_motif; cl15808 331112002128 RHS Repeat; Region: RHS_repeat; pfam05593 331112002129 RHS Repeat; Region: RHS_repeat; pfam05593 331112002130 RHS Repeat; Region: RHS_repeat; pfam05593 331112002131 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 331112002132 RHS Repeat; Region: RHS_repeat; pfam05593 331112002133 RHS Repeat; Region: RHS_repeat; pfam05593 331112002134 RHS protein; Region: RHS; pfam03527 331112002135 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 331112002136 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 331112002137 RHS protein; Region: RHS; pfam03527 331112002138 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 331112002139 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 331112002140 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 331112002141 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 331112002142 Transposase [DNA replication, recombination, and repair]; Region: COG5433 331112002143 hypothetical protein; Provisional; Region: PRK10167 331112002144 Uncharacterized conserved protein [Function unknown]; Region: COG3272 331112002145 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 331112002146 DNA photolyase; Region: DNA_photolyase; pfam00875 331112002147 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 331112002148 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112002149 putative substrate translocation pore; other site 331112002150 POT family; Region: PTR2; pfam00854 331112002151 Uncharacterized conserved protein [Function unknown]; Region: COG0327 331112002152 metal-binding protein; Provisional; Region: PRK10799 331112002153 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 331112002154 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 331112002155 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 331112002156 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 331112002157 putative active site [active] 331112002158 endonuclease VIII; Provisional; Region: PRK10445 331112002159 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 331112002160 DNA binding site [nucleotide binding] 331112002161 catalytic residue [active] 331112002162 putative catalytic residues [active] 331112002163 H2TH interface [polypeptide binding]; other site 331112002164 intercalation triad [nucleotide binding]; other site 331112002165 substrate specificity determining residue; other site 331112002166 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 331112002167 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 331112002168 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 331112002169 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 331112002170 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 331112002171 Fimbrial protein; Region: Fimbrial; pfam00419 331112002172 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 331112002173 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 331112002174 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 331112002175 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 331112002176 PapC N-terminal domain; Region: PapC_N; pfam13954 331112002177 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 331112002178 PapC C-terminal domain; Region: PapC_C; pfam13953 331112002179 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 331112002180 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 331112002181 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 331112002182 dimer interface [polypeptide binding]; other site 331112002183 active site 331112002184 citrylCoA binding site [chemical binding]; other site 331112002185 NADH binding [chemical binding]; other site 331112002186 cationic pore residues; other site 331112002187 oxalacetate/citrate binding site [chemical binding]; other site 331112002188 coenzyme A binding site [chemical binding]; other site 331112002189 catalytic triad [active] 331112002190 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 331112002191 Iron-sulfur protein interface; other site 331112002192 proximal quinone binding site [chemical binding]; other site 331112002193 SdhD (CybS) interface [polypeptide binding]; other site 331112002194 proximal heme binding site [chemical binding]; other site 331112002195 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 331112002196 SdhC subunit interface [polypeptide binding]; other site 331112002197 proximal heme binding site [chemical binding]; other site 331112002198 cardiolipin binding site; other site 331112002199 Iron-sulfur protein interface; other site 331112002200 proximal quinone binding site [chemical binding]; other site 331112002201 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 331112002202 L-aspartate oxidase; Provisional; Region: PRK06175 331112002203 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 331112002204 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 331112002205 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 331112002206 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 331112002207 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 331112002208 TPP-binding site [chemical binding]; other site 331112002209 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 331112002210 dimer interface [polypeptide binding]; other site 331112002211 PYR/PP interface [polypeptide binding]; other site 331112002212 TPP binding site [chemical binding]; other site 331112002213 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 331112002214 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 331112002215 E3 interaction surface; other site 331112002216 lipoyl attachment site [posttranslational modification]; other site 331112002217 e3 binding domain; Region: E3_binding; pfam02817 331112002218 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 331112002219 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 331112002220 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 331112002221 CoA-ligase; Region: Ligase_CoA; pfam00549 331112002222 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 331112002223 CoA binding domain; Region: CoA_binding; smart00881 331112002224 CoA-ligase; Region: Ligase_CoA; pfam00549 331112002225 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 331112002226 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112002227 DNA-binding site [nucleotide binding]; DNA binding site 331112002228 UTRA domain; Region: UTRA; pfam07702 331112002229 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 331112002230 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 331112002231 active site 331112002232 phosphorylation site [posttranslational modification] 331112002233 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 331112002234 active site 331112002235 P-loop; other site 331112002236 phosphorylation site [posttranslational modification] 331112002237 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 331112002238 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112002239 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112002240 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112002241 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112002242 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 331112002243 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 331112002244 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 331112002245 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 331112002246 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 331112002247 hypothetical protein; Provisional; Region: PRK10588 331112002248 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 331112002249 active site 331112002250 colicin uptake protein TolQ; Provisional; Region: PRK10801 331112002251 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 331112002252 colicin uptake protein TolR; Provisional; Region: PRK11024 331112002253 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 331112002254 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 331112002255 TolA C-terminal; Region: TolA; pfam06519 331112002256 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 331112002257 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 331112002258 ligand binding site [chemical binding]; other site 331112002259 tol-pal system protein YbgF; Provisional; Region: PRK10803 331112002260 Tetratricopeptide repeat; Region: TPR_6; pfam13174 331112002261 Tetratricopeptide repeat; Region: TPR_6; pfam13174 331112002262 quinolinate synthetase; Provisional; Region: PRK09375 331112002263 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 331112002264 zinc transporter ZitB; Provisional; Region: PRK03557 331112002265 YbgS-like protein; Region: YbgS; pfam13985 331112002266 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 331112002267 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 331112002268 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 331112002269 catalytic core [active] 331112002270 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 331112002271 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 331112002272 active site 331112002273 catalytic residues [active] 331112002274 galactokinase; Provisional; Region: PRK05101 331112002275 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 331112002276 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 331112002277 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 331112002278 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 331112002279 dimer interface [polypeptide binding]; other site 331112002280 active site 331112002281 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 331112002282 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 331112002283 NAD binding site [chemical binding]; other site 331112002284 homodimer interface [polypeptide binding]; other site 331112002285 active site 331112002286 substrate binding site [chemical binding]; other site 331112002287 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 331112002288 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 331112002289 Walker A/P-loop; other site 331112002290 ATP binding site [chemical binding]; other site 331112002291 Q-loop/lid; other site 331112002292 ABC transporter signature motif; other site 331112002293 Walker B; other site 331112002294 D-loop; other site 331112002295 H-loop/switch region; other site 331112002296 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112002297 Walker A/P-loop; other site 331112002298 ATP binding site [chemical binding]; other site 331112002299 Q-loop/lid; other site 331112002300 ABC transporter signature motif; other site 331112002301 Walker B; other site 331112002302 D-loop; other site 331112002303 H-loop/switch region; other site 331112002304 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 331112002305 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 331112002306 molybdenum-pterin binding domain; Region: Mop; TIGR00638 331112002307 TOBE domain; Region: TOBE; pfam03459 331112002308 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 331112002309 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 331112002310 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 331112002311 substrate binding pocket [chemical binding]; other site 331112002312 membrane-bound complex binding site; other site 331112002313 hinge residues; other site 331112002314 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 331112002315 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 331112002316 putative PBP binding loops; other site 331112002317 ABC-ATPase subunit interface; other site 331112002318 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 331112002319 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112002320 Walker A/P-loop; other site 331112002321 ATP binding site [chemical binding]; other site 331112002322 Q-loop/lid; other site 331112002323 ABC transporter signature motif; other site 331112002324 Walker B; other site 331112002325 D-loop; other site 331112002326 H-loop/switch region; other site 331112002327 molybdenum-pterin binding domain; Region: Mop; TIGR00638 331112002328 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 331112002329 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 331112002330 motif II; other site 331112002331 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 331112002332 6-phosphogluconolactonase; Provisional; Region: PRK11028 331112002333 Transcriptional regulator [Transcription]; Region: LysR; COG0583 331112002334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112002335 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 331112002336 putative dimerization interface [polypeptide binding]; other site 331112002337 PrpF protein; Region: PrpF; pfam04303 331112002338 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 331112002339 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 331112002340 transmembrane helices; other site 331112002341 putative hydratase; Provisional; Region: PRK11413 331112002342 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 331112002343 substrate binding site [chemical binding]; other site 331112002344 ligand binding site [chemical binding]; other site 331112002345 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 331112002346 substrate binding site [chemical binding]; other site 331112002347 acyl-CoA thioesterase; Provisional; Region: PRK10531 331112002348 putative pectinesterase; Region: PLN02432; cl01911 331112002349 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 331112002350 substrate binding site [chemical binding]; other site 331112002351 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 331112002352 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 331112002353 inhibitor-cofactor binding pocket; inhibition site 331112002354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112002355 catalytic residue [active] 331112002356 biotin synthase; Provisional; Region: PRK15108 331112002357 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 331112002358 FeS/SAM binding site; other site 331112002359 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 331112002360 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 331112002361 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 331112002362 substrate-cofactor binding pocket; other site 331112002363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112002364 catalytic residue [active] 331112002365 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 331112002366 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 331112002367 S-adenosylmethionine binding site [chemical binding]; other site 331112002368 AAA domain; Region: AAA_26; pfam13500 331112002369 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 331112002370 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 331112002371 ADP binding site [chemical binding]; other site 331112002372 excinuclease ABC subunit B; Provisional; Region: PRK05298 331112002373 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 331112002374 ATP binding site [chemical binding]; other site 331112002375 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 331112002376 nucleotide binding region [chemical binding]; other site 331112002377 ATP-binding site [chemical binding]; other site 331112002378 Ultra-violet resistance protein B; Region: UvrB; pfam12344 331112002379 UvrB/uvrC motif; Region: UVR; pfam02151 331112002380 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 331112002381 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 331112002382 putative substrate binding pocket [chemical binding]; other site 331112002383 dimer interface [polypeptide binding]; other site 331112002384 phosphate binding site [ion binding]; other site 331112002385 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 331112002386 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 331112002387 FeS/SAM binding site; other site 331112002388 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 331112002389 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 331112002390 MPT binding site; other site 331112002391 trimer interface [polypeptide binding]; other site 331112002392 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 331112002393 trimer interface [polypeptide binding]; other site 331112002394 dimer interface [polypeptide binding]; other site 331112002395 putative active site [active] 331112002396 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 331112002397 MoaE interaction surface [polypeptide binding]; other site 331112002398 MoeB interaction surface [polypeptide binding]; other site 331112002399 thiocarboxylated glycine; other site 331112002400 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 331112002401 MoaE homodimer interface [polypeptide binding]; other site 331112002402 MoaD interaction [polypeptide binding]; other site 331112002403 active site residues [active] 331112002404 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 331112002405 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 331112002406 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 331112002407 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 331112002408 Predicted integral membrane protein [Function unknown]; Region: COG0392 331112002409 cardiolipin synthase 2; Provisional; Region: PRK11263 331112002410 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 331112002411 putative active site [active] 331112002412 catalytic site [active] 331112002413 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 331112002414 putative active site [active] 331112002415 catalytic site [active] 331112002416 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 331112002417 putative catalytic site [active] 331112002418 putative metal binding site [ion binding]; other site 331112002419 putative phosphate binding site [ion binding]; other site 331112002420 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 331112002421 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 331112002422 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 331112002423 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 331112002424 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 331112002425 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 331112002426 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 331112002427 Walker A/P-loop; other site 331112002428 ATP binding site [chemical binding]; other site 331112002429 Q-loop/lid; other site 331112002430 ABC transporter signature motif; other site 331112002431 Walker B; other site 331112002432 D-loop; other site 331112002433 H-loop/switch region; other site 331112002434 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 331112002435 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 331112002436 Walker A/P-loop; other site 331112002437 ATP binding site [chemical binding]; other site 331112002438 Q-loop/lid; other site 331112002439 ABC transporter signature motif; other site 331112002440 Walker B; other site 331112002441 D-loop; other site 331112002442 H-loop/switch region; other site 331112002443 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 331112002444 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112002445 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112002446 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 331112002447 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 331112002448 helicase 45; Provisional; Region: PTZ00424 331112002449 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 331112002450 ATP binding site [chemical binding]; other site 331112002451 Mg++ binding site [ion binding]; other site 331112002452 motif III; other site 331112002453 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 331112002454 nucleotide binding region [chemical binding]; other site 331112002455 ATP-binding site [chemical binding]; other site 331112002456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 331112002457 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 331112002458 DEAD_2; Region: DEAD_2; pfam06733 331112002459 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 331112002460 glycosyl transferase family protein; Provisional; Region: PRK08136 331112002461 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 331112002462 putative dehydrogenase; Provisional; Region: PRK10098 331112002463 hypothetical protein; Provisional; Region: PRK10259 331112002464 hypothetical protein; Provisional; Region: PRK11019 331112002465 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 331112002466 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 331112002467 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 331112002468 N-terminal plug; other site 331112002469 ligand-binding site [chemical binding]; other site 331112002470 hypothetical protein; Provisional; Region: PRK10259 331112002471 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 331112002472 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 331112002473 putative mechanosensitive channel protein; Provisional; Region: PRK11465 331112002474 Mechanosensitive ion channel; Region: MS_channel; pfam00924 331112002475 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 331112002476 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 331112002477 Walker A/P-loop; other site 331112002478 ATP binding site [chemical binding]; other site 331112002479 Q-loop/lid; other site 331112002480 ABC transporter signature motif; other site 331112002481 Walker B; other site 331112002482 D-loop; other site 331112002483 H-loop/switch region; other site 331112002484 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 331112002485 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 331112002486 dimer interface [polypeptide binding]; other site 331112002487 conserved gate region; other site 331112002488 putative PBP binding loops; other site 331112002489 ABC-ATPase subunit interface; other site 331112002490 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 331112002491 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 331112002492 substrate binding pocket [chemical binding]; other site 331112002493 membrane-bound complex binding site; other site 331112002494 hinge residues; other site 331112002495 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 331112002496 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 331112002497 dimerization interface [polypeptide binding]; other site 331112002498 DPS ferroxidase diiron center [ion binding]; other site 331112002499 ion pore; other site 331112002500 threonine and homoserine efflux system; Provisional; Region: PRK10532 331112002501 EamA-like transporter family; Region: EamA; pfam00892 331112002502 outer membrane protein X; Provisional; Region: ompX; PRK09408 331112002503 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 331112002504 Sulfatase; Region: Sulfatase; pfam00884 331112002505 manganese transport regulator MntR; Provisional; Region: PRK11050 331112002506 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 331112002507 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 331112002508 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 331112002509 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 331112002510 transmembrane helices; other site 331112002511 L,D-transpeptidase; Provisional; Region: PRK10260 331112002512 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 331112002513 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 331112002514 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112002515 Walker A/P-loop; other site 331112002516 ATP binding site [chemical binding]; other site 331112002517 Q-loop/lid; other site 331112002518 ABC transporter signature motif; other site 331112002519 Walker B; other site 331112002520 D-loop; other site 331112002521 H-loop/switch region; other site 331112002522 ABC transporter; Region: ABC_tran_2; pfam12848 331112002523 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 331112002524 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112002525 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112002526 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112002527 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 331112002528 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 331112002529 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 331112002530 active site 331112002531 motif I; other site 331112002532 motif II; other site 331112002533 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 331112002534 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 331112002535 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 331112002536 dimer interface [polypeptide binding]; other site 331112002537 active site 331112002538 glycine loop; other site 331112002539 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 331112002540 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 331112002541 active site 331112002542 intersubunit interactions; other site 331112002543 catalytic residue [active] 331112002544 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 331112002545 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 331112002546 ATP binding site [chemical binding]; other site 331112002547 substrate interface [chemical binding]; other site 331112002548 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 331112002549 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 331112002550 dimer interface [polypeptide binding]; other site 331112002551 putative functional site; other site 331112002552 putative MPT binding site; other site 331112002553 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 331112002554 catalytic nucleophile [active] 331112002555 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 331112002556 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112002557 Walker A/P-loop; other site 331112002558 ATP binding site [chemical binding]; other site 331112002559 Q-loop/lid; other site 331112002560 ABC transporter signature motif; other site 331112002561 Walker B; other site 331112002562 D-loop; other site 331112002563 H-loop/switch region; other site 331112002564 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331112002565 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112002566 Walker A/P-loop; other site 331112002567 ATP binding site [chemical binding]; other site 331112002568 Q-loop/lid; other site 331112002569 ABC transporter signature motif; other site 331112002570 Walker B; other site 331112002571 D-loop; other site 331112002572 H-loop/switch region; other site 331112002573 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 331112002574 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 331112002575 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 331112002576 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 331112002577 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 331112002578 dimer interface [polypeptide binding]; other site 331112002579 conserved gate region; other site 331112002580 putative PBP binding loops; other site 331112002581 ABC-ATPase subunit interface; other site 331112002582 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 331112002583 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 331112002584 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 331112002585 dimer interface [polypeptide binding]; other site 331112002586 conserved gate region; other site 331112002587 putative PBP binding loops; other site 331112002588 ABC-ATPase subunit interface; other site 331112002589 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 331112002590 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 331112002591 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112002592 metal binding site [ion binding]; metal-binding site 331112002593 active site 331112002594 I-site; other site 331112002595 Predicted transcriptional regulator [Transcription]; Region: COG2944 331112002596 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 331112002597 non-specific DNA binding site [nucleotide binding]; other site 331112002598 salt bridge; other site 331112002599 sequence-specific DNA binding site [nucleotide binding]; other site 331112002600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4737 331112002601 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 331112002602 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 331112002603 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 331112002604 FeS/SAM binding site; other site 331112002605 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 331112002606 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 331112002607 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 331112002608 putative C-terminal domain interface [polypeptide binding]; other site 331112002609 putative GSH binding site (G-site) [chemical binding]; other site 331112002610 putative dimer interface [polypeptide binding]; other site 331112002611 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 331112002612 N-terminal domain interface [polypeptide binding]; other site 331112002613 dimer interface [polypeptide binding]; other site 331112002614 substrate binding pocket (H-site) [chemical binding]; other site 331112002615 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 331112002616 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 331112002617 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 331112002618 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 331112002619 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 331112002620 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 331112002621 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 331112002622 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 331112002623 active site 331112002624 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 331112002625 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112002626 putative substrate translocation pore; other site 331112002627 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 331112002628 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 331112002629 active site 331112002630 motif I; other site 331112002631 motif II; other site 331112002632 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 331112002633 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 331112002634 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112002635 putative substrate translocation pore; other site 331112002636 Major Facilitator Superfamily; Region: MFS_1; pfam07690 331112002637 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 331112002638 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112002639 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 331112002640 integrase; Provisional; Region: int; PHA02601 331112002641 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 331112002642 active site 331112002643 DNA binding site [nucleotide binding] 331112002644 Int/Topo IB signature motif; other site 331112002645 Predicted transcriptional regulator [Transcription]; Region: COG2932 331112002646 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 331112002647 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 331112002648 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 331112002649 DksA-like zinc finger domain containing protein; Region: PHA00080 331112002650 DNA adenine methylase (dam); Region: dam; TIGR00571 331112002651 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 331112002652 DinI-like family; Region: DinI; pfam06183 331112002653 portal vertex protein; Provisional; Region: Q; PHA02536 331112002654 Phage portal protein; Region: Phage_portal; pfam04860 331112002655 terminase ATPase subunit; Provisional; Region: P; PHA02535 331112002656 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 331112002657 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 331112002658 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 331112002659 capsid protein; Provisional; Region: N; PHA02538 331112002660 terminase endonuclease subunit; Provisional; Region: M; PHA02537 331112002661 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 331112002662 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 331112002663 P2-like prophage tail protein X [General function prediction only]; Region: COG5004 331112002664 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 331112002665 catalytic residues [active] 331112002666 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 331112002667 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 331112002668 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 331112002669 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 331112002670 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 331112002671 baseplate wedge subunit; Provisional; Region: W; PHA02516 331112002672 baseplate assembly protein; Provisional; Region: J; PHA02568 331112002673 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 331112002674 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 331112002675 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 331112002676 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 331112002677 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 331112002678 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 331112002679 major tail sheath protein; Provisional; Region: FI; PHA02560 331112002680 major tail tube protein; Provisional; Region: FII; PHA02600 331112002681 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 331112002682 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 331112002683 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 331112002684 Phage protein U [General function prediction only]; Region: COG3499 331112002685 tail protein; Provisional; Region: D; PHA02561 331112002686 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 331112002687 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 331112002688 putative transporter; Provisional; Region: PRK04972 331112002689 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 331112002690 TrkA-C domain; Region: TrkA_C; pfam02080 331112002691 TrkA-C domain; Region: TrkA_C; pfam02080 331112002692 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 331112002693 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 331112002694 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 331112002695 GSH binding site [chemical binding]; other site 331112002696 catalytic residues [active] 331112002697 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 331112002698 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 331112002699 dimer interface [polypeptide binding]; other site 331112002700 FMN binding site [chemical binding]; other site 331112002701 NADPH bind site [chemical binding]; other site 331112002702 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 331112002703 RimK-like ATP-grasp domain; Region: RimK; pfam08443 331112002704 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 331112002705 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 331112002706 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 331112002707 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 331112002708 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112002709 Walker A/P-loop; other site 331112002710 ATP binding site [chemical binding]; other site 331112002711 Q-loop/lid; other site 331112002712 ABC transporter signature motif; other site 331112002713 Walker B; other site 331112002714 D-loop; other site 331112002715 H-loop/switch region; other site 331112002716 TOBE domain; Region: TOBE_2; pfam08402 331112002717 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 331112002718 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 331112002719 dimer interface [polypeptide binding]; other site 331112002720 conserved gate region; other site 331112002721 putative PBP binding loops; other site 331112002722 ABC-ATPase subunit interface; other site 331112002723 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 331112002724 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 331112002725 dimer interface [polypeptide binding]; other site 331112002726 conserved gate region; other site 331112002727 putative PBP binding loops; other site 331112002728 ABC-ATPase subunit interface; other site 331112002729 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 331112002730 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 331112002731 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 331112002732 S-adenosylmethionine binding site [chemical binding]; other site 331112002733 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 331112002734 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 331112002735 substrate binding pocket [chemical binding]; other site 331112002736 membrane-bound complex binding site; other site 331112002737 hinge residues; other site 331112002738 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 331112002739 dimer interface [polypeptide binding]; other site 331112002740 conserved gate region; other site 331112002741 putative PBP binding loops; other site 331112002742 ABC-ATPase subunit interface; other site 331112002743 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 331112002744 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 331112002745 dimer interface [polypeptide binding]; other site 331112002746 conserved gate region; other site 331112002747 putative PBP binding loops; other site 331112002748 ABC-ATPase subunit interface; other site 331112002749 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 331112002750 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 331112002751 substrate binding pocket [chemical binding]; other site 331112002752 membrane-bound complex binding site; other site 331112002753 hinge residues; other site 331112002754 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 331112002755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112002756 Walker A/P-loop; other site 331112002757 ATP binding site [chemical binding]; other site 331112002758 Q-loop/lid; other site 331112002759 ABC transporter signature motif; other site 331112002760 Walker B; other site 331112002761 D-loop; other site 331112002762 H-loop/switch region; other site 331112002763 putative lipoprotein; Provisional; Region: PRK10533 331112002764 hypothetical protein; Provisional; Region: PRK02877 331112002765 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 331112002766 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 331112002767 amidase catalytic site [active] 331112002768 Zn binding residues [ion binding]; other site 331112002769 substrate binding site [chemical binding]; other site 331112002770 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 331112002771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331112002772 NAD(P) binding site [chemical binding]; other site 331112002773 active site 331112002774 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 331112002775 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 331112002776 putative NAD(P) binding site [chemical binding]; other site 331112002777 putative active site [active] 331112002778 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 331112002779 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 331112002780 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 331112002781 tetramer interface [polypeptide binding]; other site 331112002782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112002783 catalytic residue [active] 331112002784 pyruvate dehydrogenase; Provisional; Region: PRK09124 331112002785 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 331112002786 PYR/PP interface [polypeptide binding]; other site 331112002787 dimer interface [polypeptide binding]; other site 331112002788 tetramer interface [polypeptide binding]; other site 331112002789 TPP binding site [chemical binding]; other site 331112002790 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 331112002791 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 331112002792 TPP-binding site [chemical binding]; other site 331112002793 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 331112002794 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 331112002795 FAD binding pocket [chemical binding]; other site 331112002796 FAD binding motif [chemical binding]; other site 331112002797 phosphate binding motif [ion binding]; other site 331112002798 beta-alpha-beta structure motif; other site 331112002799 NAD binding pocket [chemical binding]; other site 331112002800 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 331112002801 catalytic loop [active] 331112002802 iron binding site [ion binding]; other site 331112002803 hybrid cluster protein; Provisional; Region: PRK05290 331112002804 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 331112002805 ACS interaction site; other site 331112002806 CODH interaction site; other site 331112002807 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 331112002808 hybrid metal cluster; other site 331112002809 Predicted membrane protein [Function unknown]; Region: COG2431 331112002810 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 331112002811 amphipathic channel; other site 331112002812 Asn-Pro-Ala signature motifs; other site 331112002813 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 331112002814 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 331112002815 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 331112002816 putative active site [active] 331112002817 putative metal-binding site [ion binding]; other site 331112002818 Protein of unknown function (DUF535); Region: DUF535; pfam04393 331112002819 macrolide transporter subunit MacA; Provisional; Region: PRK11578 331112002820 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112002821 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112002822 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 331112002823 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 331112002824 Walker A/P-loop; other site 331112002825 ATP binding site [chemical binding]; other site 331112002826 Q-loop/lid; other site 331112002827 ABC transporter signature motif; other site 331112002828 Walker B; other site 331112002829 D-loop; other site 331112002830 H-loop/switch region; other site 331112002831 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 331112002832 FtsX-like permease family; Region: FtsX; pfam02687 331112002833 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 331112002834 DNA-binding site [nucleotide binding]; DNA binding site 331112002835 RNA-binding motif; other site 331112002836 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 331112002837 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 331112002838 Clp amino terminal domain; Region: Clp_N; pfam02861 331112002839 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 331112002840 Walker A motif; other site 331112002841 ATP binding site [chemical binding]; other site 331112002842 Walker B motif; other site 331112002843 arginine finger; other site 331112002844 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 331112002845 Walker A motif; other site 331112002846 ATP binding site [chemical binding]; other site 331112002847 Walker B motif; other site 331112002848 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 331112002849 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 331112002850 rRNA binding site [nucleotide binding]; other site 331112002851 predicted 30S ribosome binding site; other site 331112002852 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 331112002853 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 331112002854 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 331112002855 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 331112002856 Walker A/P-loop; other site 331112002857 ATP binding site [chemical binding]; other site 331112002858 Q-loop/lid; other site 331112002859 ABC transporter signature motif; other site 331112002860 Walker B; other site 331112002861 D-loop; other site 331112002862 H-loop/switch region; other site 331112002863 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 331112002864 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 331112002865 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112002866 Walker A/P-loop; other site 331112002867 ATP binding site [chemical binding]; other site 331112002868 Q-loop/lid; other site 331112002869 ABC transporter signature motif; other site 331112002870 Walker B; other site 331112002871 D-loop; other site 331112002872 H-loop/switch region; other site 331112002873 thioredoxin reductase; Provisional; Region: PRK10262 331112002874 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 331112002875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112002876 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 331112002877 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 331112002878 putative DNA binding site [nucleotide binding]; other site 331112002879 putative Zn2+ binding site [ion binding]; other site 331112002880 AsnC family; Region: AsnC_trans_reg; pfam01037 331112002881 DNA translocase FtsK; Provisional; Region: PRK10263 331112002882 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 331112002883 DNA translocase FtsK; Provisional; Region: PRK10263 331112002884 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 331112002885 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 331112002886 periplasmic chaperone LolA; Region: lolA; TIGR00547 331112002887 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 331112002888 recombination factor protein RarA; Reviewed; Region: PRK13342 331112002889 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 331112002890 Walker A motif; other site 331112002891 ATP binding site [chemical binding]; other site 331112002892 Walker B motif; other site 331112002893 arginine finger; other site 331112002894 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 331112002895 seryl-tRNA synthetase; Provisional; Region: PRK05431 331112002896 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 331112002897 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 331112002898 dimer interface [polypeptide binding]; other site 331112002899 active site 331112002900 motif 1; other site 331112002901 motif 2; other site 331112002902 motif 3; other site 331112002903 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 331112002904 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 331112002905 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 331112002906 putative [Fe4-S4] binding site [ion binding]; other site 331112002907 putative molybdopterin cofactor binding site [chemical binding]; other site 331112002908 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 331112002909 putative molybdopterin cofactor binding site; other site 331112002910 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 331112002911 4Fe-4S binding domain; Region: Fer4; pfam00037 331112002912 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 331112002913 putative MFS family transporter protein; Provisional; Region: PRK03633 331112002914 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112002915 putative substrate translocation pore; other site 331112002916 Amino acid permease; Region: AA_permease_2; pfam13520 331112002917 Transcriptional regulator [Transcription]; Region: LysR; COG0583 331112002918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112002919 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 331112002920 putative effector binding pocket; other site 331112002921 putative dimerization interface [polypeptide binding]; other site 331112002922 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 331112002923 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 331112002924 FeS/SAM binding site; other site 331112002925 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 331112002926 Pyruvate formate lyase 1; Region: PFL1; cd01678 331112002927 coenzyme A binding site [chemical binding]; other site 331112002928 active site 331112002929 catalytic residues [active] 331112002930 glycine loop; other site 331112002931 formate transporter; Provisional; Region: PRK10805 331112002932 uncharacterized domain; Region: TIGR00702 331112002933 YcaO-like family; Region: YcaO; pfam02624 331112002934 Predicted membrane protein [Function unknown]; Region: COG2323 331112002935 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 331112002936 homodimer interface [polypeptide binding]; other site 331112002937 substrate-cofactor binding pocket; other site 331112002938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112002939 catalytic residue [active] 331112002940 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 331112002941 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 331112002942 hinge; other site 331112002943 active site 331112002944 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 331112002945 cytidylate kinase; Provisional; Region: cmk; PRK00023 331112002946 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 331112002947 CMP-binding site; other site 331112002948 The sites determining sugar specificity; other site 331112002949 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 331112002950 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 331112002951 RNA binding site [nucleotide binding]; other site 331112002952 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 331112002953 RNA binding site [nucleotide binding]; other site 331112002954 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 331112002955 RNA binding site [nucleotide binding]; other site 331112002956 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 331112002957 RNA binding site [nucleotide binding]; other site 331112002958 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 331112002959 RNA binding site [nucleotide binding]; other site 331112002960 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 331112002961 IHF dimer interface [polypeptide binding]; other site 331112002962 IHF - DNA interface [nucleotide binding]; other site 331112002963 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 331112002964 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 331112002965 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 331112002966 Walker A/P-loop; other site 331112002967 ATP binding site [chemical binding]; other site 331112002968 Q-loop/lid; other site 331112002969 ABC transporter signature motif; other site 331112002970 Walker B; other site 331112002971 D-loop; other site 331112002972 H-loop/switch region; other site 331112002973 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 331112002974 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 331112002975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 331112002976 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 331112002977 hypothetical protein; Provisional; Region: PRK11827 331112002978 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 331112002979 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 331112002980 Ligand binding site; other site 331112002981 oligomer interface; other site 331112002982 hypothetical protein; Provisional; Region: PRK10593 331112002983 Uncharacterized conserved protein [Function unknown]; Region: COG1434 331112002984 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 331112002985 putative active site [active] 331112002986 Methyltransferase domain; Region: Methyltransf_31; pfam13847 331112002987 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 331112002988 S-adenosylmethionine binding site [chemical binding]; other site 331112002989 condesin subunit F; Provisional; Region: PRK05260 331112002990 condesin subunit E; Provisional; Region: PRK05256 331112002991 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 331112002992 MukB N-terminal; Region: MukB; pfam04310 331112002993 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 331112002994 murein L,D-transpeptidase; Provisional; Region: PRK10594 331112002995 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 331112002996 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 331112002997 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 331112002998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 331112002999 Peptidase M15; Region: Peptidase_M15_3; cl01194 331112003000 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 331112003001 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112003002 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112003003 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112003004 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 331112003005 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 331112003006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112003007 homodimer interface [polypeptide binding]; other site 331112003008 catalytic residue [active] 331112003009 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 331112003010 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 331112003011 trimer interface [polypeptide binding]; other site 331112003012 eyelet of channel; other site 331112003013 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 331112003014 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 331112003015 putative dimer interface [polypeptide binding]; other site 331112003016 putative anticodon binding site; other site 331112003017 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 331112003018 homodimer interface [polypeptide binding]; other site 331112003019 motif 1; other site 331112003020 motif 2; other site 331112003021 active site 331112003022 motif 3; other site 331112003023 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 331112003024 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 331112003025 active site 331112003026 aminopeptidase N; Provisional; Region: pepN; PRK14015 331112003027 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 331112003028 active site 331112003029 Zn binding site [ion binding]; other site 331112003030 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 331112003031 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 331112003032 Walker A/P-loop; other site 331112003033 ATP binding site [chemical binding]; other site 331112003034 Q-loop/lid; other site 331112003035 ABC transporter signature motif; other site 331112003036 Walker B; other site 331112003037 D-loop; other site 331112003038 H-loop/switch region; other site 331112003039 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 331112003040 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 331112003041 dimer interface [polypeptide binding]; other site 331112003042 conserved gate region; other site 331112003043 putative PBP binding loops; other site 331112003044 ABC-ATPase subunit interface; other site 331112003045 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 331112003046 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 331112003047 active site 331112003048 dimer interface [polypeptide binding]; other site 331112003049 non-prolyl cis peptide bond; other site 331112003050 insertion regions; other site 331112003051 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 331112003052 substrate binding pocket [chemical binding]; other site 331112003053 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 331112003054 membrane-bound complex binding site; other site 331112003055 hinge residues; other site 331112003056 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 331112003057 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 331112003058 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 331112003059 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 331112003060 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 331112003061 outer membrane usher protein; Provisional; Region: PRK15193 331112003062 PapC N-terminal domain; Region: PapC_N; pfam13954 331112003063 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 331112003064 PapC C-terminal domain; Region: PapC_C; pfam13953 331112003065 Fimbrial protein; Region: Fimbrial; cl01416 331112003066 Fimbrial protein; Region: Fimbrial; cl01416 331112003067 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 331112003068 putativi pili assembly chaperone; Provisional; Region: PRK11385 331112003069 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 331112003070 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 331112003071 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 331112003072 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 331112003073 quinone interaction residues [chemical binding]; other site 331112003074 active site 331112003075 catalytic residues [active] 331112003076 FMN binding site [chemical binding]; other site 331112003077 substrate binding site [chemical binding]; other site 331112003078 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 331112003079 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 331112003080 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 331112003081 MOSC domain; Region: MOSC; pfam03473 331112003082 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 331112003083 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 331112003084 catalytic loop [active] 331112003085 iron binding site [ion binding]; other site 331112003086 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 331112003087 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 331112003088 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 331112003089 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 331112003090 S-adenosylmethionine binding site [chemical binding]; other site 331112003091 ABC transporter ATPase component; Reviewed; Region: PRK11147 331112003092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112003093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112003094 Walker A/P-loop; other site 331112003095 Walker A/P-loop; other site 331112003096 ATP binding site [chemical binding]; other site 331112003097 ATP binding site [chemical binding]; other site 331112003098 Q-loop/lid; other site 331112003099 Q-loop/lid; other site 331112003100 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 331112003101 ABC transporter signature motif; other site 331112003102 Walker B; other site 331112003103 D-loop; other site 331112003104 ABC transporter; Region: ABC_tran_2; pfam12848 331112003105 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 331112003106 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 331112003107 Paraquat-inducible protein A; Region: PqiA; pfam04403 331112003108 Paraquat-inducible protein A; Region: PqiA; pfam04403 331112003109 paraquat-inducible protein B; Provisional; Region: PRK10807 331112003110 mce related protein; Region: MCE; pfam02470 331112003111 mce related protein; Region: MCE; pfam02470 331112003112 mce related protein; Region: MCE; pfam02470 331112003113 DASH complex subunit Duo1; Region: DASH_Duo1; pfam08651 331112003114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 331112003115 Protein of unknown function (DUF330); Region: DUF330; pfam03886 331112003116 ribosome modulation factor; Provisional; Region: PRK14563 331112003117 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 331112003118 active site 1 [active] 331112003119 dimer interface [polypeptide binding]; other site 331112003120 active site 2 [active] 331112003121 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 331112003122 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 331112003123 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 331112003124 outer membrane protein A; Reviewed; Region: PRK10808 331112003125 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 331112003126 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 331112003127 ligand binding site [chemical binding]; other site 331112003128 cell division inhibitor SulA; Region: sula; TIGR00623 331112003129 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 331112003130 TfoX C-terminal domain; Region: TfoX_C; pfam04994 331112003131 TIGR01666 family membrane protein; Region: YCCS 331112003132 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 331112003133 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 331112003134 Predicted membrane protein [Function unknown]; Region: COG3304 331112003135 Domain of unknown function (DUF307); Region: DUF307; pfam03733 331112003136 Domain of unknown function (DUF307); Region: DUF307; pfam03733 331112003137 DNA helicase IV; Provisional; Region: helD; PRK11054 331112003138 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 331112003139 Part of AAA domain; Region: AAA_19; pfam13245 331112003140 Family description; Region: UvrD_C_2; pfam13538 331112003141 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 331112003142 active site 331112003143 dimer interfaces [polypeptide binding]; other site 331112003144 catalytic residues [active] 331112003145 hypothetical protein; Provisional; Region: PRK03641 331112003146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 331112003147 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 331112003148 heat shock protein HspQ; Provisional; Region: PRK14129 331112003149 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 331112003150 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 331112003151 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 331112003152 putative RNA binding site [nucleotide binding]; other site 331112003153 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 331112003154 S-adenosylmethionine binding site [chemical binding]; other site 331112003155 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 331112003156 sulfur transfer protein TusE; Provisional; Region: PRK11508 331112003157 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 331112003158 YccA-like proteins; Region: YccA_like; cd10433 331112003159 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 331112003160 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 331112003161 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 331112003162 hydrogenase 1 large subunit; Provisional; Region: PRK10170 331112003163 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 331112003164 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 331112003165 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 331112003166 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 331112003167 putative substrate-binding site; other site 331112003168 nickel binding site [ion binding]; other site 331112003169 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 331112003170 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 331112003171 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 331112003172 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 331112003173 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 331112003174 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 331112003175 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 331112003176 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 331112003177 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 331112003178 catalytic core [active] 331112003179 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 331112003180 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 331112003181 Chain length determinant protein; Region: Wzz; pfam02706 331112003182 Chain length determinant protein; Region: Wzz; cl15801 331112003183 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 331112003184 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 331112003185 Nucleotide binding site [chemical binding]; other site 331112003186 Low molecular weight phosphatase family; Region: LMWPc; cd00115 331112003187 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 331112003188 active site 331112003189 polysaccharide export protein Wza; Provisional; Region: PRK15078 331112003190 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 331112003191 SLBB domain; Region: SLBB; pfam10531 331112003192 SLBB domain; Region: SLBB; pfam10531 331112003193 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 331112003194 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 331112003195 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 331112003196 DNA-binding site [nucleotide binding]; DNA binding site 331112003197 RNA-binding motif; other site 331112003198 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 331112003199 DNA-binding site [nucleotide binding]; DNA binding site 331112003200 RNA-binding motif; other site 331112003201 cold shock gene; Provisional; Region: PRK09891 331112003202 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 331112003203 4Fe-4S binding domain; Region: Fer4_5; pfam12801 331112003204 4Fe-4S binding domain; Region: Fer4_5; pfam12801 331112003205 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 331112003206 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 331112003207 HAMP domain; Region: HAMP; pfam00672 331112003208 dimerization interface [polypeptide binding]; other site 331112003209 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 331112003210 dimer interface [polypeptide binding]; other site 331112003211 phosphorylation site [posttranslational modification] 331112003212 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 331112003213 ATP binding site [chemical binding]; other site 331112003214 Mg2+ binding site [ion binding]; other site 331112003215 G-X-G motif; other site 331112003216 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 331112003217 active site 331112003218 phosphorylation site [posttranslational modification] 331112003219 intermolecular recognition site; other site 331112003220 dimerization interface [polypeptide binding]; other site 331112003221 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 331112003222 putative binding surface; other site 331112003223 active site 331112003224 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 331112003225 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 331112003226 putative ligand binding site [chemical binding]; other site 331112003227 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 331112003228 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 331112003229 active site 331112003230 phosphorylation site [posttranslational modification] 331112003231 intermolecular recognition site; other site 331112003232 dimerization interface [polypeptide binding]; other site 331112003233 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 331112003234 DNA binding site [nucleotide binding] 331112003235 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 331112003236 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 331112003237 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 331112003238 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 331112003239 molybdopterin cofactor binding site [chemical binding]; other site 331112003240 substrate binding site [chemical binding]; other site 331112003241 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 331112003242 molybdopterin cofactor binding site; other site 331112003243 chaperone protein TorD; Validated; Region: torD; PRK04976 331112003244 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 331112003245 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 331112003246 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 331112003247 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 331112003248 HSP70 interaction site [polypeptide binding]; other site 331112003249 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 331112003250 substrate binding site [polypeptide binding]; other site 331112003251 dimer interface [polypeptide binding]; other site 331112003252 hypothetical protein; Provisional; Region: PRK09784 331112003253 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 331112003254 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 331112003255 catalytic core [active] 331112003256 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 331112003257 hypothetical protein; Provisional; Region: PRK10174 331112003258 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 331112003259 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 331112003260 General stress protein [General function prediction only]; Region: GsiB; COG3729 331112003261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112003262 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112003263 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112003264 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 331112003265 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 331112003266 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 331112003267 putative FMN binding site [chemical binding]; other site 331112003268 pyrimidine utilization protein D; Region: RutD; TIGR03611 331112003269 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 331112003270 homotrimer interaction site [polypeptide binding]; other site 331112003271 putative active site [active] 331112003272 Isochorismatase family; Region: Isochorismatase; pfam00857 331112003273 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 331112003274 catalytic triad [active] 331112003275 conserved cis-peptide bond; other site 331112003276 pyrimidine utilization protein A; Region: RutA; TIGR03612 331112003277 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 331112003278 active site 331112003279 dimer interface [polypeptide binding]; other site 331112003280 non-prolyl cis peptide bond; other site 331112003281 insertion regions; other site 331112003282 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 331112003283 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 331112003284 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112003285 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 331112003286 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 331112003287 Predicted transcriptional regulator [Transcription]; Region: COG3905 331112003288 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 331112003289 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 331112003290 Glutamate binding site [chemical binding]; other site 331112003291 NAD binding site [chemical binding]; other site 331112003292 catalytic residues [active] 331112003293 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 331112003294 Na binding site [ion binding]; other site 331112003295 FTR1 family protein; Region: TIGR00145 331112003296 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 331112003297 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 331112003298 Imelysin; Region: Peptidase_M75; pfam09375 331112003299 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 331112003300 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 331112003301 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 331112003302 hypothetical protein; Provisional; Region: PRK10536 331112003303 putative PGA biosynthesis protein; Provisional; Region: pgaD; PRK14585 331112003304 N-glycosyltransferase; Provisional; Region: PRK11204 331112003305 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 331112003306 DXD motif; other site 331112003307 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 331112003308 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 331112003309 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 331112003310 putative active site [active] 331112003311 putative metal binding site [ion binding]; other site 331112003312 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112003313 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112003314 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112003315 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112003316 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 331112003317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112003318 metal binding site [ion binding]; metal-binding site 331112003319 active site 331112003320 I-site; other site 331112003321 Transposase; Region: HTH_Tnp_1; cl17663 331112003322 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112003323 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 331112003324 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 331112003325 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 331112003326 putative ligand binding site [chemical binding]; other site 331112003327 NAD binding site [chemical binding]; other site 331112003328 dimerization interface [polypeptide binding]; other site 331112003329 catalytic site [active] 331112003330 putative hydrolase; Validated; Region: PRK09248 331112003331 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 331112003332 active site 331112003333 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 331112003334 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 331112003335 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 331112003336 curli assembly protein CsgF; Provisional; Region: PRK10050 331112003337 curli assembly protein CsgE; Provisional; Region: PRK10386 331112003338 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 331112003339 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 331112003340 DNA binding residues [nucleotide binding] 331112003341 dimerization interface [polypeptide binding]; other site 331112003342 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 331112003343 Curlin associated repeat; Region: Curlin_rpt; pfam07012 331112003344 Curlin associated repeat; Region: Curlin_rpt; pfam07012 331112003345 major curlin subunit; Provisional; Region: csgA; PRK10051 331112003346 Curlin associated repeat; Region: Curlin_rpt; pfam07012 331112003347 Curlin associated repeat; Region: Curlin_rpt; pfam07012 331112003348 curli assembly protein CsgC; Provisional; Region: csgC; PRK10102 331112003349 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112003350 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112003351 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112003352 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112003353 Fimbrial protein; Region: Fimbrial; cl01416 331112003354 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 331112003355 putative ADP-ribose binding site [chemical binding]; other site 331112003356 putative active site [active] 331112003357 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 331112003358 PLD-like domain; Region: PLDc_2; pfam13091 331112003359 putative active site [active] 331112003360 catalytic site [active] 331112003361 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 331112003362 PLD-like domain; Region: PLDc_2; pfam13091 331112003363 putative active site [active] 331112003364 catalytic site [active] 331112003365 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 331112003366 Acyltransferase family; Region: Acyl_transf_3; pfam01757 331112003367 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 331112003368 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 331112003369 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 331112003370 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 331112003371 Ligand binding site; other site 331112003372 DXD motif; other site 331112003373 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 331112003374 lipoprotein; Provisional; Region: PRK10175 331112003375 secY/secA suppressor protein; Provisional; Region: PRK11467 331112003376 drug efflux system protein MdtG; Provisional; Region: PRK09874 331112003377 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112003378 putative substrate translocation pore; other site 331112003379 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 331112003380 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 331112003381 putative acyl-acceptor binding pocket; other site 331112003382 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 331112003383 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 331112003384 active site residue [active] 331112003385 hypothetical protein; Provisional; Region: PRK03757 331112003386 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 331112003387 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 331112003388 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 331112003389 hydroxyglutarate oxidase; Provisional; Region: PRK11728 331112003390 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 331112003391 DNA damage-inducible protein I; Provisional; Region: PRK10597 331112003392 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 331112003393 active site 331112003394 substrate binding pocket [chemical binding]; other site 331112003395 dimer interface [polypeptide binding]; other site 331112003396 lipoprotein; Provisional; Region: PRK10598 331112003397 glutaredoxin 2; Provisional; Region: PRK10387 331112003398 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 331112003399 C-terminal domain interface [polypeptide binding]; other site 331112003400 GSH binding site (G-site) [chemical binding]; other site 331112003401 catalytic residues [active] 331112003402 putative dimer interface [polypeptide binding]; other site 331112003403 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 331112003404 N-terminal domain interface [polypeptide binding]; other site 331112003405 multidrug resistance protein MdtH; Provisional; Region: PRK11646 331112003406 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112003407 putative substrate translocation pore; other site 331112003408 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 331112003409 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 331112003410 hypothetical protein; Provisional; Region: PRK11239 331112003411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 331112003412 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 331112003413 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 331112003414 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 331112003415 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 331112003416 MviN-like protein; Region: MVIN; pfam03023 331112003417 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 331112003418 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 331112003419 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 331112003420 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 331112003421 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 331112003422 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 331112003423 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 331112003424 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 331112003425 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 331112003426 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 331112003427 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 331112003428 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 331112003429 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 331112003430 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 331112003431 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 331112003432 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 331112003433 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 331112003434 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 331112003435 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 331112003436 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 331112003437 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 331112003438 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 331112003439 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 331112003440 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 331112003441 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 331112003442 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 331112003443 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 331112003444 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 331112003445 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 331112003446 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 331112003447 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 331112003448 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 331112003449 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 331112003450 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 331112003451 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 331112003452 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 331112003453 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 331112003454 homodimer interface [polypeptide binding]; other site 331112003455 oligonucleotide binding site [chemical binding]; other site 331112003456 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 331112003457 RNase E 5' UTR element; EcHS_A4739 331112003458 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 331112003459 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 331112003460 RNA binding surface [nucleotide binding]; other site 331112003461 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 331112003462 active site 331112003463 Maf-like protein; Region: Maf; pfam02545 331112003464 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 331112003465 active site 331112003466 dimer interface [polypeptide binding]; other site 331112003467 hypothetical protein; Provisional; Region: PRK11193 331112003468 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 331112003469 putative phosphate acyltransferase; Provisional; Region: PRK05331 331112003470 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 331112003471 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 331112003472 dimer interface [polypeptide binding]; other site 331112003473 active site 331112003474 CoA binding pocket [chemical binding]; other site 331112003475 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 331112003476 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 331112003477 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 331112003478 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 331112003479 NAD(P) binding site [chemical binding]; other site 331112003480 homotetramer interface [polypeptide binding]; other site 331112003481 homodimer interface [polypeptide binding]; other site 331112003482 active site 331112003483 acyl carrier protein; Provisional; Region: acpP; PRK00982 331112003484 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 331112003485 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 331112003486 dimer interface [polypeptide binding]; other site 331112003487 active site 331112003488 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 331112003489 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 331112003490 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112003491 catalytic residue [active] 331112003492 conserved hypothetical protein, YceG family; Region: TIGR00247 331112003493 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 331112003494 dimerization interface [polypeptide binding]; other site 331112003495 thymidylate kinase; Validated; Region: tmk; PRK00698 331112003496 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 331112003497 TMP-binding site; other site 331112003498 ATP-binding site [chemical binding]; other site 331112003499 DNA polymerase III subunit delta'; Validated; Region: PRK07993 331112003500 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 331112003501 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 331112003502 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 331112003503 active site 331112003504 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 331112003505 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 331112003506 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 331112003507 active site turn [active] 331112003508 phosphorylation site [posttranslational modification] 331112003509 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 331112003510 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 331112003511 N-terminal plug; other site 331112003512 ligand-binding site [chemical binding]; other site 331112003513 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 331112003514 nucleotide binding site/active site [active] 331112003515 HIT family signature motif; other site 331112003516 catalytic residue [active] 331112003517 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 331112003518 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 331112003519 putative dimer interface [polypeptide binding]; other site 331112003520 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 331112003521 thiamine kinase; Region: ycfN_thiK; TIGR02721 331112003522 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 331112003523 active site 331112003524 substrate binding site [chemical binding]; other site 331112003525 ATP binding site [chemical binding]; other site 331112003526 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 331112003527 beta-hexosaminidase; Provisional; Region: PRK05337 331112003528 hypothetical protein; Provisional; Region: PRK04940 331112003529 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 331112003530 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112003531 hypothetical protein; Provisional; Region: PRK11280 331112003532 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 331112003533 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112003534 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 331112003535 L,D-transpeptidase; Provisional; Region: PRK10260 331112003536 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331112003537 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 331112003538 transcription-repair coupling factor; Provisional; Region: PRK10689 331112003539 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 331112003540 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 331112003541 ATP binding site [chemical binding]; other site 331112003542 putative Mg++ binding site [ion binding]; other site 331112003543 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 331112003544 nucleotide binding region [chemical binding]; other site 331112003545 ATP-binding site [chemical binding]; other site 331112003546 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 331112003547 Predicted membrane protein [Function unknown]; Region: COG4763 331112003548 Acyltransferase family; Region: Acyl_transf_3; pfam01757 331112003549 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 331112003550 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 331112003551 Walker A/P-loop; other site 331112003552 ATP binding site [chemical binding]; other site 331112003553 Q-loop/lid; other site 331112003554 ABC transporter signature motif; other site 331112003555 Walker B; other site 331112003556 D-loop; other site 331112003557 H-loop/switch region; other site 331112003558 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 331112003559 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 331112003560 FtsX-like permease family; Region: FtsX; pfam02687 331112003561 fructokinase; Reviewed; Region: PRK09557 331112003562 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 331112003563 nucleotide binding site [chemical binding]; other site 331112003564 NAD-dependent deacetylase; Provisional; Region: PRK00481 331112003565 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 331112003566 NAD+ binding site [chemical binding]; other site 331112003567 substrate binding site [chemical binding]; other site 331112003568 Zn binding site [ion binding]; other site 331112003569 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 331112003570 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 331112003571 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 331112003572 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 331112003573 dimer interface [polypeptide binding]; other site 331112003574 conserved gate region; other site 331112003575 putative PBP binding loops; other site 331112003576 ABC-ATPase subunit interface; other site 331112003577 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 331112003578 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 331112003579 dimer interface [polypeptide binding]; other site 331112003580 conserved gate region; other site 331112003581 putative PBP binding loops; other site 331112003582 ABC-ATPase subunit interface; other site 331112003583 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 331112003584 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112003585 Walker A/P-loop; other site 331112003586 ATP binding site [chemical binding]; other site 331112003587 Q-loop/lid; other site 331112003588 ABC transporter signature motif; other site 331112003589 Walker B; other site 331112003590 D-loop; other site 331112003591 H-loop/switch region; other site 331112003592 TOBE domain; Region: TOBE_2; pfam08402 331112003593 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 331112003594 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 331112003595 metal binding site [ion binding]; metal-binding site 331112003596 dimer interface [polypeptide binding]; other site 331112003597 Uncharacterized conserved protein [Function unknown]; Region: COG2850 331112003598 Cupin-like domain; Region: Cupin_8; pfam13621 331112003599 sensor protein PhoQ; Provisional; Region: PRK10815 331112003600 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 331112003601 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 331112003602 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 331112003603 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 331112003604 ATP binding site [chemical binding]; other site 331112003605 Mg2+ binding site [ion binding]; other site 331112003606 G-X-G motif; other site 331112003607 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 331112003608 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 331112003609 active site 331112003610 phosphorylation site [posttranslational modification] 331112003611 intermolecular recognition site; other site 331112003612 dimerization interface [polypeptide binding]; other site 331112003613 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 331112003614 DNA binding site [nucleotide binding] 331112003615 adenylosuccinate lyase; Provisional; Region: PRK09285 331112003616 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 331112003617 tetramer interface [polypeptide binding]; other site 331112003618 active site 331112003619 putative lysogenization regulator; Reviewed; Region: PRK00218 331112003620 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 331112003621 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 331112003622 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 331112003623 nudix motif; other site 331112003624 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 331112003625 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 331112003626 probable active site [active] 331112003627 isocitrate dehydrogenase; Validated; Region: PRK07362 331112003628 isocitrate dehydrogenase; Reviewed; Region: PRK07006 331112003629 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 331112003630 transcriptional regulator MirA; Provisional; Region: PRK15043 331112003631 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 331112003632 DNA binding residues [nucleotide binding] 331112003633 Sensors of blue-light using FAD; Region: BLUF; smart01034 331112003634 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 331112003635 putative transposase OrfB; Reviewed; Region: PHA02517 331112003636 HTH-like domain; Region: HTH_21; pfam13276 331112003637 Integrase core domain; Region: rve; pfam00665 331112003638 Integrase core domain; Region: rve_2; pfam13333 331112003639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112003640 Transposase; Region: HTH_Tnp_1; pfam01527 331112003641 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 331112003642 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 331112003643 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 331112003644 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 331112003645 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 331112003646 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 331112003647 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 331112003648 cell division inhibitor MinD; Provisional; Region: PRK10818 331112003649 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 331112003650 Switch I; other site 331112003651 Switch II; other site 331112003652 septum formation inhibitor; Reviewed; Region: minC; PRK03511 331112003653 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 331112003654 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 331112003655 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 331112003656 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 331112003657 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 331112003658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 331112003659 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 331112003660 hypothetical protein; Provisional; Region: PRK10691 331112003661 hypothetical protein; Provisional; Region: PRK05170 331112003662 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 331112003663 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 331112003664 Catalytic site [active] 331112003665 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 331112003666 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 331112003667 active site 331112003668 DNA binding site [nucleotide binding] 331112003669 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 331112003670 disulfide bond formation protein B; Provisional; Region: PRK01749 331112003671 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 331112003672 transmembrane helices; other site 331112003673 fatty acid metabolism regulator; Provisional; Region: PRK04984 331112003674 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112003675 DNA-binding site [nucleotide binding]; DNA binding site 331112003676 FadR C-terminal domain; Region: FadR_C; pfam07840 331112003677 SpoVR family protein; Provisional; Region: PRK11767 331112003678 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 331112003679 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 331112003680 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112003681 alanine racemase; Reviewed; Region: dadX; PRK03646 331112003682 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 331112003683 active site 331112003684 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 331112003685 substrate binding site [chemical binding]; other site 331112003686 catalytic residues [active] 331112003687 dimer interface [polypeptide binding]; other site 331112003688 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 331112003689 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 331112003690 TrkA-C domain; Region: TrkA_C; pfam02080 331112003691 Transporter associated domain; Region: CorC_HlyC; smart01091 331112003692 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 331112003693 dimer interface [polypeptide binding]; other site 331112003694 catalytic triad [active] 331112003695 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 331112003696 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 331112003697 N-acetyl-D-glucosamine binding site [chemical binding]; other site 331112003698 catalytic residue [active] 331112003699 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 331112003700 Flagellar regulator YcgR; Region: YcgR; pfam07317 331112003701 PilZ domain; Region: PilZ; pfam07238 331112003702 hypothetical protein; Provisional; Region: PRK10457 331112003703 trehalase; Provisional; Region: treA; PRK13271 331112003704 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 331112003705 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 331112003706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 331112003707 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 331112003708 dimerization domain swap beta strand [polypeptide binding]; other site 331112003709 regulatory protein interface [polypeptide binding]; other site 331112003710 active site 331112003711 regulatory phosphorylation site [posttranslational modification]; other site 331112003712 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 331112003713 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 331112003714 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 331112003715 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 331112003716 Dak1 domain; Region: Dak1; pfam02733 331112003717 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 331112003718 PAS domain; Region: PAS; smart00091 331112003719 putative active site [active] 331112003720 heme pocket [chemical binding]; other site 331112003721 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 331112003722 Walker A motif; other site 331112003723 ATP binding site [chemical binding]; other site 331112003724 Walker B motif; other site 331112003725 arginine finger; other site 331112003726 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 331112003727 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 331112003728 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 331112003729 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331112003730 GTP-binding protein YchF; Reviewed; Region: PRK09601 331112003731 YchF GTPase; Region: YchF; cd01900 331112003732 G1 box; other site 331112003733 GTP/Mg2+ binding site [chemical binding]; other site 331112003734 Switch I region; other site 331112003735 G2 box; other site 331112003736 Switch II region; other site 331112003737 G3 box; other site 331112003738 G4 box; other site 331112003739 G5 box; other site 331112003740 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 331112003741 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 331112003742 putative active site [active] 331112003743 catalytic residue [active] 331112003744 hypothetical protein; Provisional; Region: PRK10692 331112003745 putative transporter; Provisional; Region: PRK11660 331112003746 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 331112003747 Sulfate transporter family; Region: Sulfate_transp; pfam00916 331112003748 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 331112003749 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 331112003750 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 331112003751 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331112003752 active site 331112003753 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 331112003754 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 331112003755 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 331112003756 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 331112003757 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 331112003758 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 331112003759 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 331112003760 tRNA; other site 331112003761 putative tRNA binding site [nucleotide binding]; other site 331112003762 putative NADP binding site [chemical binding]; other site 331112003763 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 331112003764 peptide chain release factor 1; Validated; Region: prfA; PRK00591 331112003765 This domain is found in peptide chain release factors; Region: PCRF; smart00937 331112003766 RF-1 domain; Region: RF-1; pfam00472 331112003767 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 331112003768 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 331112003769 hypothetical protein; Provisional; Region: PRK10278 331112003770 hypothetical protein; Provisional; Region: PRK10941 331112003771 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 331112003772 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 331112003773 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 331112003774 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 331112003775 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 331112003776 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 331112003777 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 331112003778 cation transport regulator; Reviewed; Region: chaB; PRK09582 331112003779 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 331112003780 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 331112003781 putative active site pocket [active] 331112003782 dimerization interface [polypeptide binding]; other site 331112003783 putative catalytic residue [active] 331112003784 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 331112003785 putative invasin; Provisional; Region: PRK10177 331112003786 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 331112003787 transcriptional regulator NarL; Provisional; Region: PRK10651 331112003788 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 331112003789 active site 331112003790 phosphorylation site [posttranslational modification] 331112003791 intermolecular recognition site; other site 331112003792 dimerization interface [polypeptide binding]; other site 331112003793 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 331112003794 DNA binding residues [nucleotide binding] 331112003795 dimerization interface [polypeptide binding]; other site 331112003796 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 331112003797 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 331112003798 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 331112003799 dimerization interface [polypeptide binding]; other site 331112003800 Histidine kinase; Region: HisKA_3; pfam07730 331112003801 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 331112003802 ATP binding site [chemical binding]; other site 331112003803 Mg2+ binding site [ion binding]; other site 331112003804 G-X-G motif; other site 331112003805 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 331112003806 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 331112003807 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 331112003808 [4Fe-4S] binding site [ion binding]; other site 331112003809 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 331112003810 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 331112003811 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 331112003812 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 331112003813 molybdopterin cofactor binding site; other site 331112003814 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 331112003815 4Fe-4S binding domain; Region: Fer4; cl02805 331112003816 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 331112003817 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 331112003818 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 331112003819 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 331112003820 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 331112003821 putative active site [active] 331112003822 putative substrate binding site [chemical binding]; other site 331112003823 putative cosubstrate binding site; other site 331112003824 catalytic site [active] 331112003825 SEC-C motif; Region: SEC-C; pfam02810 331112003826 hypothetical protein; Provisional; Region: PRK04233 331112003827 hypothetical protein; Provisional; Region: PRK10279 331112003828 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 331112003829 active site 331112003830 nucleophile elbow; other site 331112003831 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 331112003832 active site 331112003833 response regulator of RpoS; Provisional; Region: PRK10693 331112003834 phosphorylation site [posttranslational modification] 331112003835 intermolecular recognition site; other site 331112003836 dimerization interface [polypeptide binding]; other site 331112003837 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 331112003838 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 331112003839 active site 331112003840 tetramer interface; other site 331112003841 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 331112003842 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 331112003843 thymidine kinase; Provisional; Region: PRK04296 331112003844 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 331112003845 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 331112003846 putative catalytic cysteine [active] 331112003847 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 331112003848 putative active site [active] 331112003849 metal binding site [ion binding]; metal-binding site 331112003850 hypothetical protein; Provisional; Region: PRK11111 331112003851 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 331112003852 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331112003853 peptide binding site [polypeptide binding]; other site 331112003854 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 331112003855 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 331112003856 dimer interface [polypeptide binding]; other site 331112003857 conserved gate region; other site 331112003858 putative PBP binding loops; other site 331112003859 ABC-ATPase subunit interface; other site 331112003860 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 331112003861 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 331112003862 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 331112003863 dimer interface [polypeptide binding]; other site 331112003864 conserved gate region; other site 331112003865 putative PBP binding loops; other site 331112003866 ABC-ATPase subunit interface; other site 331112003867 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 331112003868 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112003869 Walker A/P-loop; other site 331112003870 ATP binding site [chemical binding]; other site 331112003871 Q-loop/lid; other site 331112003872 ABC transporter signature motif; other site 331112003873 Walker B; other site 331112003874 D-loop; other site 331112003875 H-loop/switch region; other site 331112003876 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 331112003877 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 331112003878 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112003879 Walker A/P-loop; other site 331112003880 ATP binding site [chemical binding]; other site 331112003881 Q-loop/lid; other site 331112003882 ABC transporter signature motif; other site 331112003883 Walker B; other site 331112003884 D-loop; other site 331112003885 H-loop/switch region; other site 331112003886 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 331112003887 dsDNA-mimic protein; Reviewed; Region: PRK05094 331112003888 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 331112003889 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 331112003890 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 331112003891 putative active site [active] 331112003892 catalytic site [active] 331112003893 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 331112003894 putative active site [active] 331112003895 catalytic site [active] 331112003896 voltage-gated potassium channel; Provisional; Region: PRK10537 331112003897 Ion channel; Region: Ion_trans_2; pfam07885 331112003898 TrkA-N domain; Region: TrkA_N; pfam02254 331112003899 YciI-like protein; Reviewed; Region: PRK11370 331112003900 transport protein TonB; Provisional; Region: PRK10819 331112003901 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 331112003902 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 331112003903 intracellular septation protein A; Reviewed; Region: PRK00259 331112003904 hypothetical protein; Provisional; Region: PRK02868 331112003905 outer membrane protein W; Provisional; Region: PRK10959 331112003906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 331112003907 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 331112003908 dimerization interface [polypeptide binding]; other site 331112003909 metal binding site [ion binding]; metal-binding site 331112003910 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 331112003911 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 331112003912 substrate binding site [chemical binding]; other site 331112003913 active site 331112003914 catalytic residues [active] 331112003915 heterodimer interface [polypeptide binding]; other site 331112003916 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 331112003917 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 331112003918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112003919 catalytic residue [active] 331112003920 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 331112003921 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 331112003922 active site 331112003923 ribulose/triose binding site [chemical binding]; other site 331112003924 phosphate binding site [ion binding]; other site 331112003925 substrate (anthranilate) binding pocket [chemical binding]; other site 331112003926 product (indole) binding pocket [chemical binding]; other site 331112003927 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 331112003928 active site 331112003929 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 331112003930 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 331112003931 glutamine binding [chemical binding]; other site 331112003932 catalytic triad [active] 331112003933 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 331112003934 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 331112003935 anthranilate synthase component I; Provisional; Region: PRK13564 331112003936 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 331112003937 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 331112003938 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 331112003939 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 331112003940 active site 331112003941 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 331112003942 hypothetical protein; Provisional; Region: PRK11630 331112003943 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 331112003944 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 331112003945 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 331112003946 RNA binding surface [nucleotide binding]; other site 331112003947 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 331112003948 probable active site [active] 331112003949 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 331112003950 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 331112003951 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 331112003952 homodimer interface [polypeptide binding]; other site 331112003953 Walker A motif; other site 331112003954 ATP binding site [chemical binding]; other site 331112003955 hydroxycobalamin binding site [chemical binding]; other site 331112003956 Walker B motif; other site 331112003957 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 331112003958 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 331112003959 NADP binding site [chemical binding]; other site 331112003960 homodimer interface [polypeptide binding]; other site 331112003961 active site 331112003962 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 331112003963 putative inner membrane peptidase; Provisional; Region: PRK11778 331112003964 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 331112003965 tandem repeat interface [polypeptide binding]; other site 331112003966 oligomer interface [polypeptide binding]; other site 331112003967 active site residues [active] 331112003968 hypothetical protein; Provisional; Region: PRK11037 331112003969 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 331112003970 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 331112003971 active site 331112003972 interdomain interaction site; other site 331112003973 putative metal-binding site [ion binding]; other site 331112003974 nucleotide binding site [chemical binding]; other site 331112003975 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 331112003976 domain I; other site 331112003977 DNA binding groove [nucleotide binding] 331112003978 phosphate binding site [ion binding]; other site 331112003979 domain II; other site 331112003980 domain III; other site 331112003981 nucleotide binding site [chemical binding]; other site 331112003982 catalytic site [active] 331112003983 domain IV; other site 331112003984 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331112003985 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331112003986 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 331112003987 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 331112003988 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 331112003989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112003990 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 331112003991 substrate binding site [chemical binding]; other site 331112003992 putative dimerization interface [polypeptide binding]; other site 331112003993 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112003994 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112003995 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112003996 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112003997 aconitate hydratase; Validated; Region: PRK09277 331112003998 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 331112003999 substrate binding site [chemical binding]; other site 331112004000 ligand binding site [chemical binding]; other site 331112004001 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 331112004002 substrate binding site [chemical binding]; other site 331112004003 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 331112004004 dimerization interface [polypeptide binding]; other site 331112004005 active site 331112004006 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 331112004007 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 331112004008 active site 331112004009 Predicted membrane protein [Function unknown]; Region: COG3771 331112004010 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 331112004011 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 331112004012 TPR motif; other site 331112004013 binding surface 331112004014 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 331112004015 binding surface 331112004016 TPR motif; other site 331112004017 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 331112004018 active site 331112004019 dimer interface [polypeptide binding]; other site 331112004020 translation initiation factor Sui1; Validated; Region: PRK06824 331112004021 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 331112004022 putative rRNA binding site [nucleotide binding]; other site 331112004023 lipoprotein; Provisional; Region: PRK10540 331112004024 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 331112004025 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 331112004026 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 331112004027 hypothetical protein; Provisional; Region: PRK13658 331112004028 RNase II stability modulator; Provisional; Region: PRK10060 331112004029 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 331112004030 putative active site [active] 331112004031 heme pocket [chemical binding]; other site 331112004032 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112004033 metal binding site [ion binding]; metal-binding site 331112004034 active site 331112004035 I-site; other site 331112004036 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 331112004037 exoribonuclease II; Provisional; Region: PRK05054 331112004038 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 331112004039 RNB domain; Region: RNB; pfam00773 331112004040 S1 RNA binding domain; Region: S1; pfam00575 331112004041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 331112004042 Uncharacterized conserved protein [Function unknown]; Region: COG2128 331112004043 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 331112004044 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 331112004045 NAD binding site [chemical binding]; other site 331112004046 homotetramer interface [polypeptide binding]; other site 331112004047 homodimer interface [polypeptide binding]; other site 331112004048 substrate binding site [chemical binding]; other site 331112004049 active site 331112004050 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 331112004051 putative active site [active] 331112004052 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 331112004053 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112004054 Walker A/P-loop; other site 331112004055 ATP binding site [chemical binding]; other site 331112004056 Q-loop/lid; other site 331112004057 ABC transporter signature motif; other site 331112004058 Walker B; other site 331112004059 D-loop; other site 331112004060 H-loop/switch region; other site 331112004061 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 331112004062 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112004063 Walker A/P-loop; other site 331112004064 ATP binding site [chemical binding]; other site 331112004065 Q-loop/lid; other site 331112004066 ABC transporter signature motif; other site 331112004067 Walker B; other site 331112004068 D-loop; other site 331112004069 H-loop/switch region; other site 331112004070 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331112004071 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 331112004072 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 331112004073 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 331112004074 dimer interface [polypeptide binding]; other site 331112004075 conserved gate region; other site 331112004076 putative PBP binding loops; other site 331112004077 ABC-ATPase subunit interface; other site 331112004078 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 331112004079 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 331112004080 dimer interface [polypeptide binding]; other site 331112004081 conserved gate region; other site 331112004082 putative PBP binding loops; other site 331112004083 ABC-ATPase subunit interface; other site 331112004084 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 331112004085 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 331112004086 peptide binding site [polypeptide binding]; other site 331112004087 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 331112004088 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 331112004089 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 331112004090 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 331112004091 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 331112004092 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 331112004093 catalytic triad [active] 331112004094 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 331112004095 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 331112004096 non-specific DNA binding site [nucleotide binding]; other site 331112004097 salt bridge; other site 331112004098 sequence-specific DNA binding site [nucleotide binding]; other site 331112004099 Cupin domain; Region: Cupin_2; pfam07883 331112004100 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 331112004101 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 331112004102 NAD(P) binding site [chemical binding]; other site 331112004103 catalytic residues [active] 331112004104 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 331112004105 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 331112004106 4-aminobutyrate transaminase; Provisional; Region: PRK09792 331112004107 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 331112004108 inhibitor-cofactor binding pocket; inhibition site 331112004109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112004110 catalytic residue [active] 331112004111 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 331112004112 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 331112004113 Walker A motif; other site 331112004114 ATP binding site [chemical binding]; other site 331112004115 Walker B motif; other site 331112004116 arginine finger; other site 331112004117 phage shock protein PspA; Provisional; Region: PRK10698 331112004118 phage shock protein B; Provisional; Region: pspB; PRK09458 331112004119 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 331112004120 phage shock protein C; Region: phageshock_pspC; TIGR02978 331112004121 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 331112004122 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 331112004123 active site residue [active] 331112004124 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 331112004125 sucrose phosphorylase; Provisional; Region: PRK13840 331112004126 active site 331112004127 homodimer interface [polypeptide binding]; other site 331112004128 catalytic site [active] 331112004129 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 331112004130 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 331112004131 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 331112004132 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 331112004133 dimer interface [polypeptide binding]; other site 331112004134 conserved gate region; other site 331112004135 putative PBP binding loops; other site 331112004136 ABC-ATPase subunit interface; other site 331112004137 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 331112004138 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 331112004139 dimer interface [polypeptide binding]; other site 331112004140 conserved gate region; other site 331112004141 putative PBP binding loops; other site 331112004142 ABC-ATPase subunit interface; other site 331112004143 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 331112004144 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 331112004145 putative NAD(P) binding site [chemical binding]; other site 331112004146 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 331112004147 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 331112004148 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 331112004149 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 331112004150 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 331112004151 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 331112004152 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 331112004153 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 331112004154 beta-phosphoglucomutase; Region: bPGM; TIGR01990 331112004155 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 331112004156 motif II; other site 331112004157 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 331112004158 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 331112004159 Walker A/P-loop; other site 331112004160 ATP binding site [chemical binding]; other site 331112004161 Q-loop/lid; other site 331112004162 ABC transporter signature motif; other site 331112004163 Walker B; other site 331112004164 D-loop; other site 331112004165 H-loop/switch region; other site 331112004166 TOBE domain; Region: TOBE_2; pfam08402 331112004167 Outer membrane protein G (OmpG); Region: Porin_OmpG; pfam09381 331112004168 Transcriptional regulators [Transcription]; Region: PurR; COG1609 331112004169 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112004170 DNA binding site [nucleotide binding] 331112004171 domain linker motif; other site 331112004172 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 331112004173 putative dimerization interface [polypeptide binding]; other site 331112004174 putative ligand binding site [chemical binding]; other site 331112004175 Predicted ATPase [General function prediction only]; Region: COG3106 331112004176 hypothetical protein; Provisional; Region: PRK05415 331112004177 TIGR01620 family protein; Region: hyp_HI0043 331112004178 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 331112004179 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 331112004180 putative aromatic amino acid binding site; other site 331112004181 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 331112004182 Walker A motif; other site 331112004183 ATP binding site [chemical binding]; other site 331112004184 Walker B motif; other site 331112004185 arginine finger; other site 331112004186 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 331112004187 dimer interface [polypeptide binding]; other site 331112004188 catalytic triad [active] 331112004189 peroxidatic and resolving cysteines [active] 331112004190 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 331112004191 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 331112004192 active site 331112004193 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 331112004194 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 331112004195 putative active site [active] 331112004196 Zn binding site [ion binding]; other site 331112004197 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 331112004198 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 331112004199 Transcriptional regulator [Transcription]; Region: LysR; COG0583 331112004200 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112004201 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 331112004202 putative effector binding pocket; other site 331112004203 putative dimerization interface [polypeptide binding]; other site 331112004204 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 331112004205 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331112004206 peptide binding site [polypeptide binding]; other site 331112004207 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 331112004208 Mechanosensitive ion channel; Region: MS_channel; pfam00924 331112004209 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 331112004210 universal stress protein UspE; Provisional; Region: PRK11175 331112004211 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 331112004212 Ligand Binding Site [chemical binding]; other site 331112004213 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 331112004214 Ligand Binding Site [chemical binding]; other site 331112004215 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 331112004216 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 331112004217 ligand binding site [chemical binding]; other site 331112004218 flexible hinge region; other site 331112004219 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 331112004220 putative switch regulator; other site 331112004221 non-specific DNA interactions [nucleotide binding]; other site 331112004222 DNA binding site [nucleotide binding] 331112004223 sequence specific DNA binding site [nucleotide binding]; other site 331112004224 putative cAMP binding site [chemical binding]; other site 331112004225 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 331112004226 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 331112004227 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 331112004228 DNA binding site [nucleotide binding] 331112004229 active site 331112004230 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 331112004231 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 331112004232 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 331112004233 amidohydrolase; Region: amidohydrolases; TIGR01891 331112004234 putative metal binding site [ion binding]; other site 331112004235 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 331112004236 amidohydrolase; Region: amidohydrolases; TIGR01891 331112004237 putative metal binding site [ion binding]; other site 331112004238 dimer interface [polypeptide binding]; other site 331112004239 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 331112004240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112004241 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 331112004242 putative substrate binding pocket [chemical binding]; other site 331112004243 putative dimerization interface [polypeptide binding]; other site 331112004244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 331112004245 Smr domain; Region: Smr; pfam01713 331112004246 PAS domain S-box; Region: sensory_box; TIGR00229 331112004247 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 331112004248 putative active site [active] 331112004249 heme pocket [chemical binding]; other site 331112004250 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 331112004251 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112004252 metal binding site [ion binding]; metal-binding site 331112004253 active site 331112004254 I-site; other site 331112004255 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 331112004256 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 331112004257 Cl binding site [ion binding]; other site 331112004258 oligomer interface [polypeptide binding]; other site 331112004259 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 331112004260 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 331112004261 ATP binding site [chemical binding]; other site 331112004262 Mg++ binding site [ion binding]; other site 331112004263 motif III; other site 331112004264 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 331112004265 nucleotide binding region [chemical binding]; other site 331112004266 ATP-binding site [chemical binding]; other site 331112004267 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 331112004268 putative RNA binding site [nucleotide binding]; other site 331112004269 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 331112004270 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 331112004271 Ligand Binding Site [chemical binding]; other site 331112004272 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 331112004273 Ligand Binding Site [chemical binding]; other site 331112004274 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 331112004275 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 331112004276 trimer interface [polypeptide binding]; other site 331112004277 eyelet of channel; other site 331112004278 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 331112004279 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 331112004280 dimer interface [polypeptide binding]; other site 331112004281 PYR/PP interface [polypeptide binding]; other site 331112004282 TPP binding site [chemical binding]; other site 331112004283 substrate binding site [chemical binding]; other site 331112004284 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 331112004285 Domain of unknown function; Region: EKR; smart00890 331112004286 4Fe-4S binding domain; Region: Fer4_6; pfam12837 331112004287 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 331112004288 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 331112004289 TPP-binding site [chemical binding]; other site 331112004290 dimer interface [polypeptide binding]; other site 331112004291 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 331112004292 Domain of unknown function (DUF333); Region: DUF333; pfam03891 331112004293 heat-inducible protein; Provisional; Region: PRK10449 331112004294 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 331112004295 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 331112004296 putative ligand binding site [chemical binding]; other site 331112004297 putative NAD binding site [chemical binding]; other site 331112004298 catalytic site [active] 331112004299 hypothetical protein; Provisional; Region: PRK10695 331112004300 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 331112004301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 331112004302 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 331112004303 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112004304 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 331112004305 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 331112004306 NAD(P) binding site [chemical binding]; other site 331112004307 catalytic residues [active] 331112004308 tyramine oxidase; Provisional; Region: tynA; PRK14696 331112004309 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 331112004310 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 331112004311 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 331112004312 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 331112004313 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 331112004314 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 331112004315 substrate binding site [chemical binding]; other site 331112004316 dimer interface [polypeptide binding]; other site 331112004317 NADP binding site [chemical binding]; other site 331112004318 catalytic residues [active] 331112004319 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 331112004320 substrate binding site [chemical binding]; other site 331112004321 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 331112004322 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 331112004323 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 331112004324 phenylacetate-CoA oxygenase, PaaI subunit; Region: PA_CoA_Oxy3; TIGR02158 331112004325 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 331112004326 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 331112004327 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 331112004328 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 331112004329 FAD binding pocket [chemical binding]; other site 331112004330 FAD binding motif [chemical binding]; other site 331112004331 phosphate binding motif [ion binding]; other site 331112004332 beta-alpha-beta structure motif; other site 331112004333 NAD(p) ribose binding residues [chemical binding]; other site 331112004334 NAD binding pocket [chemical binding]; other site 331112004335 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 331112004336 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 331112004337 catalytic loop [active] 331112004338 iron binding site [ion binding]; other site 331112004339 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 331112004340 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 331112004341 substrate binding site [chemical binding]; other site 331112004342 oxyanion hole (OAH) forming residues; other site 331112004343 trimer interface [polypeptide binding]; other site 331112004344 enoyl-CoA hydratase; Provisional; Region: PRK08140 331112004345 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 331112004346 substrate binding site [chemical binding]; other site 331112004347 oxyanion hole (OAH) forming residues; other site 331112004348 trimer interface [polypeptide binding]; other site 331112004349 3-hydroxyacyl-CoA dehydrogenase PaaC; Region: PaaC-3OHAcCoADH; TIGR02279 331112004350 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 331112004351 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 331112004352 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 331112004353 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 331112004354 CoenzymeA binding site [chemical binding]; other site 331112004355 subunit interaction site [polypeptide binding]; other site 331112004356 PHB binding site; other site 331112004357 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 331112004358 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 331112004359 dimer interface [polypeptide binding]; other site 331112004360 active site 331112004361 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 331112004362 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 331112004363 active site 331112004364 AMP binding site [chemical binding]; other site 331112004365 homodimer interface [polypeptide binding]; other site 331112004366 acyl-activating enzyme (AAE) consensus motif; other site 331112004367 CoA binding site [chemical binding]; other site 331112004368 PaaX-like protein; Region: PaaX; pfam07848 331112004369 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 331112004370 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 331112004371 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 331112004372 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 331112004373 putative trimer interface [polypeptide binding]; other site 331112004374 putative metal binding site [ion binding]; other site 331112004375 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331112004376 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 331112004377 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 331112004378 active site 331112004379 catalytic tetrad [active] 331112004380 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 331112004381 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 331112004382 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 331112004383 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 331112004384 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 331112004385 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 331112004386 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 331112004387 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 331112004388 S-adenosylmethionine binding site [chemical binding]; other site 331112004389 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 331112004390 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 331112004391 active site 331112004392 Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or...; Region: DSPc; cd00127 331112004393 active site 331112004394 catalytic residues [active] 331112004395 azoreductase; Reviewed; Region: PRK00170 331112004396 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 331112004397 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 331112004398 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 331112004399 ATP binding site [chemical binding]; other site 331112004400 putative Mg++ binding site [ion binding]; other site 331112004401 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 331112004402 nucleotide binding region [chemical binding]; other site 331112004403 ATP-binding site [chemical binding]; other site 331112004404 Helicase associated domain (HA2); Region: HA2; pfam04408 331112004405 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 331112004406 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 331112004407 Uncharacterized conserved protein [Function unknown]; Region: COG1434 331112004408 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 331112004409 putative active site [active] 331112004410 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 331112004411 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 331112004412 NAD binding site [chemical binding]; other site 331112004413 catalytic residues [active] 331112004414 substrate binding site [chemical binding]; other site 331112004415 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 331112004416 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 331112004417 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 331112004418 cytochrome b561; Provisional; Region: PRK11513 331112004419 hypothetical protein; Provisional; Region: PRK10040 331112004420 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 331112004421 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 331112004422 dimer interface [polypeptide binding]; other site 331112004423 ligand binding site [chemical binding]; other site 331112004424 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 331112004425 dimerization interface [polypeptide binding]; other site 331112004426 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 331112004427 dimer interface [polypeptide binding]; other site 331112004428 putative CheW interface [polypeptide binding]; other site 331112004429 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 331112004430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112004431 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 331112004432 dimerization interface [polypeptide binding]; other site 331112004433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 331112004434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 331112004435 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 331112004436 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 331112004437 hypothetical protein; Provisional; Region: PRK11415 331112004438 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 331112004439 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112004440 Coenzyme A binding pocket [chemical binding]; other site 331112004441 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 331112004442 putative trimer interface [polypeptide binding]; other site 331112004443 putative CoA binding site [chemical binding]; other site 331112004444 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 331112004445 putative trimer interface [polypeptide binding]; other site 331112004446 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 331112004447 putative CoA binding site [chemical binding]; other site 331112004448 putative trimer interface [polypeptide binding]; other site 331112004449 putative CoA binding site [chemical binding]; other site 331112004450 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 331112004451 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 331112004452 gating phenylalanine in ion channel; other site 331112004453 tellurite resistance protein TehB; Provisional; Region: PRK11207 331112004454 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 331112004455 S-adenosylmethionine binding site [chemical binding]; other site 331112004456 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 331112004457 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 331112004458 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 331112004459 Probable transposase; Region: OrfB_IS605; pfam01385 331112004460 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 331112004461 benzoate transporter; Region: benE; TIGR00843 331112004462 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 331112004463 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 331112004464 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 331112004465 non-specific DNA binding site [nucleotide binding]; other site 331112004466 salt bridge; other site 331112004467 sequence-specific DNA binding site [nucleotide binding]; other site 331112004468 Cupin domain; Region: Cupin_2; pfam07883 331112004469 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 331112004470 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 331112004471 Peptidase family U32; Region: Peptidase_U32; pfam01136 331112004472 Collagenase; Region: DUF3656; pfam12392 331112004473 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 331112004474 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 331112004475 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 331112004476 sequence-specific DNA binding site [nucleotide binding]; other site 331112004477 salt bridge; other site 331112004478 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 331112004479 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112004480 DNA-binding site [nucleotide binding]; DNA binding site 331112004481 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 331112004482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112004483 homodimer interface [polypeptide binding]; other site 331112004484 catalytic residue [active] 331112004485 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 331112004486 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 331112004487 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 331112004488 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112004489 Walker A/P-loop; other site 331112004490 ATP binding site [chemical binding]; other site 331112004491 Q-loop/lid; other site 331112004492 ABC transporter signature motif; other site 331112004493 Walker B; other site 331112004494 D-loop; other site 331112004495 H-loop/switch region; other site 331112004496 TOBE domain; Region: TOBE_2; pfam08402 331112004497 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 331112004498 dimer interface [polypeptide binding]; other site 331112004499 conserved gate region; other site 331112004500 putative PBP binding loops; other site 331112004501 ABC-ATPase subunit interface; other site 331112004502 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 331112004503 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 331112004504 ABC-ATPase subunit interface; other site 331112004505 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 331112004506 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 331112004507 tetrameric interface [polypeptide binding]; other site 331112004508 NAD binding site [chemical binding]; other site 331112004509 catalytic residues [active] 331112004510 substrate binding site [chemical binding]; other site 331112004511 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112004512 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112004513 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112004514 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112004515 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 331112004516 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 331112004517 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 331112004518 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 331112004519 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 331112004520 Coenzyme A binding pocket [chemical binding]; other site 331112004521 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 331112004522 Prostaglandin dehydrogenases; Region: PGDH; cd05288 331112004523 NAD(P) binding site [chemical binding]; other site 331112004524 substrate binding site [chemical binding]; other site 331112004525 dimer interface [polypeptide binding]; other site 331112004526 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 331112004527 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112004528 DNA-binding site [nucleotide binding]; DNA binding site 331112004529 FCD domain; Region: FCD; pfam07729 331112004530 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 331112004531 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 331112004532 N-terminal plug; other site 331112004533 ligand-binding site [chemical binding]; other site 331112004534 PQQ-like domain; Region: PQQ_2; pfam13360 331112004535 L-asparagine permease; Provisional; Region: PRK15049 331112004536 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 331112004537 C-terminal domain interface [polypeptide binding]; other site 331112004538 GSH binding site (G-site) [chemical binding]; other site 331112004539 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 331112004540 dimer interface [polypeptide binding]; other site 331112004541 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 331112004542 dimer interface [polypeptide binding]; other site 331112004543 N-terminal domain interface [polypeptide binding]; other site 331112004544 substrate binding pocket (H-site) [chemical binding]; other site 331112004545 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 331112004546 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 331112004547 Transposase [DNA replication, recombination, and repair]; Region: COG5433 331112004548 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 331112004549 active site 1 [active] 331112004550 dimer interface [polypeptide binding]; other site 331112004551 hexamer interface [polypeptide binding]; other site 331112004552 active site 2 [active] 331112004553 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 331112004554 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 331112004555 hypothetical protein; Provisional; Region: PRK10281 331112004556 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 331112004557 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 331112004558 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 331112004559 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 331112004560 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 331112004561 [4Fe-4S] binding site [ion binding]; other site 331112004562 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 331112004563 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 331112004564 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 331112004565 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 331112004566 molybdopterin cofactor binding site; other site 331112004567 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 331112004568 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 331112004569 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 331112004570 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 331112004571 aromatic amino acid exporter; Provisional; Region: PRK11689 331112004572 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 331112004573 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 331112004574 [4Fe-4S] binding site [ion binding]; other site 331112004575 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 331112004576 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 331112004577 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 331112004578 molybdopterin cofactor binding site; other site 331112004579 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 331112004580 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 331112004581 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 331112004582 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 331112004583 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 331112004584 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 331112004585 non-specific DNA binding site [nucleotide binding]; other site 331112004586 salt bridge; other site 331112004587 sequence-specific DNA binding site [nucleotide binding]; other site 331112004588 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 331112004589 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 331112004590 NAD binding site [chemical binding]; other site 331112004591 substrate binding site [chemical binding]; other site 331112004592 catalytic Zn binding site [ion binding]; other site 331112004593 tetramer interface [polypeptide binding]; other site 331112004594 structural Zn binding site [ion binding]; other site 331112004595 malate dehydrogenase; Provisional; Region: PRK13529 331112004596 Malic enzyme, N-terminal domain; Region: malic; pfam00390 331112004597 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 331112004598 NAD(P) binding site [chemical binding]; other site 331112004599 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 331112004600 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 331112004601 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 331112004602 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 331112004603 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112004604 Walker A/P-loop; other site 331112004605 ATP binding site [chemical binding]; other site 331112004606 Q-loop/lid; other site 331112004607 ABC transporter signature motif; other site 331112004608 Walker B; other site 331112004609 D-loop; other site 331112004610 H-loop/switch region; other site 331112004611 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 331112004612 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 331112004613 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112004614 Walker A/P-loop; other site 331112004615 ATP binding site [chemical binding]; other site 331112004616 Q-loop/lid; other site 331112004617 ABC transporter signature motif; other site 331112004618 Walker B; other site 331112004619 D-loop; other site 331112004620 H-loop/switch region; other site 331112004621 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 331112004622 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 331112004623 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 331112004624 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 331112004625 dimer interface [polypeptide binding]; other site 331112004626 conserved gate region; other site 331112004627 putative PBP binding loops; other site 331112004628 ABC-ATPase subunit interface; other site 331112004629 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 331112004630 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 331112004631 dimer interface [polypeptide binding]; other site 331112004632 conserved gate region; other site 331112004633 putative PBP binding loops; other site 331112004634 ABC-ATPase subunit interface; other site 331112004635 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 331112004636 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 331112004637 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 331112004638 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 331112004639 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 331112004640 putative active site [active] 331112004641 heme pocket [chemical binding]; other site 331112004642 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 331112004643 putative active site [active] 331112004644 heme pocket [chemical binding]; other site 331112004645 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112004646 metal binding site [ion binding]; metal-binding site 331112004647 active site 331112004648 I-site; other site 331112004649 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 331112004650 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 331112004651 heme-binding site [chemical binding]; other site 331112004652 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 331112004653 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112004654 metal binding site [ion binding]; metal-binding site 331112004655 active site 331112004656 I-site; other site 331112004657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 331112004658 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 331112004659 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 331112004660 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 331112004661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112004662 catalytic residue [active] 331112004663 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 331112004664 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 331112004665 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331112004666 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 331112004667 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331112004668 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 331112004669 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 331112004670 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 331112004671 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 331112004672 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 331112004673 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 331112004674 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 331112004675 FeS/SAM binding site; other site 331112004676 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 331112004677 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 331112004678 Sulfatase; Region: Sulfatase; pfam00884 331112004679 transcriptional regulator YdeO; Provisional; Region: PRK09940 331112004680 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112004681 putative oxidoreductase; Provisional; Region: PRK09939 331112004682 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 331112004683 putative molybdopterin cofactor binding site [chemical binding]; other site 331112004684 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 331112004685 putative molybdopterin cofactor binding site; other site 331112004686 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 331112004687 mannosyl binding site [chemical binding]; other site 331112004688 Fimbrial protein; Region: Fimbrial; pfam00419 331112004689 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 331112004690 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 331112004691 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 331112004692 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 331112004693 PapC C-terminal domain; Region: PapC_C; pfam13953 331112004694 HipA N-terminal domain; Region: Couple_hipA; pfam13657 331112004695 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 331112004696 HipA-like N-terminal domain; Region: HipA_N; pfam07805 331112004697 HipA-like C-terminal domain; Region: HipA_C; pfam07804 331112004698 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 331112004699 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 331112004700 non-specific DNA binding site [nucleotide binding]; other site 331112004701 salt bridge; other site 331112004702 sequence-specific DNA binding site [nucleotide binding]; other site 331112004703 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 331112004704 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 331112004705 putative N- and C-terminal domain interface [polypeptide binding]; other site 331112004706 putative active site [active] 331112004707 putative MgATP binding site [chemical binding]; other site 331112004708 catalytic site [active] 331112004709 metal binding site [ion binding]; metal-binding site 331112004710 putative carbohydrate binding site [chemical binding]; other site 331112004711 transcriptional regulator LsrR; Provisional; Region: PRK15418 331112004712 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 331112004713 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 331112004714 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 331112004715 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 331112004716 Walker A/P-loop; other site 331112004717 ATP binding site [chemical binding]; other site 331112004718 Q-loop/lid; other site 331112004719 ABC transporter signature motif; other site 331112004720 Walker B; other site 331112004721 D-loop; other site 331112004722 H-loop/switch region; other site 331112004723 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 331112004724 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 331112004725 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112004726 TM-ABC transporter signature motif; other site 331112004727 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112004728 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 331112004729 TM-ABC transporter signature motif; other site 331112004730 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 331112004731 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 331112004732 ligand binding site [chemical binding]; other site 331112004733 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 331112004734 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 331112004735 putative active site; other site 331112004736 catalytic residue [active] 331112004737 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 331112004738 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 331112004739 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 331112004740 S-adenosylmethionine binding site [chemical binding]; other site 331112004741 Predicted membrane protein [Function unknown]; Region: COG3781 331112004742 altronate oxidoreductase; Provisional; Region: PRK03643 331112004743 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 331112004744 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 331112004745 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 331112004746 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112004747 metal binding site [ion binding]; metal-binding site 331112004748 active site 331112004749 I-site; other site 331112004750 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 331112004751 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 331112004752 glutaminase; Provisional; Region: PRK00971 331112004753 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 331112004754 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 331112004755 NAD(P) binding site [chemical binding]; other site 331112004756 catalytic residues [active] 331112004757 Transcriptional regulator [Transcription]; Region: LysR; COG0583 331112004758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112004759 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 331112004760 putative dimerization interface [polypeptide binding]; other site 331112004761 putative arabinose transporter; Provisional; Region: PRK03545 331112004762 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112004763 putative substrate translocation pore; other site 331112004764 inner membrane protein; Provisional; Region: PRK10995 331112004765 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 331112004766 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 331112004767 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 331112004768 beta-galactosidase; Region: BGL; TIGR03356 331112004769 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 331112004770 active site 331112004771 methionine cluster; other site 331112004772 phosphorylation site [posttranslational modification] 331112004773 metal binding site [ion binding]; metal-binding site 331112004774 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 331112004775 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 331112004776 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 331112004777 active site 331112004778 P-loop; other site 331112004779 phosphorylation site [posttranslational modification] 331112004780 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 331112004781 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112004782 DNA-binding site [nucleotide binding]; DNA binding site 331112004783 UTRA domain; Region: UTRA; pfam07702 331112004784 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 331112004785 EamA-like transporter family; Region: EamA; pfam00892 331112004786 EamA-like transporter family; Region: EamA; pfam00892 331112004787 putative transporter; Provisional; Region: PRK10054 331112004788 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112004789 putative substrate translocation pore; other site 331112004790 diguanylate cyclase; Provisional; Region: PRK09894 331112004791 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 331112004792 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112004793 metal binding site [ion binding]; metal-binding site 331112004794 active site 331112004795 I-site; other site 331112004796 hypothetical protein; Provisional; Region: PRK10053 331112004797 hypothetical protein; Validated; Region: PRK03657 331112004798 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 331112004799 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 331112004800 active site 331112004801 Zn binding site [ion binding]; other site 331112004802 malonic semialdehyde reductase; Provisional; Region: PRK10538 331112004803 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 331112004804 putative NAD(P) binding site [chemical binding]; other site 331112004805 homodimer interface [polypeptide binding]; other site 331112004806 homotetramer interface [polypeptide binding]; other site 331112004807 active site 331112004808 Transcriptional regulators [Transcription]; Region: GntR; COG1802 331112004809 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112004810 DNA-binding site [nucleotide binding]; DNA binding site 331112004811 FCD domain; Region: FCD; pfam07729 331112004812 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 331112004813 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 331112004814 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 331112004815 metabolite-proton symporter; Region: 2A0106; TIGR00883 331112004816 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112004817 putative substrate translocation pore; other site 331112004818 multiple promoter invertase; Provisional; Region: mpi; PRK13413 331112004819 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 331112004820 catalytic residues [active] 331112004821 catalytic nucleophile [active] 331112004822 Presynaptic Site I dimer interface [polypeptide binding]; other site 331112004823 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 331112004824 Synaptic Flat tetramer interface [polypeptide binding]; other site 331112004825 Synaptic Site I dimer interface [polypeptide binding]; other site 331112004826 DNA binding site [nucleotide binding] 331112004827 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 331112004828 DNA-binding interface [nucleotide binding]; DNA binding site 331112004829 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 331112004830 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 331112004831 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 331112004832 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 331112004833 Phage-related protein, tail component [Function unknown]; Region: COG4733 331112004834 Putative phage tail protein; Region: Phage-tail_3; pfam13550 331112004835 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 331112004836 Fibronectin type III protein; Region: DUF3672; pfam12421 331112004837 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 331112004838 GnsA/GnsB family; Region: GnsAB; pfam08178 331112004839 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 331112004840 DNA-binding site [nucleotide binding]; DNA binding site 331112004841 RNA-binding motif; other site 331112004842 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 331112004843 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 331112004844 catalytic residues [active] 331112004845 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 331112004846 Lysis protein S; Region: Lysis_S; pfam04971 331112004847 transcriptional regulator YdeO; Provisional; Region: PRK09940 331112004848 Pleckstrin homology-like domain; Region: PH-like; cl17171 331112004849 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112004850 Protein of unknown function (DUF523); Region: DUF523; pfam04463 331112004851 Uncharacterized conserved protein [Function unknown]; Region: COG3272 331112004852 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 331112004853 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 331112004854 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 331112004855 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112004856 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112004857 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112004858 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112004859 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 331112004860 putative NAD(P) binding site [chemical binding]; other site 331112004861 catalytic Zn binding site [ion binding]; other site 331112004862 structural Zn binding site [ion binding]; other site 331112004863 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 331112004864 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 331112004865 putative active site pocket [active] 331112004866 putative metal binding site [ion binding]; other site 331112004867 hypothetical protein; Provisional; Region: PRK02237 331112004868 hypothetical protein; Provisional; Region: PRK13659 331112004869 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 331112004870 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112004871 Coenzyme A binding pocket [chemical binding]; other site 331112004872 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 331112004873 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 331112004874 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 331112004875 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 331112004876 putative [Fe4-S4] binding site [ion binding]; other site 331112004877 putative molybdopterin cofactor binding site [chemical binding]; other site 331112004878 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 331112004879 putative molybdopterin cofactor binding site; other site 331112004880 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 331112004881 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 331112004882 putative [Fe4-S4] binding site [ion binding]; other site 331112004883 putative molybdopterin cofactor binding site [chemical binding]; other site 331112004884 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 331112004885 putative molybdopterin cofactor binding site; other site 331112004886 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 331112004887 4Fe-4S binding domain; Region: Fer4; cl02805 331112004888 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 331112004889 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 331112004890 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 331112004891 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 331112004892 Cl- selectivity filter; other site 331112004893 Cl- binding residues [ion binding]; other site 331112004894 pore gating glutamate residue; other site 331112004895 dimer interface [polypeptide binding]; other site 331112004896 putative dithiobiotin synthetase; Provisional; Region: PRK12374 331112004897 AAA domain; Region: AAA_26; pfam13500 331112004898 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 331112004899 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 331112004900 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 331112004901 nucleotide binding site [chemical binding]; other site 331112004902 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 331112004903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112004904 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 331112004905 dimerization interface [polypeptide binding]; other site 331112004906 substrate binding pocket [chemical binding]; other site 331112004907 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 331112004908 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112004909 putative substrate translocation pore; other site 331112004910 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 331112004911 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 331112004912 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 331112004913 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 331112004914 Domain of unknown function DUF20; Region: UPF0118; pfam01594 331112004915 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 331112004916 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 331112004917 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 331112004918 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 331112004919 ligand binding site [chemical binding]; other site 331112004920 homodimer interface [polypeptide binding]; other site 331112004921 NAD(P) binding site [chemical binding]; other site 331112004922 trimer interface B [polypeptide binding]; other site 331112004923 trimer interface A [polypeptide binding]; other site 331112004924 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 331112004925 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 331112004926 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 331112004927 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 331112004928 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 331112004929 Spore germination protein; Region: Spore_permease; cl17796 331112004930 dihydromonapterin reductase; Provisional; Region: PRK06483 331112004931 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 331112004932 NADP binding site [chemical binding]; other site 331112004933 substrate binding pocket [chemical binding]; other site 331112004934 active site 331112004935 GlpM protein; Region: GlpM; pfam06942 331112004936 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 331112004937 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 331112004938 active site 331112004939 phosphorylation site [posttranslational modification] 331112004940 intermolecular recognition site; other site 331112004941 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 331112004942 DNA binding site [nucleotide binding] 331112004943 sensor protein RstB; Provisional; Region: PRK10604 331112004944 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 331112004945 dimerization interface [polypeptide binding]; other site 331112004946 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 331112004947 dimer interface [polypeptide binding]; other site 331112004948 phosphorylation site [posttranslational modification] 331112004949 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 331112004950 ATP binding site [chemical binding]; other site 331112004951 Mg2+ binding site [ion binding]; other site 331112004952 G-X-G motif; other site 331112004953 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 331112004954 fumarate hydratase; Reviewed; Region: fumC; PRK00485 331112004955 Class II fumarases; Region: Fumarase_classII; cd01362 331112004956 active site 331112004957 tetramer interface [polypeptide binding]; other site 331112004958 fumarate hydratase; Provisional; Region: PRK15389 331112004959 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 331112004960 Fumarase C-terminus; Region: Fumerase_C; pfam05683 331112004961 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 331112004962 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 331112004963 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 331112004964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 331112004965 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 331112004966 putative outer membrane porin protein; Provisional; Region: PRK11379 331112004967 glucuronide transporter; Provisional; Region: PRK09848 331112004968 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 331112004969 beta-D-glucuronidase; Provisional; Region: PRK10150 331112004970 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 331112004971 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 331112004972 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 331112004973 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 331112004974 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112004975 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 331112004976 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 331112004977 NAD binding site [chemical binding]; other site 331112004978 substrate binding site [chemical binding]; other site 331112004979 homotetramer interface [polypeptide binding]; other site 331112004980 homodimer interface [polypeptide binding]; other site 331112004981 active site 331112004982 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 331112004983 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112004984 DNA binding site [nucleotide binding] 331112004985 domain linker motif; other site 331112004986 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 331112004987 putative dimerization interface [polypeptide binding]; other site 331112004988 putative ligand binding site [chemical binding]; other site 331112004989 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 331112004990 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 331112004991 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 331112004992 active site turn [active] 331112004993 phosphorylation site [posttranslational modification] 331112004994 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 331112004995 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 331112004996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112004997 homodimer interface [polypeptide binding]; other site 331112004998 catalytic residue [active] 331112004999 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 331112005000 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 331112005001 active site 331112005002 purine riboside binding site [chemical binding]; other site 331112005003 putative oxidoreductase; Provisional; Region: PRK11579 331112005004 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 331112005005 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 331112005006 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 331112005007 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 331112005008 electron transport complex protein RsxA; Provisional; Region: PRK05151 331112005009 electron transport complex protein RnfB; Provisional; Region: PRK05113 331112005010 Putative Fe-S cluster; Region: FeS; pfam04060 331112005011 4Fe-4S binding domain; Region: Fer4; pfam00037 331112005012 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 331112005013 SLBB domain; Region: SLBB; pfam10531 331112005014 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 331112005015 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 331112005016 electron transport complex protein RnfG; Validated; Region: PRK01908 331112005017 electron transport complex RsxE subunit; Provisional; Region: PRK12405 331112005018 endonuclease III; Provisional; Region: PRK10702 331112005019 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 331112005020 minor groove reading motif; other site 331112005021 helix-hairpin-helix signature motif; other site 331112005022 substrate binding pocket [chemical binding]; other site 331112005023 active site 331112005024 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 331112005025 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 331112005026 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112005027 putative substrate translocation pore; other site 331112005028 POT family; Region: PTR2; pfam00854 331112005029 glutathionine S-transferase; Provisional; Region: PRK10542 331112005030 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 331112005031 C-terminal domain interface [polypeptide binding]; other site 331112005032 GSH binding site (G-site) [chemical binding]; other site 331112005033 dimer interface [polypeptide binding]; other site 331112005034 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 331112005035 N-terminal domain interface [polypeptide binding]; other site 331112005036 dimer interface [polypeptide binding]; other site 331112005037 substrate binding pocket (H-site) [chemical binding]; other site 331112005038 pyridoxamine kinase; Validated; Region: PRK05756 331112005039 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 331112005040 dimer interface [polypeptide binding]; other site 331112005041 pyridoxal binding site [chemical binding]; other site 331112005042 ATP binding site [chemical binding]; other site 331112005043 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 331112005044 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 331112005045 active site 331112005046 HIGH motif; other site 331112005047 dimer interface [polypeptide binding]; other site 331112005048 KMSKS motif; other site 331112005049 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 331112005050 RNA binding surface [nucleotide binding]; other site 331112005051 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 331112005052 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 331112005053 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 331112005054 lysozyme inhibitor; Provisional; Region: PRK11372 331112005055 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 331112005056 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 331112005057 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 331112005058 transcriptional regulator SlyA; Provisional; Region: PRK03573 331112005059 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 331112005060 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 331112005061 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 331112005062 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112005063 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112005064 Fusaric acid resistance protein family; Region: FUSC; pfam04632 331112005065 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 331112005066 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 331112005067 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 331112005068 E-class dimer interface [polypeptide binding]; other site 331112005069 P-class dimer interface [polypeptide binding]; other site 331112005070 active site 331112005071 Cu2+ binding site [ion binding]; other site 331112005072 Zn2+ binding site [ion binding]; other site 331112005073 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 331112005074 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 331112005075 active site 331112005076 catalytic tetrad [active] 331112005077 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 331112005078 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112005079 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 331112005080 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 331112005081 FMN binding site [chemical binding]; other site 331112005082 active site 331112005083 substrate binding site [chemical binding]; other site 331112005084 catalytic residue [active] 331112005085 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 331112005086 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 331112005087 dimer interface [polypeptide binding]; other site 331112005088 active site 331112005089 metal binding site [ion binding]; metal-binding site 331112005090 glutathione binding site [chemical binding]; other site 331112005091 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 331112005092 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 331112005093 dimer interface [polypeptide binding]; other site 331112005094 catalytic site [active] 331112005095 putative active site [active] 331112005096 putative substrate binding site [chemical binding]; other site 331112005097 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 331112005098 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 331112005099 ATP binding site [chemical binding]; other site 331112005100 putative Mg++ binding site [ion binding]; other site 331112005101 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 331112005102 nucleotide binding region [chemical binding]; other site 331112005103 ATP-binding site [chemical binding]; other site 331112005104 DEAD/H associated; Region: DEAD_assoc; pfam08494 331112005105 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 331112005106 putative GSH binding site [chemical binding]; other site 331112005107 catalytic residues [active] 331112005108 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 331112005109 NlpC/P60 family; Region: NLPC_P60; pfam00877 331112005110 superoxide dismutase; Provisional; Region: PRK10543 331112005111 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 331112005112 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 331112005113 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112005114 Major Facilitator Superfamily; Region: MFS_1; pfam07690 331112005115 putative substrate translocation pore; other site 331112005116 hypothetical protein; Provisional; Region: PRK14756 331112005117 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 331112005118 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112005119 DNA binding site [nucleotide binding] 331112005120 domain linker motif; other site 331112005121 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 331112005122 dimerization interface [polypeptide binding]; other site 331112005123 ligand binding site [chemical binding]; other site 331112005124 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 331112005125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112005126 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 331112005127 dimerization interface [polypeptide binding]; other site 331112005128 putative transporter; Provisional; Region: PRK11043 331112005129 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112005130 putative substrate translocation pore; other site 331112005131 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 331112005132 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 331112005133 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 331112005134 S-adenosylmethionine binding site [chemical binding]; other site 331112005135 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 331112005136 Lumazine binding domain; Region: Lum_binding; pfam00677 331112005137 Lumazine binding domain; Region: Lum_binding; pfam00677 331112005138 multidrug efflux protein; Reviewed; Region: PRK01766 331112005139 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 331112005140 cation binding site [ion binding]; other site 331112005141 hypothetical protein; Provisional; Region: PRK09945 331112005142 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 331112005143 putative monooxygenase; Provisional; Region: PRK11118 331112005144 hypothetical protein; Provisional; Region: PRK09897 331112005145 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 331112005146 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 331112005147 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 331112005148 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 331112005149 hypothetical protein; Provisional; Region: PRK09947 331112005150 putative oxidoreductase; Provisional; Region: PRK09849 331112005151 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 331112005152 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 331112005153 hypothetical protein; Provisional; Region: PRK09898 331112005154 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 331112005155 hypothetical protein; Provisional; Region: PRK10292 331112005156 pyruvate kinase; Provisional; Region: PRK09206 331112005157 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 331112005158 domain interfaces; other site 331112005159 active site 331112005160 murein lipoprotein; Provisional; Region: PRK15396 331112005161 L,D-transpeptidase; Provisional; Region: PRK10190 331112005162 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331112005163 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 331112005164 cysteine desufuration protein SufE; Provisional; Region: PRK09296 331112005165 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 331112005166 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 331112005167 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331112005168 catalytic residue [active] 331112005169 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 331112005170 FeS assembly protein SufD; Region: sufD; TIGR01981 331112005171 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 331112005172 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 331112005173 Walker A/P-loop; other site 331112005174 ATP binding site [chemical binding]; other site 331112005175 Q-loop/lid; other site 331112005176 ABC transporter signature motif; other site 331112005177 Walker B; other site 331112005178 D-loop; other site 331112005179 H-loop/switch region; other site 331112005180 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 331112005181 putative ABC transporter; Region: ycf24; CHL00085 331112005182 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 331112005183 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 331112005184 CoenzymeA binding site [chemical binding]; other site 331112005185 subunit interaction site [polypeptide binding]; other site 331112005186 PHB binding site; other site 331112005187 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 331112005188 FAD binding domain; Region: FAD_binding_4; pfam01565 331112005189 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 331112005190 putative inner membrane protein; Provisional; Region: PRK10983 331112005191 Domain of unknown function DUF20; Region: UPF0118; pfam01594 331112005192 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 331112005193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112005194 Major Facilitator Superfamily; Region: MFS_1; pfam07690 331112005195 putative substrate translocation pore; other site 331112005196 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112005197 putative substrate translocation pore; other site 331112005198 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 331112005199 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 331112005200 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 331112005201 shikimate binding site; other site 331112005202 NAD(P) binding site [chemical binding]; other site 331112005203 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 331112005204 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 331112005205 active site 331112005206 catalytic residue [active] 331112005207 dimer interface [polypeptide binding]; other site 331112005208 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 331112005209 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 331112005210 active site 331112005211 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112005212 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112005213 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112005214 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112005215 phosphoenolpyruvate synthase; Validated; Region: PRK06464 331112005216 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 331112005217 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 331112005218 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 331112005219 PEP synthetase regulatory protein; Provisional; Region: PRK05339 331112005220 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 331112005221 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 331112005222 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 331112005223 Uncharacterized conserved protein [Function unknown]; Region: COG0397 331112005224 hypothetical protein; Validated; Region: PRK00029 331112005225 c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]; Region: Rtn; COG2200 331112005226 NlpC/P60 family; Region: NLPC_P60; pfam00877 331112005227 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 331112005228 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 331112005229 Walker A/P-loop; other site 331112005230 ATP binding site [chemical binding]; other site 331112005231 Q-loop/lid; other site 331112005232 ABC transporter signature motif; other site 331112005233 Walker B; other site 331112005234 D-loop; other site 331112005235 H-loop/switch region; other site 331112005236 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 331112005237 catalytic residues [active] 331112005238 dimer interface [polypeptide binding]; other site 331112005239 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 331112005240 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 331112005241 ABC-ATPase subunit interface; other site 331112005242 dimer interface [polypeptide binding]; other site 331112005243 putative PBP binding regions; other site 331112005244 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 331112005245 IHF dimer interface [polypeptide binding]; other site 331112005246 IHF - DNA interface [nucleotide binding]; other site 331112005247 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 331112005248 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 331112005249 putative tRNA-binding site [nucleotide binding]; other site 331112005250 B3/4 domain; Region: B3_4; pfam03483 331112005251 tRNA synthetase B5 domain; Region: B5; smart00874 331112005252 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 331112005253 dimer interface [polypeptide binding]; other site 331112005254 motif 1; other site 331112005255 motif 3; other site 331112005256 motif 2; other site 331112005257 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 331112005258 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 331112005259 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 331112005260 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 331112005261 dimer interface [polypeptide binding]; other site 331112005262 motif 1; other site 331112005263 active site 331112005264 motif 2; other site 331112005265 motif 3; other site 331112005266 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 331112005267 23S rRNA binding site [nucleotide binding]; other site 331112005268 L21 binding site [polypeptide binding]; other site 331112005269 L13 binding site [polypeptide binding]; other site 331112005270 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 331112005271 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 331112005272 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 331112005273 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 331112005274 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 331112005275 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 331112005276 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 331112005277 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 331112005278 active site 331112005279 dimer interface [polypeptide binding]; other site 331112005280 motif 1; other site 331112005281 motif 2; other site 331112005282 motif 3; other site 331112005283 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 331112005284 anticodon binding site; other site 331112005285 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 331112005286 6-phosphofructokinase 2; Provisional; Region: PRK10294 331112005287 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 331112005288 putative substrate binding site [chemical binding]; other site 331112005289 putative ATP binding site [chemical binding]; other site 331112005290 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 331112005291 Phosphotransferase enzyme family; Region: APH; pfam01636 331112005292 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 331112005293 active site 331112005294 ATP binding site [chemical binding]; other site 331112005295 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 331112005296 YniB-like protein; Region: YniB; pfam14002 331112005297 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 331112005298 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 331112005299 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 331112005300 motif II; other site 331112005301 inner membrane protein; Provisional; Region: PRK11648 331112005302 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 331112005303 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 331112005304 cell division modulator; Provisional; Region: PRK10113 331112005305 hydroperoxidase II; Provisional; Region: katE; PRK11249 331112005306 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 331112005307 tetramer interface [polypeptide binding]; other site 331112005308 heme binding pocket [chemical binding]; other site 331112005309 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 331112005310 domain interactions; other site 331112005311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112005312 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112005313 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112005314 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 331112005315 putative active site [active] 331112005316 YdjC motif; other site 331112005317 Mg binding site [ion binding]; other site 331112005318 putative homodimer interface [polypeptide binding]; other site 331112005319 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 331112005320 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 331112005321 NAD binding site [chemical binding]; other site 331112005322 sugar binding site [chemical binding]; other site 331112005323 divalent metal binding site [ion binding]; other site 331112005324 tetramer (dimer of dimers) interface [polypeptide binding]; other site 331112005325 dimer interface [polypeptide binding]; other site 331112005326 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 331112005327 Cupin domain; Region: Cupin_2; pfam07883 331112005328 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112005329 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 331112005330 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 331112005331 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 331112005332 active site 331112005333 P-loop; other site 331112005334 phosphorylation site [posttranslational modification] 331112005335 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 331112005336 NAD+ synthetase; Region: nadE; TIGR00552 331112005337 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 331112005338 homodimer interface [polypeptide binding]; other site 331112005339 NAD binding pocket [chemical binding]; other site 331112005340 ATP binding pocket [chemical binding]; other site 331112005341 Mg binding site [ion binding]; other site 331112005342 active-site loop [active] 331112005343 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 331112005344 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 331112005345 GIY-YIG motif/motif A; other site 331112005346 active site 331112005347 catalytic site [active] 331112005348 putative DNA binding site [nucleotide binding]; other site 331112005349 metal binding site [ion binding]; metal-binding site 331112005350 hypothetical protein; Provisional; Region: PRK11396 331112005351 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 331112005352 dimer interface [polypeptide binding]; other site 331112005353 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 331112005354 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 331112005355 putative active site [active] 331112005356 Zn binding site [ion binding]; other site 331112005357 succinylarginine dihydrolase; Provisional; Region: PRK13281 331112005358 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 331112005359 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 331112005360 NAD(P) binding site [chemical binding]; other site 331112005361 catalytic residues [active] 331112005362 arginine succinyltransferase; Provisional; Region: PRK10456 331112005363 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 331112005364 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 331112005365 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 331112005366 inhibitor-cofactor binding pocket; inhibition site 331112005367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112005368 catalytic residue [active] 331112005369 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 331112005370 putative catalytic site [active] 331112005371 putative phosphate binding site [ion binding]; other site 331112005372 active site 331112005373 metal binding site A [ion binding]; metal-binding site 331112005374 DNA binding site [nucleotide binding] 331112005375 putative AP binding site [nucleotide binding]; other site 331112005376 putative metal binding site B [ion binding]; other site 331112005377 Uncharacterized conserved protein [Function unknown]; Region: COG0398 331112005378 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 331112005379 Uncharacterized conserved protein [Function unknown]; Region: COG0398 331112005380 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 331112005381 Uncharacterized conserved protein [Function unknown]; Region: COG2128 331112005382 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 331112005383 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 331112005384 hypothetical protein; Provisional; Region: PRK11622 331112005385 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 331112005386 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 331112005387 dimer interface [polypeptide binding]; other site 331112005388 conserved gate region; other site 331112005389 putative PBP binding loops; other site 331112005390 ABC-ATPase subunit interface; other site 331112005391 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 331112005392 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112005393 Walker A/P-loop; other site 331112005394 ATP binding site [chemical binding]; other site 331112005395 Q-loop/lid; other site 331112005396 ABC transporter signature motif; other site 331112005397 Walker B; other site 331112005398 D-loop; other site 331112005399 H-loop/switch region; other site 331112005400 Rhodanese Homology Domain; Region: RHOD; smart00450 331112005401 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 331112005402 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 331112005403 active site residue [active] 331112005404 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 331112005405 active site residue [active] 331112005406 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 331112005407 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 331112005408 active site 331112005409 8-oxo-dGMP binding site [chemical binding]; other site 331112005410 nudix motif; other site 331112005411 metal binding site [ion binding]; metal-binding site 331112005412 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 331112005413 glutamate dehydrogenase; Provisional; Region: PRK09414 331112005414 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 331112005415 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 331112005416 NAD(P) binding site [chemical binding]; other site 331112005417 hypothetical protein; Provisional; Region: PRK11380 331112005418 DNA topoisomerase III; Provisional; Region: PRK07726 331112005419 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 331112005420 active site 331112005421 putative interdomain interaction site [polypeptide binding]; other site 331112005422 putative metal-binding site [ion binding]; other site 331112005423 putative nucleotide binding site [chemical binding]; other site 331112005424 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 331112005425 domain I; other site 331112005426 DNA binding groove [nucleotide binding] 331112005427 phosphate binding site [ion binding]; other site 331112005428 domain II; other site 331112005429 domain III; other site 331112005430 nucleotide binding site [chemical binding]; other site 331112005431 catalytic site [active] 331112005432 domain IV; other site 331112005433 selenophosphate synthetase; Provisional; Region: PRK00943 331112005434 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 331112005435 dimerization interface [polypeptide binding]; other site 331112005436 putative ATP binding site [chemical binding]; other site 331112005437 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 331112005438 putative FMN binding site [chemical binding]; other site 331112005439 protease 4; Provisional; Region: PRK10949 331112005440 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 331112005441 tandem repeat interface [polypeptide binding]; other site 331112005442 oligomer interface [polypeptide binding]; other site 331112005443 active site residues [active] 331112005444 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 331112005445 tandem repeat interface [polypeptide binding]; other site 331112005446 oligomer interface [polypeptide binding]; other site 331112005447 active site residues [active] 331112005448 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 331112005449 active site 331112005450 homodimer interface [polypeptide binding]; other site 331112005451 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 331112005452 Isochorismatase family; Region: Isochorismatase; pfam00857 331112005453 catalytic triad [active] 331112005454 metal binding site [ion binding]; metal-binding site 331112005455 conserved cis-peptide bond; other site 331112005456 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 331112005457 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112005458 putative substrate translocation pore; other site 331112005459 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112005460 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 331112005461 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 331112005462 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 331112005463 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 331112005464 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 331112005465 active site 331112005466 catalytic tetrad [active] 331112005467 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 331112005468 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 331112005469 substrate binding site [chemical binding]; other site 331112005470 ATP binding site [chemical binding]; other site 331112005471 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 331112005472 intersubunit interface [polypeptide binding]; other site 331112005473 active site 331112005474 zinc binding site [ion binding]; other site 331112005475 Na+ binding site [ion binding]; other site 331112005476 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112005477 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112005478 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 331112005479 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 331112005480 putative NAD(P) binding site [chemical binding]; other site 331112005481 catalytic Zn binding site [ion binding]; other site 331112005482 structural Zn binding site [ion binding]; other site 331112005483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 331112005484 methionine sulfoxide reductase B; Provisional; Region: PRK00222 331112005485 SelR domain; Region: SelR; pfam01641 331112005486 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 331112005487 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 331112005488 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 331112005489 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 331112005490 active site 331112005491 phosphate binding residues; other site 331112005492 catalytic residues [active] 331112005493 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 331112005494 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 331112005495 active site 331112005496 catalytic tetrad [active] 331112005497 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 331112005498 PrkA family serine protein kinase; Provisional; Region: PRK15455 331112005499 AAA ATPase domain; Region: AAA_16; pfam13191 331112005500 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 331112005501 hypothetical protein; Provisional; Region: PRK05325 331112005502 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 331112005503 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112005504 metal binding site [ion binding]; metal-binding site 331112005505 active site 331112005506 I-site; other site 331112005507 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 331112005508 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112005509 metal binding site [ion binding]; metal-binding site 331112005510 active site 331112005511 I-site; other site 331112005512 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 331112005513 putative deacylase active site [active] 331112005514 Predicted membrane protein [Function unknown]; Region: COG2707 331112005515 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 331112005516 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112005517 cyanate transporter; Region: CynX; TIGR00896 331112005518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112005519 Uncharacterized conserved protein [Function unknown]; Region: COG3189 331112005520 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 331112005521 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 331112005522 Domain of unknown function (DUF333); Region: DUF333; pfam03891 331112005523 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 331112005524 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 331112005525 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 331112005526 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112005527 metal binding site [ion binding]; metal-binding site 331112005528 active site 331112005529 I-site; other site 331112005530 hypothetical protein; Provisional; Region: PRK10457 331112005531 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 331112005532 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 331112005533 leucine export protein LeuE; Provisional; Region: PRK10958 331112005534 transcriptional activator TtdR; Provisional; Region: PRK09801 331112005535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112005536 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 331112005537 putative effector binding pocket; other site 331112005538 putative dimerization interface [polypeptide binding]; other site 331112005539 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 331112005540 tartrate dehydrogenase; Region: TTC; TIGR02089 331112005541 putative transporter; Provisional; Region: PRK09950 331112005542 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 331112005543 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 331112005544 [2Fe-2S] cluster binding site [ion binding]; other site 331112005545 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 331112005546 putative alpha subunit interface [polypeptide binding]; other site 331112005547 putative active site [active] 331112005548 putative substrate binding site [chemical binding]; other site 331112005549 Fe binding site [ion binding]; other site 331112005550 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 331112005551 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 331112005552 FMN-binding pocket [chemical binding]; other site 331112005553 flavin binding motif; other site 331112005554 phosphate binding motif [ion binding]; other site 331112005555 beta-alpha-beta structure motif; other site 331112005556 NAD binding pocket [chemical binding]; other site 331112005557 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 331112005558 catalytic loop [active] 331112005559 iron binding site [ion binding]; other site 331112005560 ribonuclease D; Provisional; Region: PRK10829 331112005561 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 331112005562 catalytic site [active] 331112005563 putative active site [active] 331112005564 putative substrate binding site [chemical binding]; other site 331112005565 Helicase and RNase D C-terminal; Region: HRDC; smart00341 331112005566 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 331112005567 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 331112005568 acyl-activating enzyme (AAE) consensus motif; other site 331112005569 putative AMP binding site [chemical binding]; other site 331112005570 putative active site [active] 331112005571 putative CoA binding site [chemical binding]; other site 331112005572 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 331112005573 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 331112005574 Glycoprotease family; Region: Peptidase_M22; pfam00814 331112005575 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 331112005576 DEAD/DEAH box helicase; Region: DEAD; pfam00270 331112005577 DEAD_2; Region: DEAD_2; pfam06733 331112005578 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 331112005579 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 331112005580 homotrimer interaction site [polypeptide binding]; other site 331112005581 putative active site [active] 331112005582 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 331112005583 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112005584 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112005585 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112005586 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 331112005587 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 331112005588 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 331112005589 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 331112005590 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 331112005591 putative active site [active] 331112005592 putative CoA binding site [chemical binding]; other site 331112005593 nudix motif; other site 331112005594 metal binding site [ion binding]; metal-binding site 331112005595 L-serine deaminase; Provisional; Region: PRK15023 331112005596 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 331112005597 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 331112005598 phage resistance protein; Provisional; Region: PRK10551 331112005599 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 331112005600 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 331112005601 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 331112005602 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 331112005603 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 331112005604 Transporter associated domain; Region: CorC_HlyC; smart01091 331112005605 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 331112005606 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 331112005607 active pocket/dimerization site; other site 331112005608 active site 331112005609 phosphorylation site [posttranslational modification] 331112005610 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 331112005611 active site 331112005612 phosphorylation site [posttranslational modification] 331112005613 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 331112005614 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 331112005615 Predicted membrane protein [Function unknown]; Region: COG4811 331112005616 hypothetical protein; Provisional; Region: PRK11469 331112005617 Domain of unknown function DUF; Region: DUF204; pfam02659 331112005618 Domain of unknown function DUF; Region: DUF204; pfam02659 331112005619 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 331112005620 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 331112005621 S-adenosylmethionine binding site [chemical binding]; other site 331112005622 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 331112005623 DNA-binding site [nucleotide binding]; DNA binding site 331112005624 RNA-binding motif; other site 331112005625 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 331112005626 YebO-like protein; Region: YebO; pfam13974 331112005627 PhoPQ regulatory protein; Provisional; Region: PRK10299 331112005628 YobH-like protein; Region: YobH; pfam13996 331112005629 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 331112005630 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 331112005631 dimerization interface [polypeptide binding]; other site 331112005632 putative Zn2+ binding site [ion binding]; other site 331112005633 putative DNA binding site [nucleotide binding]; other site 331112005634 Bacterial transcriptional regulator; Region: IclR; pfam01614 331112005635 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112005636 Major Facilitator Superfamily; Region: MFS_1; pfam07690 331112005637 putative substrate translocation pore; other site 331112005638 Predicted integral membrane protein [Function unknown]; Region: COG5521 331112005639 heat shock protein HtpX; Provisional; Region: PRK05457 331112005640 carboxy-terminal protease; Provisional; Region: PRK11186 331112005641 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 331112005642 protein binding site [polypeptide binding]; other site 331112005643 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 331112005644 Catalytic dyad [active] 331112005645 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 331112005646 ProP expression regulator; Provisional; Region: PRK04950 331112005647 ProQ/FINO family; Region: ProQ; pfam04352 331112005648 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 331112005649 GAF domain; Region: GAF_2; pfam13185 331112005650 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 331112005651 Paraquat-inducible protein A; Region: PqiA; pfam04403 331112005652 Paraquat-inducible protein A; Region: PqiA; pfam04403 331112005653 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 331112005654 mce related protein; Region: MCE; pfam02470 331112005655 mce related protein; Region: MCE; pfam02470 331112005656 mce related protein; Region: MCE; pfam02470 331112005657 mce related protein; Region: MCE; pfam02470 331112005658 mce related protein; Region: MCE; pfam02470 331112005659 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 331112005660 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 331112005661 S-adenosylmethionine binding site [chemical binding]; other site 331112005662 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 331112005663 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 331112005664 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 331112005665 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 331112005666 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 331112005667 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 331112005668 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 331112005669 hypothetical protein; Provisional; Region: PRK10301 331112005670 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 331112005671 Predicted amidohydrolase [General function prediction only]; Region: COG0388 331112005672 Carbon-nitrogen hydrolase; Region: CN_hydrolase; pfam00795 331112005673 exodeoxyribonuclease X; Provisional; Region: PRK07983 331112005674 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 331112005675 active site 331112005676 catalytic site [active] 331112005677 substrate binding site [chemical binding]; other site 331112005678 protease 2; Provisional; Region: PRK10115 331112005679 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 331112005680 hypothetical protein; Provisional; Region: PRK13680 331112005681 DNA damage-inducible protein YebG; Provisional; Region: PRK10061 331112005682 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 331112005683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331112005684 ATP-grasp domain; Region: ATP-grasp; pfam02222 331112005685 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 331112005686 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 331112005687 active site 331112005688 intersubunit interface [polypeptide binding]; other site 331112005689 catalytic residue [active] 331112005690 phosphogluconate dehydratase; Validated; Region: PRK09054 331112005691 6-phosphogluconate dehydratase; Region: edd; TIGR01196 331112005692 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 331112005693 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 331112005694 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 331112005695 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 331112005696 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 331112005697 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 331112005698 putative active site [active] 331112005699 pyruvate kinase; Provisional; Region: PRK05826 331112005700 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 331112005701 domain interfaces; other site 331112005702 active site 331112005703 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 331112005704 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 331112005705 putative acyl-acceptor binding pocket; other site 331112005706 putative peptidase; Provisional; Region: PRK11649 331112005707 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 331112005708 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331112005709 Peptidase family M23; Region: Peptidase_M23; pfam01551 331112005710 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 331112005711 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 331112005712 metal binding site [ion binding]; metal-binding site 331112005713 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 331112005714 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 331112005715 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 331112005716 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 331112005717 ABC-ATPase subunit interface; other site 331112005718 dimer interface [polypeptide binding]; other site 331112005719 putative PBP binding regions; other site 331112005720 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 331112005721 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 331112005722 Walker A motif; other site 331112005723 ATP binding site [chemical binding]; other site 331112005724 Walker B motif; other site 331112005725 arginine finger; other site 331112005726 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 331112005727 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 331112005728 RuvA N terminal domain; Region: RuvA_N; pfam01330 331112005729 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 331112005730 hypothetical protein; Provisional; Region: PRK11470 331112005731 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 331112005732 active site 331112005733 putative DNA-binding cleft [nucleotide binding]; other site 331112005734 dimer interface [polypeptide binding]; other site 331112005735 hypothetical protein; Validated; Region: PRK00110 331112005736 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 331112005737 nudix motif; other site 331112005738 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 331112005739 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 331112005740 dimer interface [polypeptide binding]; other site 331112005741 anticodon binding site; other site 331112005742 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 331112005743 homodimer interface [polypeptide binding]; other site 331112005744 motif 1; other site 331112005745 active site 331112005746 motif 2; other site 331112005747 GAD domain; Region: GAD; pfam02938 331112005748 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 331112005749 motif 3; other site 331112005750 Isochorismatase family; Region: Isochorismatase; pfam00857 331112005751 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 331112005752 catalytic triad [active] 331112005753 conserved cis-peptide bond; other site 331112005754 hypothetical protein; Provisional; Region: PRK10302 331112005755 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 331112005756 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 331112005757 S-adenosylmethionine binding site [chemical binding]; other site 331112005758 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 331112005759 S-adenosylmethionine binding site [chemical binding]; other site 331112005760 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 331112005761 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 331112005762 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 331112005763 molybdopterin cofactor binding site [chemical binding]; other site 331112005764 substrate binding site [chemical binding]; other site 331112005765 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 331112005766 molybdopterin cofactor binding site; other site 331112005767 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 331112005768 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 331112005769 copper homeostasis protein CutC; Provisional; Region: PRK11572 331112005770 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 331112005771 putative metal binding site [ion binding]; other site 331112005772 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 331112005773 arginyl-tRNA synthetase; Region: argS; TIGR00456 331112005774 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 331112005775 active site 331112005776 HIGH motif; other site 331112005777 KMSK motif region; other site 331112005778 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 331112005779 tRNA binding surface [nucleotide binding]; other site 331112005780 anticodon binding site; other site 331112005781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 331112005782 Flagellar protein FlhE; Region: FlhE; pfam06366 331112005783 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 331112005784 FHIPEP family; Region: FHIPEP; pfam00771 331112005785 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 331112005786 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 331112005787 chemotaxis regulator CheZ; Provisional; Region: PRK11166 331112005788 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 331112005789 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 331112005790 active site 331112005791 phosphorylation site [posttranslational modification] 331112005792 intermolecular recognition site; other site 331112005793 dimerization interface [polypeptide binding]; other site 331112005794 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 331112005795 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 331112005796 active site 331112005797 phosphorylation site [posttranslational modification] 331112005798 intermolecular recognition site; other site 331112005799 dimerization interface [polypeptide binding]; other site 331112005800 CheB methylesterase; Region: CheB_methylest; pfam01339 331112005801 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 331112005802 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 331112005803 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 331112005804 S-adenosylmethionine binding site [chemical binding]; other site 331112005805 methyl-accepting protein IV; Provisional; Region: PRK09793 331112005806 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 331112005807 dimer interface [polypeptide binding]; other site 331112005808 ligand binding site [chemical binding]; other site 331112005809 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 331112005810 dimerization interface [polypeptide binding]; other site 331112005811 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 331112005812 dimer interface [polypeptide binding]; other site 331112005813 putative CheW interface [polypeptide binding]; other site 331112005814 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 331112005815 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 331112005816 dimer interface [polypeptide binding]; other site 331112005817 ligand binding site [chemical binding]; other site 331112005818 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 331112005819 dimerization interface [polypeptide binding]; other site 331112005820 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 331112005821 dimer interface [polypeptide binding]; other site 331112005822 putative CheW interface [polypeptide binding]; other site 331112005823 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 331112005824 putative CheA interaction surface; other site 331112005825 chemotaxis protein CheA; Provisional; Region: PRK10547 331112005826 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 331112005827 putative binding surface; other site 331112005828 active site 331112005829 CheY binding; Region: CheY-binding; pfam09078 331112005830 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 331112005831 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 331112005832 ATP binding site [chemical binding]; other site 331112005833 Mg2+ binding site [ion binding]; other site 331112005834 G-X-G motif; other site 331112005835 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 331112005836 flagellar motor protein MotB; Validated; Region: motB; PRK09041 331112005837 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 331112005838 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 331112005839 ligand binding site [chemical binding]; other site 331112005840 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 331112005841 flagellar motor protein MotA; Validated; Region: PRK09110 331112005842 transcriptional activator FlhC; Provisional; Region: PRK12722 331112005843 transcriptional activator FlhD; Provisional; Region: PRK02909 331112005844 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112005845 Transposase; Region: HTH_Tnp_1; pfam01527 331112005846 putative transposase OrfB; Reviewed; Region: PHA02517 331112005847 HTH-like domain; Region: HTH_21; pfam13276 331112005848 Integrase core domain; Region: rve; pfam00665 331112005849 Integrase core domain; Region: rve_2; pfam13333 331112005850 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 331112005851 Ligand Binding Site [chemical binding]; other site 331112005852 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 331112005853 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 331112005854 active site 331112005855 homotetramer interface [polypeptide binding]; other site 331112005856 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 331112005857 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 331112005858 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 331112005859 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112005860 TM-ABC transporter signature motif; other site 331112005861 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 331112005862 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 331112005863 Walker A/P-loop; other site 331112005864 ATP binding site [chemical binding]; other site 331112005865 Q-loop/lid; other site 331112005866 ABC transporter signature motif; other site 331112005867 Walker B; other site 331112005868 D-loop; other site 331112005869 H-loop/switch region; other site 331112005870 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 331112005871 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 331112005872 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 331112005873 ligand binding site [chemical binding]; other site 331112005874 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 331112005875 Ferritin-like domain; Region: Ferritin; pfam00210 331112005876 ferroxidase diiron center [ion binding]; other site 331112005877 YecR-like lipoprotein; Region: YecR; pfam13992 331112005878 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 331112005879 Ferritin-like domain; Region: Ferritin; pfam00210 331112005880 ferroxidase diiron center [ion binding]; other site 331112005881 probable metal-binding protein; Region: matur_matur; TIGR03853 331112005882 tyrosine transporter TyrP; Provisional; Region: PRK15132 331112005883 aromatic amino acid transport protein; Region: araaP; TIGR00837 331112005884 hypothetical protein; Provisional; Region: PRK10396 331112005885 yecA family protein; Region: ygfB_yecA; TIGR02292 331112005886 SEC-C motif; Region: SEC-C; pfam02810 331112005887 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 331112005888 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 331112005889 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 331112005890 GIY-YIG motif/motif A; other site 331112005891 active site 331112005892 catalytic site [active] 331112005893 putative DNA binding site [nucleotide binding]; other site 331112005894 metal binding site [ion binding]; metal-binding site 331112005895 UvrB/uvrC motif; Region: UVR; pfam02151 331112005896 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 331112005897 Helix-hairpin-helix motif; Region: HHH; pfam00633 331112005898 response regulator; Provisional; Region: PRK09483 331112005899 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 331112005900 active site 331112005901 phosphorylation site [posttranslational modification] 331112005902 intermolecular recognition site; other site 331112005903 dimerization interface [polypeptide binding]; other site 331112005904 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 331112005905 DNA binding residues [nucleotide binding] 331112005906 dimerization interface [polypeptide binding]; other site 331112005907 hypothetical protein; Provisional; Region: PRK10613 331112005908 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 331112005909 Autoinducer binding domain; Region: Autoind_bind; pfam03472 331112005910 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 331112005911 DNA binding residues [nucleotide binding] 331112005912 dimerization interface [polypeptide binding]; other site 331112005913 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 331112005914 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 331112005915 Walker A/P-loop; other site 331112005916 ATP binding site [chemical binding]; other site 331112005917 Q-loop/lid; other site 331112005918 ABC transporter signature motif; other site 331112005919 Walker B; other site 331112005920 D-loop; other site 331112005921 H-loop/switch region; other site 331112005922 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 331112005923 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 331112005924 dimer interface [polypeptide binding]; other site 331112005925 conserved gate region; other site 331112005926 putative PBP binding loops; other site 331112005927 ABC-ATPase subunit interface; other site 331112005928 D-cysteine desulfhydrase; Validated; Region: PRK03910 331112005929 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 331112005930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112005931 catalytic residue [active] 331112005932 cystine transporter subunit; Provisional; Region: PRK11260 331112005933 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 331112005934 substrate binding pocket [chemical binding]; other site 331112005935 membrane-bound complex binding site; other site 331112005936 hinge residues; other site 331112005937 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 331112005938 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 331112005939 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 331112005940 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 331112005941 DNA binding residues [nucleotide binding] 331112005942 flagellin; Validated; Region: PRK06819 331112005943 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 331112005944 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 331112005945 flagellar capping protein; Reviewed; Region: fliD; PRK08032 331112005946 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 331112005947 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 331112005948 Flagellar protein FliS; Region: FliS; cl00654 331112005949 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 331112005950 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 331112005951 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 331112005952 active site 331112005953 Na/Ca binding site [ion binding]; other site 331112005954 catalytic site [active] 331112005955 lipoprotein; Provisional; Region: PRK10397 331112005956 putative inner membrane protein; Provisional; Region: PRK11099 331112005957 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 331112005958 CPxP motif; other site 331112005959 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 331112005960 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 331112005961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 331112005962 Probable transposase; Region: OrfB_IS605; pfam01385 331112005963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 331112005964 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 331112005965 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 331112005966 substrate binding site [chemical binding]; other site 331112005967 multidrug efflux protein; Reviewed; Region: emrE; PRK09541 331112005968 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 331112005969 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 331112005970 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 331112005971 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 331112005972 flagellar motor switch protein FliG; Region: fliG; TIGR00207 331112005973 FliG C-terminal domain; Region: FliG_C; pfam01706 331112005974 flagellar assembly protein H; Validated; Region: fliH; PRK05687 331112005975 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 331112005976 Flagellar assembly protein FliH; Region: FliH; pfam02108 331112005977 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 331112005978 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 331112005979 Walker A motif/ATP binding site; other site 331112005980 Walker B motif; other site 331112005981 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 331112005982 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 331112005983 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 331112005984 flagellar hook-length control protein; Provisional; Region: PRK10118 331112005985 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 331112005986 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 331112005987 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 331112005988 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 331112005989 flagellar motor switch protein; Validated; Region: fliN; PRK05698 331112005990 flagellar biosynthesis protein FliO; Provisional; Region: PRK11486 331112005991 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 331112005992 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 331112005993 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 331112005994 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 331112005995 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 331112005996 DNA binding residues [nucleotide binding] 331112005997 dimerization interface [polypeptide binding]; other site 331112005998 hypothetical protein; Provisional; Region: PRK10708 331112005999 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 331112006000 Uncharacterized small protein [Function unknown]; Region: COG5475 331112006001 hypothetical protein; Provisional; Region: PRK10062 331112006002 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 331112006003 EamA-like transporter family; Region: EamA; pfam00892 331112006004 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 331112006005 additional DNA contacts [nucleotide binding]; other site 331112006006 mismatch recognition site; other site 331112006007 active site 331112006008 zinc binding site [ion binding]; other site 331112006009 DNA intercalation site [nucleotide binding]; other site 331112006010 DNA cytosine methylase; Provisional; Region: PRK10458 331112006011 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 331112006012 cofactor binding site; other site 331112006013 DNA binding site [nucleotide binding] 331112006014 substrate interaction site [chemical binding]; other site 331112006015 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 331112006016 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 331112006017 Zn2+ binding site [ion binding]; other site 331112006018 Mg2+ binding site [ion binding]; other site 331112006019 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112006020 Transposase; Region: HTH_Tnp_1; pfam01527 331112006021 putative transposase OrfB; Reviewed; Region: PHA02517 331112006022 HTH-like domain; Region: HTH_21; pfam13276 331112006023 Integrase core domain; Region: rve; pfam00665 331112006024 Integrase core domain; Region: rve_2; pfam13333 331112006025 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 331112006026 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 331112006027 chaperone protein HchA; Provisional; Region: PRK04155 331112006028 Type 1 glutamine amidotransferase (GATase1)-like domain found in Escherichia coli Hsp31 protein (EcHsp31); Region: GATase1_EcHsp31_like; cd03148 331112006029 dimer interface [polypeptide binding]; other site 331112006030 metal binding site [ion binding]; metal-binding site 331112006031 potential oxyanion hole; other site 331112006032 potential catalytic triad [active] 331112006033 conserved cys residue [active] 331112006034 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 331112006035 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 331112006036 dimer interface [polypeptide binding]; other site 331112006037 phosphorylation site [posttranslational modification] 331112006038 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 331112006039 ATP binding site [chemical binding]; other site 331112006040 Mg2+ binding site [ion binding]; other site 331112006041 G-X-G motif; other site 331112006042 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 331112006043 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 331112006044 active site 331112006045 phosphorylation site [posttranslational modification] 331112006046 intermolecular recognition site; other site 331112006047 dimerization interface [polypeptide binding]; other site 331112006048 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 331112006049 DNA binding site [nucleotide binding] 331112006050 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 331112006051 active site 331112006052 homotetramer interface [polypeptide binding]; other site 331112006053 TMAO/DMSO reductase; Reviewed; Region: PRK05363 331112006054 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 331112006055 Moco binding site; other site 331112006056 metal coordination site [ion binding]; other site 331112006057 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 331112006058 zinc/cadmium-binding protein; Provisional; Region: PRK10306 331112006059 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 331112006060 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 331112006061 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 331112006062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 331112006063 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 331112006064 Phage protein GP46; Region: GP46; pfam07409 331112006065 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 331112006066 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 331112006067 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 331112006068 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 331112006069 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 331112006070 tandem repeat interface [polypeptide binding]; other site 331112006071 oligomer interface [polypeptide binding]; other site 331112006072 active site residues [active] 331112006073 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 331112006074 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 331112006075 gpW; Region: gpW; pfam02831 331112006076 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 331112006077 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 331112006078 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 331112006079 dimer interface [polypeptide binding]; other site 331112006080 active site 331112006081 Int/Topo IB signature motif; other site 331112006082 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 331112006083 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 331112006084 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 331112006085 shikimate transporter; Provisional; Region: PRK09952 331112006086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112006087 putative substrate translocation pore; other site 331112006088 AMP nucleosidase; Provisional; Region: PRK08292 331112006089 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 331112006090 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 331112006091 hypothetical protein; Provisional; Region: PRK12378 331112006092 MATE family multidrug exporter; Provisional; Region: PRK10189 331112006093 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 331112006094 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 331112006095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112006096 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 331112006097 putative substrate binding site [chemical binding]; other site 331112006098 dimerization interface [polypeptide binding]; other site 331112006099 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 331112006100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112006101 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 331112006102 putative dimerization interface [polypeptide binding]; other site 331112006103 L,D-transpeptidase; Provisional; Region: PRK10190 331112006104 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 331112006105 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 331112006106 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 331112006107 putative dimer interface [polypeptide binding]; other site 331112006108 active site pocket [active] 331112006109 putative cataytic base [active] 331112006110 cobalamin 5'-phosphate synthase/cobalamin synthase; Region: cobS; TIGR00317 331112006111 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 331112006112 homotrimer interface [polypeptide binding]; other site 331112006113 Walker A motif; other site 331112006114 GTP binding site [chemical binding]; other site 331112006115 Walker B motif; other site 331112006116 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 331112006117 homodimer interaction site [polypeptide binding]; other site 331112006118 substrate binding pocket [chemical binding]; other site 331112006119 active site 331112006120 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 331112006121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112006122 Transposase; Region: HTH_Tnp_1; pfam01527 331112006123 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 331112006124 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 331112006125 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 331112006126 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 331112006127 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 331112006128 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 331112006129 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 331112006130 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 331112006131 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 331112006132 Haemolysin expression modulating protein; Region: HHA; pfam05321 331112006133 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 331112006134 Predicted GTPase [General function prediction only]; Region: COG3596 331112006135 YfjP GTPase; Region: YfjP; cd11383 331112006136 G1 box; other site 331112006137 GTP/Mg2+ binding site [chemical binding]; other site 331112006138 Switch I region; other site 331112006139 G2 box; other site 331112006140 Switch II region; other site 331112006141 G3 box; other site 331112006142 G4 box; other site 331112006143 G5 box; other site 331112006144 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 331112006145 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 331112006146 hypothetical protein; Provisional; Region: PRK09945 331112006147 hypothetical protein; Provisional; Region: PRK09945 331112006148 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 331112006149 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 331112006150 Enterobacterial protein of unknown function (DUF957); Region: DUF957; pfam06117 331112006151 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 331112006152 G4 box; other site 331112006153 G5 box; other site 331112006154 hypothetical protein; Provisional; Region: PRK05423 331112006155 Predicted membrane protein [Function unknown]; Region: COG1289 331112006156 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 331112006157 DNA gyrase inhibitor; Provisional; Region: PRK10016 331112006158 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 331112006159 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 331112006160 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 331112006161 exonuclease I; Provisional; Region: sbcB; PRK11779 331112006162 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 331112006163 active site 331112006164 catalytic site [active] 331112006165 substrate binding site [chemical binding]; other site 331112006166 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 331112006167 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 331112006168 CPxP motif; other site 331112006169 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 331112006170 Sulphur transport; Region: Sulf_transp; pfam04143 331112006171 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 331112006172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112006173 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 331112006174 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 331112006175 dimerization interface [polypeptide binding]; other site 331112006176 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 331112006177 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 331112006178 putative NAD(P) binding site [chemical binding]; other site 331112006179 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 331112006180 antitoxin YefM; Provisional; Region: PRK11409 331112006181 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 331112006182 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 331112006183 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 331112006184 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 331112006185 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 331112006186 NAD binding site [chemical binding]; other site 331112006187 dimerization interface [polypeptide binding]; other site 331112006188 product binding site; other site 331112006189 substrate binding site [chemical binding]; other site 331112006190 zinc binding site [ion binding]; other site 331112006191 catalytic residues [active] 331112006192 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 331112006193 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 331112006194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112006195 homodimer interface [polypeptide binding]; other site 331112006196 catalytic residue [active] 331112006197 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 331112006198 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 331112006199 active site 331112006200 motif I; other site 331112006201 motif II; other site 331112006202 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 331112006203 putative active site pocket [active] 331112006204 4-fold oligomerization interface [polypeptide binding]; other site 331112006205 metal binding residues [ion binding]; metal-binding site 331112006206 3-fold/trimer interface [polypeptide binding]; other site 331112006207 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 331112006208 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 331112006209 putative active site [active] 331112006210 oxyanion strand; other site 331112006211 catalytic triad [active] 331112006212 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 331112006213 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 331112006214 catalytic residues [active] 331112006215 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 331112006216 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 331112006217 substrate binding site [chemical binding]; other site 331112006218 glutamase interaction surface [polypeptide binding]; other site 331112006219 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 331112006220 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 331112006221 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 331112006222 metal binding site [ion binding]; metal-binding site 331112006223 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 331112006224 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 331112006225 putative ADP-binding pocket [chemical binding]; other site 331112006226 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 331112006227 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 331112006228 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 331112006229 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 331112006230 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 331112006231 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 331112006232 Methyltransferase domain; Region: Methyltransf_31; pfam13847 331112006233 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 331112006234 S-adenosylmethionine binding site [chemical binding]; other site 331112006235 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 331112006236 active site 331112006237 ATP binding site [chemical binding]; other site 331112006238 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 331112006239 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 331112006240 Walker A/P-loop; other site 331112006241 ATP binding site [chemical binding]; other site 331112006242 Q-loop/lid; other site 331112006243 ABC transporter signature motif; other site 331112006244 Walker B; other site 331112006245 D-loop; other site 331112006246 H-loop/switch region; other site 331112006247 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 331112006248 putative carbohydrate binding site [chemical binding]; other site 331112006249 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 331112006250 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 331112006251 phosphomannomutase CpsG; Provisional; Region: PRK15414 331112006252 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 331112006253 active site 331112006254 substrate binding site [chemical binding]; other site 331112006255 metal binding site [ion binding]; metal-binding site 331112006256 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 331112006257 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 331112006258 Substrate binding site; other site 331112006259 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 331112006260 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 331112006261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112006262 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112006263 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112006264 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 331112006265 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 331112006266 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 331112006267 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 331112006268 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 331112006269 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 331112006270 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 331112006271 NADP binding site [chemical binding]; other site 331112006272 active site 331112006273 putative substrate binding site [chemical binding]; other site 331112006274 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 331112006275 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 331112006276 substrate binding site; other site 331112006277 tetramer interface; other site 331112006278 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 331112006279 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 331112006280 NAD binding site [chemical binding]; other site 331112006281 substrate binding site [chemical binding]; other site 331112006282 homodimer interface [polypeptide binding]; other site 331112006283 active site 331112006284 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 331112006285 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 331112006286 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 331112006287 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 331112006288 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 331112006289 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 331112006290 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 331112006291 active site 331112006292 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 331112006293 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 331112006294 active site 331112006295 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 331112006296 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 331112006297 Bacterial sugar transferase; Region: Bac_transf; pfam02397 331112006298 tyrosine kinase; Provisional; Region: PRK11519 331112006299 Chain length determinant protein; Region: Wzz; pfam02706 331112006300 Chain length determinant protein; Region: Wzz; cl15801 331112006301 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 331112006302 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 331112006303 Nucleotide binding site [chemical binding]; other site 331112006304 DTAP/Switch II; other site 331112006305 Switch I; other site 331112006306 Low molecular weight phosphatase family; Region: LMWPc; cd00115 331112006307 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 331112006308 active site 331112006309 polysaccharide export protein Wza; Provisional; Region: PRK15078 331112006310 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 331112006311 SLBB domain; Region: SLBB; pfam10531 331112006312 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 331112006313 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112006314 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112006315 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112006316 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 331112006317 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 331112006318 active site 331112006319 tetramer interface; other site 331112006320 putative assembly protein; Provisional; Region: PRK10833 331112006321 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 331112006322 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 331112006323 trimer interface [polypeptide binding]; other site 331112006324 active site 331112006325 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 331112006326 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 331112006327 ATP-binding site [chemical binding]; other site 331112006328 Sugar specificity; other site 331112006329 Pyrimidine base specificity; other site 331112006330 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 331112006331 AlkA N-terminal domain; Region: AlkA_N; smart01009 331112006332 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 331112006333 minor groove reading motif; other site 331112006334 helix-hairpin-helix signature motif; other site 331112006335 substrate binding pocket [chemical binding]; other site 331112006336 active site 331112006337 putative chaperone; Provisional; Region: PRK11678 331112006338 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 331112006339 nucleotide binding site [chemical binding]; other site 331112006340 putative NEF/HSP70 interaction site [polypeptide binding]; other site 331112006341 SBD interface [polypeptide binding]; other site 331112006342 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 331112006343 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 331112006344 substrate binding site [chemical binding]; other site 331112006345 activation loop (A-loop); other site 331112006346 Y-family of DNA polymerases; Region: PolY; cl12025 331112006347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 331112006348 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 331112006349 Protein phosphatase 2C; Region: PP2C_2; pfam13672 331112006350 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 331112006351 metal ion-dependent adhesion site (MIDAS); other site 331112006352 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 331112006353 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112006354 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112006355 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 331112006356 Protein export membrane protein; Region: SecD_SecF; cl14618 331112006357 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 331112006358 putative transporter; Provisional; Region: PRK10504 331112006359 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112006360 putative substrate translocation pore; other site 331112006361 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112006362 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 331112006363 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 331112006364 dimerization interface [polypeptide binding]; other site 331112006365 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 331112006366 dimer interface [polypeptide binding]; other site 331112006367 phosphorylation site [posttranslational modification] 331112006368 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 331112006369 ATP binding site [chemical binding]; other site 331112006370 Mg2+ binding site [ion binding]; other site 331112006371 G-X-G motif; other site 331112006372 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 331112006373 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 331112006374 active site 331112006375 phosphorylation site [posttranslational modification] 331112006376 intermolecular recognition site; other site 331112006377 dimerization interface [polypeptide binding]; other site 331112006378 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 331112006379 DNA binding site [nucleotide binding] 331112006380 Uncharacterized conserved protein [Function unknown]; Region: COG3422 331112006381 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 331112006382 lipid kinase; Reviewed; Region: PRK13054 331112006383 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 331112006384 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 331112006385 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 331112006386 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 331112006387 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 331112006388 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 331112006389 putative NAD(P) binding site [chemical binding]; other site 331112006390 catalytic Zn binding site [ion binding]; other site 331112006391 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 331112006392 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 331112006393 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 331112006394 active site 331112006395 P-loop; other site 331112006396 phosphorylation site [posttranslational modification] 331112006397 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 331112006398 active site 331112006399 phosphorylation site [posttranslational modification] 331112006400 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional; Region: PRK15052 331112006401 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 331112006402 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 331112006403 intersubunit interface [polypeptide binding]; other site 331112006404 active site 331112006405 zinc binding site [ion binding]; other site 331112006406 Na+ binding site [ion binding]; other site 331112006407 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 331112006408 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 331112006409 putative active site; other site 331112006410 catalytic residue [active] 331112006411 nucleoside transporter; Region: 2A0110; TIGR00889 331112006412 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112006413 putative substrate translocation pore; other site 331112006414 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 331112006415 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 331112006416 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 331112006417 substrate binding site [chemical binding]; other site 331112006418 ATP binding site [chemical binding]; other site 331112006419 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 331112006420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112006421 DNA-binding site [nucleotide binding]; DNA binding site 331112006422 UTRA domain; Region: UTRA; pfam07702 331112006423 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 331112006424 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 331112006425 active site 331112006426 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 331112006427 dimer interface [polypeptide binding]; other site 331112006428 substrate binding site [chemical binding]; other site 331112006429 ATP binding site [chemical binding]; other site 331112006430 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 331112006431 substrate binding site [chemical binding]; other site 331112006432 multimerization interface [polypeptide binding]; other site 331112006433 ATP binding site [chemical binding]; other site 331112006434 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 331112006435 putative metal binding site [ion binding]; other site 331112006436 putative homodimer interface [polypeptide binding]; other site 331112006437 putative homotetramer interface [polypeptide binding]; other site 331112006438 putative homodimer-homodimer interface [polypeptide binding]; other site 331112006439 putative allosteric switch controlling residues; other site 331112006440 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 331112006441 Predicted integral membrane protein [Function unknown]; Region: COG5455 331112006442 putative fimbrial-like adhesin protein StcD; Provisional; Region: PRK15252 331112006443 putative fimbrial biosynthesis regulatory protein; Provisional; Region: PRK15216 331112006444 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 331112006445 PapC N-terminal domain; Region: PapC_N; pfam13954 331112006446 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 331112006447 PapC C-terminal domain; Region: PapC_C; pfam13953 331112006448 putative fimbrial assembly chaperone protein StcB; Provisional; Region: PRK15253 331112006449 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 331112006450 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 331112006451 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 331112006452 antiporter inner membrane protein; Provisional; Region: PRK11670 331112006453 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 331112006454 Walker A motif; other site 331112006455 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 331112006456 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 331112006457 active site 331112006458 HIGH motif; other site 331112006459 KMSKS motif; other site 331112006460 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 331112006461 tRNA binding surface [nucleotide binding]; other site 331112006462 anticodon binding site; other site 331112006463 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 331112006464 dimer interface [polypeptide binding]; other site 331112006465 putative tRNA-binding site [nucleotide binding]; other site 331112006466 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 331112006467 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 331112006468 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 331112006469 MoxR-like ATPases [General function prediction only]; Region: COG0714 331112006470 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 331112006471 Walker A motif; other site 331112006472 ATP binding site [chemical binding]; other site 331112006473 Walker B motif; other site 331112006474 arginine finger; other site 331112006475 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 331112006476 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 331112006477 metal ion-dependent adhesion site (MIDAS); other site 331112006478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 331112006479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 331112006480 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 331112006481 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 331112006482 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 331112006483 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 331112006484 active site 331112006485 phosphorylation site [posttranslational modification] 331112006486 intermolecular recognition site; other site 331112006487 dimerization interface [polypeptide binding]; other site 331112006488 LytTr DNA-binding domain; Region: LytTR; pfam04397 331112006489 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 331112006490 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 331112006491 GAF domain; Region: GAF; pfam01590 331112006492 Histidine kinase; Region: His_kinase; pfam06580 331112006493 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 331112006494 ATP binding site [chemical binding]; other site 331112006495 Mg2+ binding site [ion binding]; other site 331112006496 G-X-G motif; other site 331112006497 hypothetical protein; Provisional; Region: PRK13681 331112006498 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 331112006499 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 331112006500 dimer interface [polypeptide binding]; other site 331112006501 conserved gate region; other site 331112006502 putative PBP binding loops; other site 331112006503 ABC-ATPase subunit interface; other site 331112006504 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 331112006505 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 331112006506 Walker A/P-loop; other site 331112006507 ATP binding site [chemical binding]; other site 331112006508 Q-loop/lid; other site 331112006509 ABC transporter signature motif; other site 331112006510 Walker B; other site 331112006511 D-loop; other site 331112006512 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 331112006513 H-loop/switch region; other site 331112006514 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 331112006515 dimer interface [polypeptide binding]; other site 331112006516 conserved gate region; other site 331112006517 ABC-ATPase subunit interface; other site 331112006518 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 331112006519 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 331112006520 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 331112006521 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 331112006522 D-lactate dehydrogenase; Provisional; Region: PRK11183 331112006523 FAD binding domain; Region: FAD_binding_4; pfam01565 331112006524 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 331112006525 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 331112006526 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 331112006527 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 331112006528 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 331112006529 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 331112006530 oxidoreductase; Provisional; Region: PRK12743 331112006531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331112006532 NAD(P) binding site [chemical binding]; other site 331112006533 active site 331112006534 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 331112006535 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 331112006536 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 331112006537 FMN binding site [chemical binding]; other site 331112006538 active site 331112006539 catalytic residues [active] 331112006540 substrate binding site [chemical binding]; other site 331112006541 hypothetical protein; Provisional; Region: PRK01821 331112006542 cytidine deaminase; Provisional; Region: PRK09027 331112006543 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 331112006544 active site 331112006545 catalytic motif [active] 331112006546 Zn binding site [ion binding]; other site 331112006547 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 331112006548 active site 331112006549 catalytic motif [active] 331112006550 Zn binding site [ion binding]; other site 331112006551 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 331112006552 putative active site [active] 331112006553 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 331112006554 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 331112006555 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 331112006556 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112006557 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 331112006558 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 331112006559 homodimer interface [polypeptide binding]; other site 331112006560 active site 331112006561 FMN binding site [chemical binding]; other site 331112006562 substrate binding site [chemical binding]; other site 331112006563 4Fe-4S binding domain; Region: Fer4; pfam00037 331112006564 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112006565 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 331112006566 TM-ABC transporter signature motif; other site 331112006567 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 331112006568 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 331112006569 Walker A/P-loop; other site 331112006570 ATP binding site [chemical binding]; other site 331112006571 Q-loop/lid; other site 331112006572 ABC transporter signature motif; other site 331112006573 Walker B; other site 331112006574 D-loop; other site 331112006575 H-loop/switch region; other site 331112006576 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 331112006577 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 331112006578 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 331112006579 ligand binding site [chemical binding]; other site 331112006580 calcium binding site [ion binding]; other site 331112006581 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 331112006582 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112006583 DNA binding site [nucleotide binding] 331112006584 domain linker motif; other site 331112006585 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 331112006586 dimerization interface (closed form) [polypeptide binding]; other site 331112006587 ligand binding site [chemical binding]; other site 331112006588 Predicted membrane protein [Function unknown]; Region: COG2311 331112006589 hypothetical protein; Provisional; Region: PRK10835 331112006590 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 331112006591 homodecamer interface [polypeptide binding]; other site 331112006592 GTP cyclohydrolase I; Provisional; Region: PLN03044 331112006593 active site 331112006594 putative catalytic site residues [active] 331112006595 zinc binding site [ion binding]; other site 331112006596 GTP-CH-I/GFRP interaction surface; other site 331112006597 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 331112006598 S-formylglutathione hydrolase; Region: PLN02442 331112006599 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 331112006600 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 331112006601 N-terminal plug; other site 331112006602 ligand-binding site [chemical binding]; other site 331112006603 lysine transporter; Provisional; Region: PRK10836 331112006604 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 331112006605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112006606 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 331112006607 putative dimerization interface [polypeptide binding]; other site 331112006608 conserved hypothetical integral membrane protein; Region: TIGR00698 331112006609 endonuclease IV; Provisional; Region: PRK01060 331112006610 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 331112006611 AP (apurinic/apyrimidinic) site pocket; other site 331112006612 DNA interaction; other site 331112006613 Metal-binding active site; metal-binding site 331112006614 putative kinase; Provisional; Region: PRK09954 331112006615 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 331112006616 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 331112006617 substrate binding site [chemical binding]; other site 331112006618 ATP binding site [chemical binding]; other site 331112006619 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 331112006620 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 331112006621 Nucleoside recognition; Region: Gate; pfam07670 331112006622 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 331112006623 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 331112006624 active site 331112006625 tetramer interface [polypeptide binding]; other site 331112006626 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 331112006627 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 331112006628 ligand binding site [chemical binding]; other site 331112006629 flexible hinge region; other site 331112006630 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 331112006631 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 331112006632 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 331112006633 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 331112006634 substrate binding site [chemical binding]; other site 331112006635 ATP binding site [chemical binding]; other site 331112006636 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 331112006637 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 331112006638 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 331112006639 active site 331112006640 P-loop; other site 331112006641 phosphorylation site [posttranslational modification] 331112006642 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 331112006643 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 331112006644 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 331112006645 putative substrate binding site [chemical binding]; other site 331112006646 putative ATP binding site [chemical binding]; other site 331112006647 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 331112006648 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 331112006649 active site 331112006650 phosphorylation site [posttranslational modification] 331112006651 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 331112006652 dimerization domain swap beta strand [polypeptide binding]; other site 331112006653 regulatory protein interface [polypeptide binding]; other site 331112006654 active site 331112006655 regulatory phosphorylation site [posttranslational modification]; other site 331112006656 sugar efflux transporter B; Provisional; Region: PRK15011 331112006657 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112006658 putative substrate translocation pore; other site 331112006659 elongation factor P; Provisional; Region: PRK04542 331112006660 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 331112006661 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 331112006662 RNA binding site [nucleotide binding]; other site 331112006663 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 331112006664 RNA binding site [nucleotide binding]; other site 331112006665 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 331112006666 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 331112006667 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 331112006668 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 331112006669 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 331112006670 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 331112006671 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 331112006672 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 331112006673 active site 331112006674 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 331112006675 NlpC/P60 family; Region: NLPC_P60; pfam00877 331112006676 phage resistance protein; Provisional; Region: PRK10551 331112006677 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 331112006678 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 331112006679 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 331112006680 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 331112006681 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 331112006682 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 331112006683 dimer interface [polypeptide binding]; other site 331112006684 conserved gate region; other site 331112006685 putative PBP binding loops; other site 331112006686 ABC-ATPase subunit interface; other site 331112006687 microcin C ABC transporter permease; Provisional; Region: PRK15021 331112006688 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 331112006689 dimer interface [polypeptide binding]; other site 331112006690 conserved gate region; other site 331112006691 ABC-ATPase subunit interface; other site 331112006692 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 331112006693 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112006694 Walker A/P-loop; other site 331112006695 ATP binding site [chemical binding]; other site 331112006696 Q-loop/lid; other site 331112006697 ABC transporter signature motif; other site 331112006698 Walker B; other site 331112006699 D-loop; other site 331112006700 H-loop/switch region; other site 331112006701 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331112006702 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112006703 Walker A/P-loop; other site 331112006704 ATP binding site [chemical binding]; other site 331112006705 Q-loop/lid; other site 331112006706 ABC transporter signature motif; other site 331112006707 Walker B; other site 331112006708 D-loop; other site 331112006709 H-loop/switch region; other site 331112006710 hypothetical protein; Provisional; Region: PRK11835 331112006711 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112006712 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 331112006713 putative substrate translocation pore; other site 331112006714 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 331112006715 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 331112006716 RNA binding surface [nucleotide binding]; other site 331112006717 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 331112006718 active site 331112006719 uracil binding [chemical binding]; other site 331112006720 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 331112006721 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 331112006722 ATP binding site [chemical binding]; other site 331112006723 putative Mg++ binding site [ion binding]; other site 331112006724 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 331112006725 nucleotide binding region [chemical binding]; other site 331112006726 ATP-binding site [chemical binding]; other site 331112006727 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 331112006728 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 331112006729 5S rRNA interface [nucleotide binding]; other site 331112006730 CTC domain interface [polypeptide binding]; other site 331112006731 L16 interface [polypeptide binding]; other site 331112006732 Nucleoid-associated protein [General function prediction only]; Region: COG3081 331112006733 nucleoid-associated protein NdpA; Validated; Region: PRK00378 331112006734 hypothetical protein; Provisional; Region: PRK13689 331112006735 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 331112006736 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 331112006737 Sulfatase; Region: Sulfatase; pfam00884 331112006738 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 331112006739 hypothetical protein; Provisional; Region: PRK09945 331112006740 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 331112006741 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 331112006742 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331112006743 transcriptional regulator NarP; Provisional; Region: PRK10403 331112006744 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 331112006745 active site 331112006746 phosphorylation site [posttranslational modification] 331112006747 intermolecular recognition site; other site 331112006748 dimerization interface [polypeptide binding]; other site 331112006749 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 331112006750 DNA binding residues [nucleotide binding] 331112006751 dimerization interface [polypeptide binding]; other site 331112006752 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 331112006753 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 331112006754 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 331112006755 binding surface 331112006756 TPR motif; other site 331112006757 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 331112006758 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 331112006759 catalytic residues [active] 331112006760 central insert; other site 331112006761 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 331112006762 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 331112006763 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 331112006764 heme exporter protein CcmC; Region: ccmC; TIGR01191 331112006765 heme exporter protein CcmB; Region: ccmB; TIGR01190 331112006766 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 331112006767 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 331112006768 Walker A/P-loop; other site 331112006769 ATP binding site [chemical binding]; other site 331112006770 Q-loop/lid; other site 331112006771 ABC transporter signature motif; other site 331112006772 Walker B; other site 331112006773 D-loop; other site 331112006774 H-loop/switch region; other site 331112006775 cytochrome c-type protein NapC; Provisional; Region: PRK10617 331112006776 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 331112006777 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 331112006778 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 331112006779 4Fe-4S binding domain; Region: Fer4_5; pfam12801 331112006780 4Fe-4S binding domain; Region: Fer4_6; pfam12837 331112006781 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 331112006782 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 331112006783 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 331112006784 [4Fe-4S] binding site [ion binding]; other site 331112006785 molybdopterin cofactor binding site; other site 331112006786 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 331112006787 molybdopterin cofactor binding site; other site 331112006788 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 331112006789 ferredoxin-type protein; Provisional; Region: PRK10194 331112006790 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 331112006791 secondary substrate binding site; other site 331112006792 primary substrate binding site; other site 331112006793 inhibition loop; other site 331112006794 dimerization interface [polypeptide binding]; other site 331112006795 malate:quinone oxidoreductase; Validated; Region: PRK05257 331112006796 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 331112006797 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 331112006798 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 331112006799 Walker A/P-loop; other site 331112006800 ATP binding site [chemical binding]; other site 331112006801 Q-loop/lid; other site 331112006802 ABC transporter signature motif; other site 331112006803 Walker B; other site 331112006804 D-loop; other site 331112006805 H-loop/switch region; other site 331112006806 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 331112006807 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 331112006808 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 331112006809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112006810 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112006811 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 331112006812 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 331112006813 DNA binding site [nucleotide binding] 331112006814 active site 331112006815 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 331112006816 ApbE family; Region: ApbE; pfam02424 331112006817 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 331112006818 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 331112006819 trimer interface [polypeptide binding]; other site 331112006820 eyelet of channel; other site 331112006821 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 331112006822 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 331112006823 ATP binding site [chemical binding]; other site 331112006824 G-X-G motif; other site 331112006825 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 331112006826 putative binding surface; other site 331112006827 active site 331112006828 transcriptional regulator RcsB; Provisional; Region: PRK10840 331112006829 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 331112006830 active site 331112006831 phosphorylation site [posttranslational modification] 331112006832 intermolecular recognition site; other site 331112006833 dimerization interface [polypeptide binding]; other site 331112006834 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 331112006835 DNA binding residues [nucleotide binding] 331112006836 dimerization interface [polypeptide binding]; other site 331112006837 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 331112006838 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 331112006839 dimer interface [polypeptide binding]; other site 331112006840 phosphorylation site [posttranslational modification] 331112006841 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 331112006842 ATP binding site [chemical binding]; other site 331112006843 Mg2+ binding site [ion binding]; other site 331112006844 G-X-G motif; other site 331112006845 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 331112006846 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 331112006847 active site 331112006848 phosphorylation site [posttranslational modification] 331112006849 intermolecular recognition site; other site 331112006850 dimerization interface [polypeptide binding]; other site 331112006851 sensory histidine kinase AtoS; Provisional; Region: PRK11360 331112006852 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 331112006853 putative active site [active] 331112006854 heme pocket [chemical binding]; other site 331112006855 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 331112006856 dimer interface [polypeptide binding]; other site 331112006857 phosphorylation site [posttranslational modification] 331112006858 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 331112006859 ATP binding site [chemical binding]; other site 331112006860 Mg2+ binding site [ion binding]; other site 331112006861 G-X-G motif; other site 331112006862 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 331112006863 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 331112006864 active site 331112006865 phosphorylation site [posttranslational modification] 331112006866 intermolecular recognition site; other site 331112006867 dimerization interface [polypeptide binding]; other site 331112006868 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 331112006869 Walker A motif; other site 331112006870 ATP binding site [chemical binding]; other site 331112006871 Walker B motif; other site 331112006872 arginine finger; other site 331112006873 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 331112006874 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 331112006875 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 331112006876 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 331112006877 putative acyltransferase; Provisional; Region: PRK05790 331112006878 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 331112006879 dimer interface [polypeptide binding]; other site 331112006880 active site 331112006881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 331112006882 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 331112006883 Predicted secreted protein [Function unknown]; Region: COG5445 331112006884 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 331112006885 Predicted secreted protein [Function unknown]; Region: COG5445 331112006886 Stage II sporulation protein; Region: SpoIID; pfam08486 331112006887 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 331112006888 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 331112006889 MG2 domain; Region: A2M_N; pfam01835 331112006890 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 331112006891 Alpha-2-macroglobulin family; Region: A2M; pfam00207 331112006892 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 331112006893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 331112006894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 331112006895 DNA gyrase subunit A; Validated; Region: PRK05560 331112006896 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 331112006897 CAP-like domain; other site 331112006898 active site 331112006899 primary dimer interface [polypeptide binding]; other site 331112006900 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331112006901 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331112006902 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331112006903 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331112006904 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331112006905 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331112006906 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 331112006907 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 331112006908 S-adenosylmethionine binding site [chemical binding]; other site 331112006909 adhesin; Provisional; Region: PRK09752 331112006910 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 331112006911 Autotransporter beta-domain; Region: Autotransporter; pfam03797 331112006912 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 331112006913 ATP cone domain; Region: ATP-cone; pfam03477 331112006914 Class I ribonucleotide reductase; Region: RNR_I; cd01679 331112006915 active site 331112006916 dimer interface [polypeptide binding]; other site 331112006917 catalytic residues [active] 331112006918 effector binding site; other site 331112006919 R2 peptide binding site; other site 331112006920 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 331112006921 dimer interface [polypeptide binding]; other site 331112006922 putative radical transfer pathway; other site 331112006923 diiron center [ion binding]; other site 331112006924 tyrosyl radical; other site 331112006925 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 331112006926 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 331112006927 catalytic loop [active] 331112006928 iron binding site [ion binding]; other site 331112006929 hypothetical protein; Provisional; Region: PRK09902 331112006930 hypothetical protein; Provisional; Region: PRK09729 331112006931 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 331112006932 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 331112006933 active site 331112006934 catalytic site [active] 331112006935 metal binding site [ion binding]; metal-binding site 331112006936 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 331112006937 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112006938 putative substrate translocation pore; other site 331112006939 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 331112006940 hydroxyglutarate oxidase; Provisional; Region: PRK11728 331112006941 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 331112006942 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 331112006943 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 331112006944 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 331112006945 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 331112006946 Cysteine-rich domain; Region: CCG; pfam02754 331112006947 Cysteine-rich domain; Region: CCG; pfam02754 331112006948 hypothetical protein; Provisional; Region: PRK09956 331112006949 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 331112006950 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional; Region: PRK10128 331112006951 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 331112006952 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112006953 putative substrate translocation pore; other site 331112006954 L-rhamnonate dehydratase; Provisional; Region: PRK15440 331112006955 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 331112006956 putative active site pocket [active] 331112006957 putative metal binding site [ion binding]; other site 331112006958 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 331112006959 Transcriptional regulator [Transcription]; Region: IclR; COG1414 331112006960 Bacterial transcriptional regulator; Region: IclR; pfam01614 331112006961 hypothetical protein; Provisional; Region: PRK03673 331112006962 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 331112006963 putative MPT binding site; other site 331112006964 Competence-damaged protein; Region: CinA; cl00666 331112006965 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 331112006966 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 331112006967 catalytic core [active] 331112006968 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 331112006969 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 331112006970 inhibitor-cofactor binding pocket; inhibition site 331112006971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112006972 catalytic residue [active] 331112006973 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 331112006974 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 331112006975 Ligand binding site; other site 331112006976 Putative Catalytic site; other site 331112006977 DXD motif; other site 331112006978 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 331112006979 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 331112006980 substrate binding site [chemical binding]; other site 331112006981 cosubstrate binding site; other site 331112006982 catalytic site [active] 331112006983 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 331112006984 active site 331112006985 hexamer interface [polypeptide binding]; other site 331112006986 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 331112006987 NAD binding site [chemical binding]; other site 331112006988 substrate binding site [chemical binding]; other site 331112006989 active site 331112006990 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 331112006991 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 331112006992 putative active site [active] 331112006993 putative catalytic site [active] 331112006994 putative Zn binding site [ion binding]; other site 331112006995 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 331112006996 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 331112006997 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 331112006998 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 331112006999 signal transduction protein PmrD; Provisional; Region: PRK15450 331112007000 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 331112007001 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 331112007002 acyl-activating enzyme (AAE) consensus motif; other site 331112007003 putative AMP binding site [chemical binding]; other site 331112007004 putative active site [active] 331112007005 putative CoA binding site [chemical binding]; other site 331112007006 O-succinylbenzoate synthase; Provisional; Region: PRK05105 331112007007 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 331112007008 active site 331112007009 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 331112007010 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 331112007011 substrate binding site [chemical binding]; other site 331112007012 oxyanion hole (OAH) forming residues; other site 331112007013 trimer interface [polypeptide binding]; other site 331112007014 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 331112007015 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 331112007016 nucleophilic elbow; other site 331112007017 catalytic triad; other site 331112007018 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 331112007019 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 331112007020 dimer interface [polypeptide binding]; other site 331112007021 tetramer interface [polypeptide binding]; other site 331112007022 PYR/PP interface [polypeptide binding]; other site 331112007023 TPP binding site [chemical binding]; other site 331112007024 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 331112007025 TPP-binding site; other site 331112007026 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 331112007027 isochorismate synthases; Region: isochor_syn; TIGR00543 331112007028 hypothetical protein; Provisional; Region: PRK10404 331112007029 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112007030 Coenzyme A binding pocket [chemical binding]; other site 331112007031 ribonuclease BN; Region: true_RNase_BN; TIGR02649 331112007032 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112007033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112007034 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112007035 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112007036 von Willebrand factor; Region: vWF_A; pfam12450 331112007037 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 331112007038 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 331112007039 metal ion-dependent adhesion site (MIDAS); other site 331112007040 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 331112007041 M28 Zn-Peptidases; Region: M28_like_1; cd05640 331112007042 Peptidase family M28; Region: Peptidase_M28; pfam04389 331112007043 metal binding site [ion binding]; metal-binding site 331112007044 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 331112007045 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 331112007046 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 331112007047 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 331112007048 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 331112007049 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 331112007050 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 331112007051 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 331112007052 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 331112007053 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 331112007054 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 331112007055 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 331112007056 4Fe-4S binding domain; Region: Fer4; pfam00037 331112007057 4Fe-4S binding domain; Region: Fer4; pfam00037 331112007058 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 331112007059 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 331112007060 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 331112007061 catalytic loop [active] 331112007062 iron binding site [ion binding]; other site 331112007063 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 331112007064 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 331112007065 [4Fe-4S] binding site [ion binding]; other site 331112007066 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 331112007067 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 331112007068 SLBB domain; Region: SLBB; pfam10531 331112007069 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 331112007070 NADH dehydrogenase subunit E; Validated; Region: PRK07539 331112007071 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 331112007072 putative dimer interface [polypeptide binding]; other site 331112007073 [2Fe-2S] cluster binding site [ion binding]; other site 331112007074 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 331112007075 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 331112007076 NADH dehydrogenase subunit D; Validated; Region: PRK06075 331112007077 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 331112007078 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 331112007079 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 331112007080 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112007081 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 331112007082 putative dimerization interface [polypeptide binding]; other site 331112007083 aminotransferase AlaT; Validated; Region: PRK09265 331112007084 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 331112007085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112007086 homodimer interface [polypeptide binding]; other site 331112007087 catalytic residue [active] 331112007088 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 331112007089 Zn2+ binding site [ion binding]; other site 331112007090 Mg2+ binding site [ion binding]; other site 331112007091 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 331112007092 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 331112007093 TrkA-C domain; Region: TrkA_C; pfam02080 331112007094 TrkA-C domain; Region: TrkA_C; pfam02080 331112007095 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 331112007096 putative phosphatase; Provisional; Region: PRK11587 331112007097 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 331112007098 motif II; other site 331112007099 hypothetical protein; Provisional; Region: PRK01816 331112007100 propionate/acetate kinase; Provisional; Region: PRK12379 331112007101 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 331112007102 phosphate acetyltransferase; Reviewed; Region: PRK05632 331112007103 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 331112007104 DRTGG domain; Region: DRTGG; pfam07085 331112007105 phosphate acetyltransferase; Region: pta; TIGR00651 331112007106 hypothetical protein; Provisional; Region: PRK11588 331112007107 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 331112007108 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 331112007109 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 331112007110 nudix motif; other site 331112007111 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 331112007112 active site 331112007113 metal binding site [ion binding]; metal-binding site 331112007114 homotetramer interface [polypeptide binding]; other site 331112007115 glutathione S-transferase; Provisional; Region: PRK15113 331112007116 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 331112007117 C-terminal domain interface [polypeptide binding]; other site 331112007118 GSH binding site (G-site) [chemical binding]; other site 331112007119 dimer interface [polypeptide binding]; other site 331112007120 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 331112007121 N-terminal domain interface [polypeptide binding]; other site 331112007122 putative dimer interface [polypeptide binding]; other site 331112007123 putative substrate binding pocket (H-site) [chemical binding]; other site 331112007124 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 331112007125 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 331112007126 C-terminal domain interface [polypeptide binding]; other site 331112007127 GSH binding site (G-site) [chemical binding]; other site 331112007128 dimer interface [polypeptide binding]; other site 331112007129 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 331112007130 N-terminal domain interface [polypeptide binding]; other site 331112007131 putative dimer interface [polypeptide binding]; other site 331112007132 active site 331112007133 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 331112007134 homooctamer interface [polypeptide binding]; other site 331112007135 active site 331112007136 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 331112007137 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 331112007138 putative NAD(P) binding site [chemical binding]; other site 331112007139 putative active site [active] 331112007140 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 331112007141 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 331112007142 Walker A/P-loop; other site 331112007143 ATP binding site [chemical binding]; other site 331112007144 Q-loop/lid; other site 331112007145 ABC transporter signature motif; other site 331112007146 Walker B; other site 331112007147 D-loop; other site 331112007148 H-loop/switch region; other site 331112007149 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 331112007150 dimer interface [polypeptide binding]; other site 331112007151 conserved gate region; other site 331112007152 putative PBP binding loops; other site 331112007153 ABC-ATPase subunit interface; other site 331112007154 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 331112007155 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 331112007156 dimer interface [polypeptide binding]; other site 331112007157 conserved gate region; other site 331112007158 putative PBP binding loops; other site 331112007159 ABC-ATPase subunit interface; other site 331112007160 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 331112007161 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 331112007162 substrate binding pocket [chemical binding]; other site 331112007163 membrane-bound complex binding site; other site 331112007164 hinge residues; other site 331112007165 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 331112007166 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 331112007167 substrate binding pocket [chemical binding]; other site 331112007168 membrane-bound complex binding site; other site 331112007169 hinge residues; other site 331112007170 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 331112007171 Flavoprotein; Region: Flavoprotein; pfam02441 331112007172 amidophosphoribosyltransferase; Provisional; Region: PRK09246 331112007173 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 331112007174 active site 331112007175 tetramer interface [polypeptide binding]; other site 331112007176 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331112007177 active site 331112007178 colicin V production protein; Provisional; Region: PRK10845 331112007179 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 331112007180 cell division protein DedD; Provisional; Region: PRK11633 331112007181 Sporulation related domain; Region: SPOR; pfam05036 331112007182 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 331112007183 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331112007184 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331112007185 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 331112007186 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 331112007187 hypothetical protein; Provisional; Region: PRK10847 331112007188 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 331112007189 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 331112007190 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 331112007191 dimerization interface 3.5A [polypeptide binding]; other site 331112007192 active site 331112007193 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 331112007194 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 331112007195 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 331112007196 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 331112007197 ligand binding site [chemical binding]; other site 331112007198 NAD binding site [chemical binding]; other site 331112007199 catalytic site [active] 331112007200 homodimer interface [polypeptide binding]; other site 331112007201 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 331112007202 putative transporter; Provisional; Region: PRK12382 331112007203 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112007204 putative substrate translocation pore; other site 331112007205 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 331112007206 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 331112007207 dimer interface [polypeptide binding]; other site 331112007208 active site 331112007209 Uncharacterized conserved protein [Function unknown]; Region: COG4121 331112007210 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 331112007211 YfcL protein; Region: YfcL; pfam08891 331112007212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 331112007213 hypothetical protein; Provisional; Region: PRK10621 331112007214 Predicted permeases [General function prediction only]; Region: COG0730 331112007215 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 331112007216 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 331112007217 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 331112007218 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 331112007219 Tetramer interface [polypeptide binding]; other site 331112007220 active site 331112007221 FMN-binding site [chemical binding]; other site 331112007222 HemK family putative methylases; Region: hemK_fam; TIGR00536 331112007223 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 331112007224 S-adenosylmethionine binding site [chemical binding]; other site 331112007225 hypothetical protein; Provisional; Region: PRK04946 331112007226 Smr domain; Region: Smr; pfam01713 331112007227 Protein of unknown function (DUF2544); Region: DUF2544; pfam11245 331112007228 Fimbrial protein; Region: Fimbrial; cl01416 331112007229 Fimbrial protein; Region: Fimbrial; cl01416 331112007230 Fimbrial protein; Region: Fimbrial; cl01416 331112007231 putative fimbrial chaperone protein StfD; Provisional; Region: PRK15285 331112007232 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 331112007233 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 331112007234 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 331112007235 PapC N-terminal domain; Region: PapC_N; pfam13954 331112007236 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 331112007237 PapC C-terminal domain; Region: PapC_C; pfam13953 331112007238 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 331112007239 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 331112007240 catalytic core [active] 331112007241 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 331112007242 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 331112007243 substrate binding site [chemical binding]; other site 331112007244 oxyanion hole (OAH) forming residues; other site 331112007245 trimer interface [polypeptide binding]; other site 331112007246 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 331112007247 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 331112007248 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 331112007249 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 331112007250 dimer interface [polypeptide binding]; other site 331112007251 active site 331112007252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 331112007253 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 331112007254 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 331112007255 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 331112007256 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 331112007257 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112007258 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 331112007259 dimerization interface [polypeptide binding]; other site 331112007260 substrate binding pocket [chemical binding]; other site 331112007261 permease DsdX; Provisional; Region: PRK09921 331112007262 gluconate transporter; Region: gntP; TIGR00791 331112007263 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 331112007264 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 331112007265 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331112007266 catalytic residue [active] 331112007267 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 331112007268 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112007269 putative substrate translocation pore; other site 331112007270 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112007271 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 331112007272 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112007273 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112007274 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 331112007275 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 331112007276 active site 331112007277 phosphorylation site [posttranslational modification] 331112007278 intermolecular recognition site; other site 331112007279 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 331112007280 DNA binding residues [nucleotide binding] 331112007281 dimerization interface [polypeptide binding]; other site 331112007282 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 331112007283 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 331112007284 substrate binding pocket [chemical binding]; other site 331112007285 membrane-bound complex binding site; other site 331112007286 hinge residues; other site 331112007287 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 331112007288 substrate binding pocket [chemical binding]; other site 331112007289 membrane-bound complex binding site; other site 331112007290 hinge residues; other site 331112007291 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 331112007292 dimer interface [polypeptide binding]; other site 331112007293 phosphorylation site [posttranslational modification] 331112007294 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 331112007295 ATP binding site [chemical binding]; other site 331112007296 Mg2+ binding site [ion binding]; other site 331112007297 G-X-G motif; other site 331112007298 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 331112007299 active site 331112007300 phosphorylation site [posttranslational modification] 331112007301 intermolecular recognition site; other site 331112007302 dimerization interface [polypeptide binding]; other site 331112007303 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 331112007304 putative binding surface; other site 331112007305 active site 331112007306 putative CoA-transferase; Provisional; Region: PRK11430 331112007307 CoA-transferase family III; Region: CoA_transf_3; pfam02515 331112007308 putative transporter YfdV; Provisional; Region: PRK09903 331112007309 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 331112007310 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 331112007311 PYR/PP interface [polypeptide binding]; other site 331112007312 dimer interface [polypeptide binding]; other site 331112007313 TPP binding site [chemical binding]; other site 331112007314 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 331112007315 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 331112007316 TPP-binding site; other site 331112007317 dimer interface [polypeptide binding]; other site 331112007318 formyl-coenzyme A transferase; Provisional; Region: PRK05398 331112007319 CoA-transferase family III; Region: CoA_transf_3; pfam02515 331112007320 hypothetical protein; Provisional; Region: PRK10316 331112007321 YfdX protein; Region: YfdX; pfam10938 331112007322 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 331112007323 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 331112007324 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 331112007325 putative acyl-acceptor binding pocket; other site 331112007326 aminotransferase; Validated; Region: PRK08175 331112007327 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 331112007328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112007329 homodimer interface [polypeptide binding]; other site 331112007330 catalytic residue [active] 331112007331 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 331112007332 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 331112007333 GAF domain; Region: GAF; pfam01590 331112007334 Histidine kinase; Region: His_kinase; pfam06580 331112007335 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 331112007336 ATP binding site [chemical binding]; other site 331112007337 Mg2+ binding site [ion binding]; other site 331112007338 G-X-G motif; other site 331112007339 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 331112007340 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 331112007341 active site 331112007342 phosphorylation site [posttranslational modification] 331112007343 intermolecular recognition site; other site 331112007344 dimerization interface [polypeptide binding]; other site 331112007345 LytTr DNA-binding domain; Region: LytTR; pfam04397 331112007346 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 331112007347 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112007348 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 331112007349 dimerization domain swap beta strand [polypeptide binding]; other site 331112007350 regulatory protein interface [polypeptide binding]; other site 331112007351 active site 331112007352 regulatory phosphorylation site [posttranslational modification]; other site 331112007353 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 331112007354 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 331112007355 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 331112007356 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 331112007357 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 331112007358 active site 331112007359 phosphorylation site [posttranslational modification] 331112007360 exoaminopeptidase; Provisional; Region: PRK09961 331112007361 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 331112007362 oligomer interface [polypeptide binding]; other site 331112007363 active site 331112007364 metal binding site [ion binding]; metal-binding site 331112007365 aminopeptidase; Provisional; Region: PRK09795 331112007366 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 331112007367 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 331112007368 active site 331112007369 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 331112007370 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 331112007371 active site 331112007372 P-loop; other site 331112007373 phosphorylation site [posttranslational modification] 331112007374 glucokinase, proteobacterial type; Region: glk; TIGR00749 331112007375 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 331112007376 nucleotide binding site [chemical binding]; other site 331112007377 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 331112007378 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 331112007379 Cl- selectivity filter; other site 331112007380 Cl- binding residues [ion binding]; other site 331112007381 pore gating glutamate residue; other site 331112007382 dimer interface [polypeptide binding]; other site 331112007383 manganese transport protein MntH; Reviewed; Region: PRK00701 331112007384 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 331112007385 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 331112007386 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 331112007387 Nucleoside recognition; Region: Gate; pfam07670 331112007388 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 331112007389 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 331112007390 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 331112007391 MASE1; Region: MASE1; pfam05231 331112007392 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 331112007393 diguanylate cyclase; Region: GGDEF; smart00267 331112007394 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 331112007395 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 331112007396 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 331112007397 salt bridge; other site 331112007398 non-specific DNA binding site [nucleotide binding]; other site 331112007399 sequence-specific DNA binding site [nucleotide binding]; other site 331112007400 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 331112007401 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 331112007402 active site 331112007403 HIGH motif; other site 331112007404 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 331112007405 active site 331112007406 KMSKS motif; other site 331112007407 Transcriptional regulator [Transcription]; Region: LysR; COG0583 331112007408 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112007409 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 331112007410 putative dimerization interface [polypeptide binding]; other site 331112007411 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 331112007412 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 331112007413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 331112007414 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 331112007415 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 331112007416 nucleotide binding pocket [chemical binding]; other site 331112007417 K-X-D-G motif; other site 331112007418 catalytic site [active] 331112007419 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 331112007420 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 331112007421 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 331112007422 Dimer interface [polypeptide binding]; other site 331112007423 BRCT sequence motif; other site 331112007424 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 331112007425 cell division protein ZipA; Provisional; Region: PRK03427 331112007426 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 331112007427 FtsZ protein binding site [polypeptide binding]; other site 331112007428 putative sulfate transport protein CysZ; Validated; Region: PRK04949 331112007429 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 331112007430 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 331112007431 dimer interface [polypeptide binding]; other site 331112007432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112007433 catalytic residue [active] 331112007434 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 331112007435 dimerization domain swap beta strand [polypeptide binding]; other site 331112007436 regulatory protein interface [polypeptide binding]; other site 331112007437 active site 331112007438 regulatory phosphorylation site [posttranslational modification]; other site 331112007439 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 331112007440 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 331112007441 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 331112007442 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 331112007443 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 331112007444 HPr interaction site; other site 331112007445 glycerol kinase (GK) interaction site [polypeptide binding]; other site 331112007446 active site 331112007447 phosphorylation site [posttranslational modification] 331112007448 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 331112007449 dimer interface [polypeptide binding]; other site 331112007450 pyridoxamine kinase; Validated; Region: PRK05756 331112007451 pyridoxal binding site [chemical binding]; other site 331112007452 ATP binding site [chemical binding]; other site 331112007453 hypothetical protein; Provisional; Region: PRK10318 331112007454 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 331112007455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 331112007456 cysteine synthase B; Region: cysM; TIGR01138 331112007457 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 331112007458 dimer interface [polypeptide binding]; other site 331112007459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112007460 catalytic residue [active] 331112007461 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 331112007462 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 331112007463 Walker A/P-loop; other site 331112007464 ATP binding site [chemical binding]; other site 331112007465 Q-loop/lid; other site 331112007466 ABC transporter signature motif; other site 331112007467 Walker B; other site 331112007468 D-loop; other site 331112007469 H-loop/switch region; other site 331112007470 TOBE-like domain; Region: TOBE_3; pfam12857 331112007471 sulfate transport protein; Provisional; Region: cysT; CHL00187 331112007472 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 331112007473 dimer interface [polypeptide binding]; other site 331112007474 conserved gate region; other site 331112007475 putative PBP binding loops; other site 331112007476 ABC-ATPase subunit interface; other site 331112007477 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 331112007478 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 331112007479 dimer interface [polypeptide binding]; other site 331112007480 conserved gate region; other site 331112007481 putative PBP binding loops; other site 331112007482 ABC-ATPase subunit interface; other site 331112007483 thiosulfate transporter subunit; Provisional; Region: PRK10852 331112007484 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 331112007485 short chain dehydrogenase; Provisional; Region: PRK08226 331112007486 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 331112007487 NAD binding site [chemical binding]; other site 331112007488 homotetramer interface [polypeptide binding]; other site 331112007489 homodimer interface [polypeptide binding]; other site 331112007490 active site 331112007491 transcriptional regulator MurR; Provisional; Region: PRK15482 331112007492 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 331112007493 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 331112007494 putative active site [active] 331112007495 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 331112007496 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 331112007497 putative active site [active] 331112007498 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 331112007499 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 331112007500 active site turn [active] 331112007501 phosphorylation site [posttranslational modification] 331112007502 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 331112007503 putative periplasmic esterase; Provisional; Region: PRK03642 331112007504 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 331112007505 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112007506 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112007507 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112007508 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 331112007509 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 331112007510 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 331112007511 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 331112007512 putative acetyltransferase; Provisional; Region: PRK03624 331112007513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112007514 Coenzyme A binding pocket [chemical binding]; other site 331112007515 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 331112007516 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 331112007517 active site 331112007518 metal binding site [ion binding]; metal-binding site 331112007519 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 331112007520 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 331112007521 transcriptional regulator EutR; Provisional; Region: PRK10130 331112007522 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112007523 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112007524 carboxysome structural protein EutK; Provisional; Region: PRK15466 331112007525 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 331112007526 Hexamer interface [polypeptide binding]; other site 331112007527 Hexagonal pore residue; other site 331112007528 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 331112007529 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 331112007530 putative hexamer interface [polypeptide binding]; other site 331112007531 putative hexagonal pore; other site 331112007532 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 331112007533 putative hexamer interface [polypeptide binding]; other site 331112007534 putative hexagonal pore; other site 331112007535 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 331112007536 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 331112007537 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 331112007538 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 331112007539 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 331112007540 ethanol dehydrogenase EutG; Provisional; Region: PRK15454 331112007541 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 331112007542 active site 331112007543 metal binding site [ion binding]; metal-binding site 331112007544 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 331112007545 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 331112007546 nucleotide binding site [chemical binding]; other site 331112007547 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 331112007548 putative catalytic cysteine [active] 331112007549 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 331112007550 Hexamer/Pentamer interface [polypeptide binding]; other site 331112007551 central pore; other site 331112007552 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 331112007553 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 331112007554 Hexamer interface [polypeptide binding]; other site 331112007555 Putative hexagonal pore residue; other site 331112007556 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 331112007557 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 331112007558 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 331112007559 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 331112007560 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 331112007561 G1 box; other site 331112007562 GTP/Mg2+ binding site [chemical binding]; other site 331112007563 G2 box; other site 331112007564 Switch I region; other site 331112007565 G3 box; other site 331112007566 Switch II region; other site 331112007567 G4 box; other site 331112007568 G5 box; other site 331112007569 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 331112007570 putative hexamer interface [polypeptide binding]; other site 331112007571 putative hexagonal pore; other site 331112007572 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 331112007573 Malic enzyme, N-terminal domain; Region: malic; pfam00390 331112007574 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 331112007575 putative NAD(P) binding site [chemical binding]; other site 331112007576 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 331112007577 transaldolase-like protein; Provisional; Region: PTZ00411 331112007578 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 331112007579 active site 331112007580 dimer interface [polypeptide binding]; other site 331112007581 catalytic residue [active] 331112007582 transketolase; Reviewed; Region: PRK12753 331112007583 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 331112007584 TPP-binding site [chemical binding]; other site 331112007585 dimer interface [polypeptide binding]; other site 331112007586 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 331112007587 PYR/PP interface [polypeptide binding]; other site 331112007588 dimer interface [polypeptide binding]; other site 331112007589 TPP binding site [chemical binding]; other site 331112007590 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331112007591 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 331112007592 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 331112007593 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 331112007594 dimer interface [polypeptide binding]; other site 331112007595 ADP-ribose binding site [chemical binding]; other site 331112007596 active site 331112007597 nudix motif; other site 331112007598 metal binding site [ion binding]; metal-binding site 331112007599 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 331112007600 4Fe-4S binding domain; Region: Fer4; pfam00037 331112007601 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 331112007602 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112007603 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 331112007604 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 331112007605 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 331112007606 dimerization interface [polypeptide binding]; other site 331112007607 Histidine kinase; Region: HisKA_3; pfam07730 331112007608 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 331112007609 ATP binding site [chemical binding]; other site 331112007610 Mg2+ binding site [ion binding]; other site 331112007611 G-X-G motif; other site 331112007612 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 331112007613 Protein export membrane protein; Region: SecD_SecF; cl14618 331112007614 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 331112007615 ArsC family; Region: ArsC; pfam03960 331112007616 putative catalytic residues [active] 331112007617 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 331112007618 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 331112007619 metal binding site [ion binding]; metal-binding site 331112007620 dimer interface [polypeptide binding]; other site 331112007621 hypothetical protein; Provisional; Region: PRK13664 331112007622 putative hydrolase; Provisional; Region: PRK11460 331112007623 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 331112007624 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 331112007625 Helicase; Region: Helicase_RecD; pfam05127 331112007626 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 331112007627 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 331112007628 Predicted metalloprotease [General function prediction only]; Region: COG2321 331112007629 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 331112007630 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 331112007631 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 331112007632 ATP binding site [chemical binding]; other site 331112007633 active site 331112007634 substrate binding site [chemical binding]; other site 331112007635 lipoprotein; Provisional; Region: PRK11679 331112007636 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 331112007637 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 331112007638 dihydrodipicolinate synthase; Region: dapA; TIGR00674 331112007639 dimer interface [polypeptide binding]; other site 331112007640 active site 331112007641 catalytic residue [active] 331112007642 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 331112007643 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 331112007644 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 331112007645 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 331112007646 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 331112007647 catalytic triad [active] 331112007648 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 331112007649 4Fe-4S binding domain; Region: Fer4; pfam00037 331112007650 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 331112007651 NADH dehydrogenase; Region: NADHdh; cl00469 331112007652 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 331112007653 hydrogenase 4 subunit F; Validated; Region: PRK06458 331112007654 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 331112007655 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 331112007656 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 331112007657 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 331112007658 hydrogenase 4 subunit H; Validated; Region: PRK08222 331112007659 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 331112007660 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 331112007661 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 331112007662 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 331112007663 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 331112007664 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 331112007665 Walker A motif; other site 331112007666 ATP binding site [chemical binding]; other site 331112007667 Walker B motif; other site 331112007668 arginine finger; other site 331112007669 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 331112007670 putative formate transporter; Provisional; Region: focB; PRK09713 331112007671 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 331112007672 Domain of unknown function DUF20; Region: UPF0118; pfam01594 331112007673 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 331112007674 Peptidase family M48; Region: Peptidase_M48; cl12018 331112007675 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 331112007676 ArsC family; Region: ArsC; pfam03960 331112007677 catalytic residues [active] 331112007678 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 331112007679 DNA replication initiation factor; Provisional; Region: PRK08084 331112007680 uracil transporter; Provisional; Region: PRK10720 331112007681 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331112007682 active site 331112007683 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 331112007684 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 331112007685 dimerization interface [polypeptide binding]; other site 331112007686 putative ATP binding site [chemical binding]; other site 331112007687 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 331112007688 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 331112007689 active site 331112007690 substrate binding site [chemical binding]; other site 331112007691 cosubstrate binding site; other site 331112007692 catalytic site [active] 331112007693 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 331112007694 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 331112007695 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 331112007696 Catalytic C-terminal domain, first repeat, of prokaryotic polyphosphate kinase 1 and similar proteins; Region: PLDc_PPK1_C1; cd09114 331112007697 domain interface [polypeptide binding]; other site 331112007698 active site 331112007699 catalytic site [active] 331112007700 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331112007701 putative active site [active] 331112007702 catalytic site [active] 331112007703 exopolyphosphatase; Provisional; Region: PRK10854 331112007704 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 331112007705 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 331112007706 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 331112007707 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 331112007708 sequence-specific DNA binding site [nucleotide binding]; other site 331112007709 salt bridge; other site 331112007710 P-type conjugative transfer protein TrbL; Region: TrbL_P; TIGR02783 331112007711 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 331112007712 conjugal transfer protein TrbJ; Provisional; Region: PRK13879 331112007713 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 331112007714 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112007715 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112007716 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112007717 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112007718 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 331112007719 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 331112007720 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112007721 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112007722 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112007723 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112007724 integrase; Provisional; Region: PRK09692 331112007725 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 331112007726 active site 331112007727 Int/Topo IB signature motif; other site 331112007728 GMP synthase; Reviewed; Region: guaA; PRK00074 331112007729 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 331112007730 AMP/PPi binding site [chemical binding]; other site 331112007731 candidate oxyanion hole; other site 331112007732 catalytic triad [active] 331112007733 potential glutamine specificity residues [chemical binding]; other site 331112007734 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 331112007735 ATP Binding subdomain [chemical binding]; other site 331112007736 Ligand Binding sites [chemical binding]; other site 331112007737 Dimerization subdomain; other site 331112007738 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 331112007739 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 331112007740 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 331112007741 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 331112007742 active site 331112007743 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 331112007744 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 331112007745 generic binding surface II; other site 331112007746 generic binding surface I; other site 331112007747 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 331112007748 GTP-binding protein Der; Reviewed; Region: PRK00093 331112007749 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 331112007750 G1 box; other site 331112007751 GTP/Mg2+ binding site [chemical binding]; other site 331112007752 Switch I region; other site 331112007753 G2 box; other site 331112007754 Switch II region; other site 331112007755 G3 box; other site 331112007756 G4 box; other site 331112007757 G5 box; other site 331112007758 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 331112007759 G1 box; other site 331112007760 GTP/Mg2+ binding site [chemical binding]; other site 331112007761 Switch I region; other site 331112007762 G2 box; other site 331112007763 G3 box; other site 331112007764 Switch II region; other site 331112007765 G4 box; other site 331112007766 G5 box; other site 331112007767 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 331112007768 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cd00216 331112007769 Trp docking motif [polypeptide binding]; other site 331112007770 active site 331112007771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 331112007772 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 331112007773 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 331112007774 dimer interface [polypeptide binding]; other site 331112007775 motif 1; other site 331112007776 active site 331112007777 motif 2; other site 331112007778 motif 3; other site 331112007779 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 331112007780 anticodon binding site; other site 331112007781 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 331112007782 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 331112007783 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 331112007784 cytoskeletal protein RodZ; Provisional; Region: PRK10856 331112007785 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 331112007786 non-specific DNA binding site [nucleotide binding]; other site 331112007787 salt bridge; other site 331112007788 sequence-specific DNA binding site [nucleotide binding]; other site 331112007789 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 331112007790 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 331112007791 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 331112007792 FeS/SAM binding site; other site 331112007793 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 331112007794 active site 331112007795 multimer interface [polypeptide binding]; other site 331112007796 penicillin-binding protein 1C; Provisional; Region: PRK11240 331112007797 Transglycosylase; Region: Transgly; pfam00912 331112007798 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 331112007799 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 331112007800 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 331112007801 MG2 domain; Region: A2M_N; pfam01835 331112007802 Alpha-2-macroglobulin family; Region: A2M; pfam00207 331112007803 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 331112007804 surface patch; other site 331112007805 thioester region; other site 331112007806 specificity defining residues; other site 331112007807 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 331112007808 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 331112007809 active site residue [active] 331112007810 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 331112007811 active site residue [active] 331112007812 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 331112007813 aminopeptidase B; Provisional; Region: PRK05015 331112007814 Peptidase; Region: DUF3663; pfam12404 331112007815 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 331112007816 interface (dimer of trimers) [polypeptide binding]; other site 331112007817 Substrate-binding/catalytic site; other site 331112007818 Zn-binding sites [ion binding]; other site 331112007819 hypothetical protein; Provisional; Region: PRK10721 331112007820 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 331112007821 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 331112007822 catalytic loop [active] 331112007823 iron binding site [ion binding]; other site 331112007824 chaperone protein HscA; Provisional; Region: hscA; PRK05183 331112007825 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 331112007826 nucleotide binding site [chemical binding]; other site 331112007827 putative NEF/HSP70 interaction site [polypeptide binding]; other site 331112007828 SBD interface [polypeptide binding]; other site 331112007829 co-chaperone HscB; Provisional; Region: hscB; PRK05014 331112007830 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 331112007831 HSP70 interaction site [polypeptide binding]; other site 331112007832 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 331112007833 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 331112007834 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 331112007835 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 331112007836 trimerization site [polypeptide binding]; other site 331112007837 active site 331112007838 cysteine desulfurase; Provisional; Region: PRK14012 331112007839 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 331112007840 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331112007841 catalytic residue [active] 331112007842 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 331112007843 Rrf2 family protein; Region: rrf2_super; TIGR00738 331112007844 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 331112007845 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 331112007846 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 331112007847 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 331112007848 active site 331112007849 dimerization interface [polypeptide binding]; other site 331112007850 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 331112007851 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 331112007852 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 331112007853 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112007854 putative substrate translocation pore; other site 331112007855 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 331112007856 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112007857 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 331112007858 putative dimerization interface [polypeptide binding]; other site 331112007859 putative substrate binding pocket [chemical binding]; other site 331112007860 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 331112007861 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 331112007862 iron-sulfur cluster [ion binding]; other site 331112007863 [2Fe-2S] cluster binding site [ion binding]; other site 331112007864 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 331112007865 beta subunit interface [polypeptide binding]; other site 331112007866 alpha subunit interface [polypeptide binding]; other site 331112007867 active site 331112007868 substrate binding site [chemical binding]; other site 331112007869 Fe binding site [ion binding]; other site 331112007870 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 331112007871 inter-subunit interface; other site 331112007872 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 331112007873 [2Fe-2S] cluster binding site [ion binding]; other site 331112007874 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 331112007875 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 331112007876 NAD binding site [chemical binding]; other site 331112007877 active site 331112007878 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 331112007879 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112007880 Predicted membrane protein [Function unknown]; Region: COG2259 331112007881 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 331112007882 active site 331112007883 catalytic residues [active] 331112007884 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 331112007885 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 331112007886 putative NAD(P) binding site [chemical binding]; other site 331112007887 catalytic Zn binding site [ion binding]; other site 331112007888 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112007889 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 331112007890 TM-ABC transporter signature motif; other site 331112007891 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 331112007892 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 331112007893 Walker A/P-loop; other site 331112007894 ATP binding site [chemical binding]; other site 331112007895 Q-loop/lid; other site 331112007896 ABC transporter signature motif; other site 331112007897 Walker B; other site 331112007898 D-loop; other site 331112007899 H-loop/switch region; other site 331112007900 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 331112007901 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 331112007902 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 331112007903 ligand binding site [chemical binding]; other site 331112007904 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112007905 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112007906 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112007907 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112007908 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 331112007909 TPR motif; other site 331112007910 Tetratricopeptide repeat; Region: TPR_16; pfam13432 331112007911 binding surface 331112007912 TPR repeat; Region: TPR_11; pfam13414 331112007913 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 331112007914 TPR motif; other site 331112007915 binding surface 331112007916 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 331112007917 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 331112007918 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 331112007919 nucleotide binding site [chemical binding]; other site 331112007920 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 331112007921 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 331112007922 dimer interface [polypeptide binding]; other site 331112007923 active site 331112007924 glycine-pyridoxal phosphate binding site [chemical binding]; other site 331112007925 folate binding site [chemical binding]; other site 331112007926 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 331112007927 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 331112007928 heme-binding site [chemical binding]; other site 331112007929 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 331112007930 FAD binding pocket [chemical binding]; other site 331112007931 FAD binding motif [chemical binding]; other site 331112007932 phosphate binding motif [ion binding]; other site 331112007933 beta-alpha-beta structure motif; other site 331112007934 NAD binding pocket [chemical binding]; other site 331112007935 Heme binding pocket [chemical binding]; other site 331112007936 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 331112007937 Nitrogen regulatory protein P-II; Region: P-II; smart00938 331112007938 response regulator GlrR; Provisional; Region: PRK15115 331112007939 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 331112007940 active site 331112007941 phosphorylation site [posttranslational modification] 331112007942 intermolecular recognition site; other site 331112007943 dimerization interface [polypeptide binding]; other site 331112007944 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 331112007945 Walker A motif; other site 331112007946 ATP binding site [chemical binding]; other site 331112007947 Walker B motif; other site 331112007948 arginine finger; other site 331112007949 hypothetical protein; Provisional; Region: PRK10722 331112007950 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 331112007951 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 331112007952 dimer interface [polypeptide binding]; other site 331112007953 phosphorylation site [posttranslational modification] 331112007954 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 331112007955 ATP binding site [chemical binding]; other site 331112007956 Mg2+ binding site [ion binding]; other site 331112007957 G-X-G motif; other site 331112007958 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 331112007959 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 331112007960 dimerization interface [polypeptide binding]; other site 331112007961 ATP binding site [chemical binding]; other site 331112007962 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 331112007963 dimerization interface [polypeptide binding]; other site 331112007964 ATP binding site [chemical binding]; other site 331112007965 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 331112007966 putative active site [active] 331112007967 catalytic triad [active] 331112007968 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 331112007969 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 331112007970 substrate binding pocket [chemical binding]; other site 331112007971 membrane-bound complex binding site; other site 331112007972 hinge residues; other site 331112007973 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 331112007974 N-acetyl-D-glucosamine binding site [chemical binding]; other site 331112007975 catalytic residue [active] 331112007976 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 331112007977 nucleoside/Zn binding site; other site 331112007978 dimer interface [polypeptide binding]; other site 331112007979 catalytic motif [active] 331112007980 hypothetical protein; Provisional; Region: PRK11590 331112007981 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 331112007982 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 331112007983 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 331112007984 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 331112007985 putative active site [active] 331112007986 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 331112007987 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 331112007988 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 331112007989 active site 331112007990 hydrophilic channel; other site 331112007991 dimerization interface [polypeptide binding]; other site 331112007992 catalytic residues [active] 331112007993 active site lid [active] 331112007994 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 331112007995 Recombination protein O N terminal; Region: RecO_N; pfam11967 331112007996 Recombination protein O C terminal; Region: RecO_C; pfam02565 331112007997 GTPase Era; Reviewed; Region: era; PRK00089 331112007998 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 331112007999 G1 box; other site 331112008000 GTP/Mg2+ binding site [chemical binding]; other site 331112008001 Switch I region; other site 331112008002 G2 box; other site 331112008003 Switch II region; other site 331112008004 G3 box; other site 331112008005 G4 box; other site 331112008006 G5 box; other site 331112008007 KH domain; Region: KH_2; pfam07650 331112008008 ribonuclease III; Reviewed; Region: rnc; PRK00102 331112008009 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 331112008010 dimerization interface [polypeptide binding]; other site 331112008011 active site 331112008012 metal binding site [ion binding]; metal-binding site 331112008013 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 331112008014 dsRNA binding site [nucleotide binding]; other site 331112008015 signal peptidase I; Provisional; Region: PRK10861 331112008016 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 331112008017 Catalytic site [active] 331112008018 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 331112008019 GTP-binding protein LepA; Provisional; Region: PRK05433 331112008020 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 331112008021 G1 box; other site 331112008022 putative GEF interaction site [polypeptide binding]; other site 331112008023 GTP/Mg2+ binding site [chemical binding]; other site 331112008024 Switch I region; other site 331112008025 G2 box; other site 331112008026 G3 box; other site 331112008027 Switch II region; other site 331112008028 G4 box; other site 331112008029 G5 box; other site 331112008030 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 331112008031 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 331112008032 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 331112008033 SoxR reducing system protein RseC; Provisional; Region: PRK10862 331112008034 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 331112008035 anti-sigma E factor; Provisional; Region: rseB; PRK09455 331112008036 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 331112008037 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 331112008038 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 331112008039 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 331112008040 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 331112008041 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 331112008042 DNA binding residues [nucleotide binding] 331112008043 L-aspartate oxidase; Provisional; Region: PRK09077 331112008044 L-aspartate oxidase; Provisional; Region: PRK06175 331112008045 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 331112008046 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 331112008047 Methyltransferase domain; Region: Methyltransf_26; pfam13659 331112008048 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 331112008049 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 331112008050 ATP binding site [chemical binding]; other site 331112008051 Mg++ binding site [ion binding]; other site 331112008052 motif III; other site 331112008053 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 331112008054 nucleotide binding region [chemical binding]; other site 331112008055 ATP-binding site [chemical binding]; other site 331112008056 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112008057 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112008058 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112008059 Transcriptional regulator [Transcription]; Region: LysR; COG0583 331112008060 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112008061 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 331112008062 dimerization interface [polypeptide binding]; other site 331112008063 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 331112008064 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 331112008065 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 331112008066 ligand binding site [chemical binding]; other site 331112008067 active site 331112008068 UGI interface [polypeptide binding]; other site 331112008069 catalytic site [active] 331112008070 thioredoxin 2; Provisional; Region: PRK10996 331112008071 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 331112008072 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 331112008073 catalytic residues [active] 331112008074 Uncharacterized conserved protein [Function unknown]; Region: COG3148 331112008075 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 331112008076 CoA binding domain; Region: CoA_binding_2; pfam13380 331112008077 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 331112008078 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 331112008079 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 331112008080 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 331112008081 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 331112008082 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 331112008083 domain interface [polypeptide binding]; other site 331112008084 putative active site [active] 331112008085 catalytic site [active] 331112008086 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 331112008087 domain interface [polypeptide binding]; other site 331112008088 putative active site [active] 331112008089 catalytic site [active] 331112008090 lipoprotein; Provisional; Region: PRK10759 331112008091 protein disaggregation chaperone; Provisional; Region: PRK10865 331112008092 Clp amino terminal domain; Region: Clp_N; pfam02861 331112008093 Clp amino terminal domain; Region: Clp_N; pfam02861 331112008094 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 331112008095 Walker A motif; other site 331112008096 ATP binding site [chemical binding]; other site 331112008097 Walker B motif; other site 331112008098 arginine finger; other site 331112008099 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 331112008100 Walker A motif; other site 331112008101 ATP binding site [chemical binding]; other site 331112008102 Walker B motif; other site 331112008103 arginine finger; other site 331112008104 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 331112008105 hypothetical protein; Provisional; Region: PRK10723 331112008106 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 331112008107 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 331112008108 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 331112008109 RNA binding surface [nucleotide binding]; other site 331112008110 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 331112008111 active site 331112008112 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 331112008113 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 331112008114 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 331112008115 30S subunit binding site; other site 331112008116 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 331112008117 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 331112008118 Prephenate dehydratase; Region: PDT; pfam00800 331112008119 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 331112008120 putative L-Phe binding site [chemical binding]; other site 331112008121 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 331112008122 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 331112008123 prephenate dehydrogenase; Validated; Region: PRK08507 331112008124 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 331112008125 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 331112008126 lipoprotein; Provisional; Region: PRK11443 331112008127 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 331112008128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112008129 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112008130 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112008131 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112008132 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 331112008133 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 331112008134 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112008135 metal binding site [ion binding]; metal-binding site 331112008136 active site 331112008137 I-site; other site 331112008138 putative outer membrane lipoprotein; Provisional; Region: PRK09967 331112008139 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 331112008140 ligand binding site [chemical binding]; other site 331112008141 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 331112008142 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 331112008143 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 331112008144 RimM N-terminal domain; Region: RimM; pfam01782 331112008145 PRC-barrel domain; Region: PRC; pfam05239 331112008146 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 331112008147 signal recognition particle protein; Provisional; Region: PRK10867 331112008148 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 331112008149 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 331112008150 P loop; other site 331112008151 GTP binding site [chemical binding]; other site 331112008152 Signal peptide binding domain; Region: SRP_SPB; pfam02978 331112008153 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 331112008154 hypothetical protein; Provisional; Region: PRK11573 331112008155 Domain of unknown function DUF21; Region: DUF21; pfam01595 331112008156 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 331112008157 Transporter associated domain; Region: CorC_HlyC; smart01091 331112008158 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 331112008159 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 331112008160 dimer interface [polypeptide binding]; other site 331112008161 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 331112008162 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 331112008163 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 331112008164 recombination and repair protein; Provisional; Region: PRK10869 331112008165 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 331112008166 Walker A/P-loop; other site 331112008167 ATP binding site [chemical binding]; other site 331112008168 Q-loop/lid; other site 331112008169 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 331112008170 Q-loop/lid; other site 331112008171 ABC transporter signature motif; other site 331112008172 Walker B; other site 331112008173 D-loop; other site 331112008174 H-loop/switch region; other site 331112008175 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 331112008176 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 331112008177 hypothetical protein; Validated; Region: PRK01777 331112008178 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 331112008179 putative coenzyme Q binding site [chemical binding]; other site 331112008180 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 331112008181 SmpB-tmRNA interface; other site 331112008182 DinI-like family; Region: DinI; pfam06183 331112008183 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 331112008184 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112008185 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112008186 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112008187 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112008188 putative transposase OrfB; Reviewed; Region: PHA02517 331112008189 HTH-like domain; Region: HTH_21; pfam13276 331112008190 Integrase core domain; Region: rve; pfam00665 331112008191 Integrase core domain; Region: rve_2; pfam13333 331112008192 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112008193 Transposase; Region: HTH_Tnp_1; pfam01527 331112008194 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 331112008195 active site 331112008196 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 331112008197 Ca binding site [ion binding]; other site 331112008198 catalytic site [active] 331112008199 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 331112008200 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 331112008201 substrate binding pocket [chemical binding]; other site 331112008202 active site 331112008203 iron coordination sites [ion binding]; other site 331112008204 Predicted dehydrogenase [General function prediction only]; Region: COG0579 331112008205 hydroxyglutarate oxidase; Provisional; Region: PRK11728 331112008206 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 331112008207 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 331112008208 tetramerization interface [polypeptide binding]; other site 331112008209 NAD(P) binding site [chemical binding]; other site 331112008210 catalytic residues [active] 331112008211 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 331112008212 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 331112008213 inhibitor-cofactor binding pocket; inhibition site 331112008214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112008215 catalytic residue [active] 331112008216 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 331112008217 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 331112008218 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112008219 DNA-binding site [nucleotide binding]; DNA binding site 331112008220 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 331112008221 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 331112008222 bacterial OsmY and nodulation domain; Region: BON; smart00749 331112008223 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331112008224 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 331112008225 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 331112008226 dimerization interface [polypeptide binding]; other site 331112008227 putative DNA binding site [nucleotide binding]; other site 331112008228 Transcriptional regulators [Transcription]; Region: MarR; COG1846 331112008229 putative Zn2+ binding site [ion binding]; other site 331112008230 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 331112008231 active site residue [active] 331112008232 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 331112008233 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 331112008234 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 331112008235 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 331112008236 hypothetical protein; Provisional; Region: PRK10556 331112008237 hypothetical protein; Provisional; Region: PRK10132 331112008238 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 331112008239 catalytic residues [active] 331112008240 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 331112008241 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 331112008242 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 331112008243 Class I ribonucleotide reductase; Region: RNR_I; cd01679 331112008244 active site 331112008245 dimer interface [polypeptide binding]; other site 331112008246 catalytic residues [active] 331112008247 effector binding site; other site 331112008248 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 331112008249 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 331112008250 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 331112008251 dimer interface [polypeptide binding]; other site 331112008252 putative radical transfer pathway; other site 331112008253 diiron center [ion binding]; other site 331112008254 tyrosyl radical; other site 331112008255 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 331112008256 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 331112008257 Walker A/P-loop; other site 331112008258 ATP binding site [chemical binding]; other site 331112008259 Q-loop/lid; other site 331112008260 ABC transporter signature motif; other site 331112008261 Walker B; other site 331112008262 D-loop; other site 331112008263 H-loop/switch region; other site 331112008264 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 331112008265 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 331112008266 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 331112008267 dimer interface [polypeptide binding]; other site 331112008268 conserved gate region; other site 331112008269 putative PBP binding loops; other site 331112008270 ABC-ATPase subunit interface; other site 331112008271 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 331112008272 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 331112008273 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 331112008274 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112008275 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 331112008276 putative L-valine exporter; Provisional; Region: PRK10408 331112008277 transcriptional repressor MprA; Provisional; Region: PRK10870 331112008278 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 331112008279 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 331112008280 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112008281 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112008282 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 331112008283 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112008284 putative substrate translocation pore; other site 331112008285 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112008286 S-ribosylhomocysteinase; Provisional; Region: PRK02260 331112008287 glutamate--cysteine ligase; Provisional; Region: PRK02107 331112008288 Predicted membrane protein [Function unknown]; Region: COG1238 331112008289 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 331112008290 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 331112008291 motif II; other site 331112008292 carbon storage regulator; Provisional; Region: PRK01712 331112008293 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 331112008294 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 331112008295 motif 1; other site 331112008296 active site 331112008297 motif 2; other site 331112008298 motif 3; other site 331112008299 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 331112008300 DHHA1 domain; Region: DHHA1; pfam02272 331112008301 recombination regulator RecX; Reviewed; Region: recX; PRK00117 331112008302 recombinase A; Provisional; Region: recA; PRK09354 331112008303 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 331112008304 hexamer interface [polypeptide binding]; other site 331112008305 Walker A motif; other site 331112008306 ATP binding site [chemical binding]; other site 331112008307 Walker B motif; other site 331112008308 hypothetical protein; Validated; Region: PRK03661 331112008309 Transglycosylase SLT domain; Region: SLT_2; pfam13406 331112008310 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 331112008311 N-acetyl-D-glucosamine binding site [chemical binding]; other site 331112008312 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 331112008313 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 331112008314 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 331112008315 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 331112008316 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 331112008317 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 331112008318 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 331112008319 putative NAD(P) binding site [chemical binding]; other site 331112008320 active site 331112008321 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 331112008322 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 331112008323 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 331112008324 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 331112008325 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 331112008326 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 331112008327 putative active site [active] 331112008328 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 331112008329 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 331112008330 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 331112008331 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 331112008332 Walker A motif; other site 331112008333 ATP binding site [chemical binding]; other site 331112008334 Walker B motif; other site 331112008335 arginine finger; other site 331112008336 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 331112008337 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 331112008338 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 331112008339 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 331112008340 iron binding site [ion binding]; other site 331112008341 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 331112008342 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112008343 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 331112008344 Acylphosphatase; Region: Acylphosphatase; pfam00708 331112008345 HypF finger; Region: zf-HYPF; pfam07503 331112008346 HypF finger; Region: zf-HYPF; pfam07503 331112008347 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 331112008348 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 331112008349 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 331112008350 Transcriptional regulators [Transcription]; Region: PurR; COG1609 331112008351 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112008352 DNA binding site [nucleotide binding] 331112008353 domain linker motif; other site 331112008354 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 331112008355 dimerization interface (closed form) [polypeptide binding]; other site 331112008356 ligand binding site [chemical binding]; other site 331112008357 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 331112008358 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 331112008359 active site turn [active] 331112008360 phosphorylation site [posttranslational modification] 331112008361 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 331112008362 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 331112008363 beta-galactosidase; Region: BGL; TIGR03356 331112008364 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 331112008365 nickel binding site [ion binding]; other site 331112008366 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 331112008367 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 331112008368 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 331112008369 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 331112008370 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 331112008371 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 331112008372 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 331112008373 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 331112008374 NADH dehydrogenase; Region: NADHdh; cl00469 331112008375 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 331112008376 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 331112008377 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 331112008378 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 331112008379 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 331112008380 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 331112008381 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 331112008382 hydrogenase assembly chaperone; Provisional; Region: PRK10409 331112008383 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 331112008384 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 331112008385 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 331112008386 dimerization interface [polypeptide binding]; other site 331112008387 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 331112008388 ATP binding site [chemical binding]; other site 331112008389 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 331112008390 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 331112008391 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 331112008392 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 331112008393 Walker A motif; other site 331112008394 ATP binding site [chemical binding]; other site 331112008395 Walker B motif; other site 331112008396 arginine finger; other site 331112008397 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 331112008398 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 331112008399 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 331112008400 MutS domain I; Region: MutS_I; pfam01624 331112008401 MutS domain II; Region: MutS_II; pfam05188 331112008402 MutS domain III; Region: MutS_III; pfam05192 331112008403 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 331112008404 Walker A/P-loop; other site 331112008405 ATP binding site [chemical binding]; other site 331112008406 Q-loop/lid; other site 331112008407 ABC transporter signature motif; other site 331112008408 Walker B; other site 331112008409 D-loop; other site 331112008410 H-loop/switch region; other site 331112008411 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 331112008412 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 331112008413 active site 331112008414 metal binding site [ion binding]; metal-binding site 331112008415 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 331112008416 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 331112008417 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 331112008418 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 331112008419 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 331112008420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 331112008421 putative aldolase; Validated; Region: PRK08130 331112008422 active site 331112008423 intersubunit interface [polypeptide binding]; other site 331112008424 Zn2+ binding site [ion binding]; other site 331112008425 hypothetical protein; Provisional; Region: PRK09989 331112008426 putative transporter; Provisional; Region: PRK09821 331112008427 GntP family permease; Region: GntP_permease; pfam02447 331112008428 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 331112008429 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 331112008430 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 331112008431 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 331112008432 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 331112008433 DNA binding residues [nucleotide binding] 331112008434 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 331112008435 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331112008436 Peptidase family M23; Region: Peptidase_M23; pfam01551 331112008437 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 331112008438 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 331112008439 S-adenosylmethionine binding site [chemical binding]; other site 331112008440 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 331112008441 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 331112008442 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 331112008443 Permutation of conserved domain; other site 331112008444 active site 331112008445 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 331112008446 homotrimer interaction site [polypeptide binding]; other site 331112008447 zinc binding site [ion binding]; other site 331112008448 CDP-binding sites; other site 331112008449 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 331112008450 substrate binding site; other site 331112008451 dimer interface; other site 331112008452 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 331112008453 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 331112008454 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 331112008455 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 331112008456 ligand-binding site [chemical binding]; other site 331112008457 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 331112008458 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 331112008459 CysD dimerization site [polypeptide binding]; other site 331112008460 G1 box; other site 331112008461 putative GEF interaction site [polypeptide binding]; other site 331112008462 GTP/Mg2+ binding site [chemical binding]; other site 331112008463 Switch I region; other site 331112008464 G2 box; other site 331112008465 G3 box; other site 331112008466 Switch II region; other site 331112008467 G4 box; other site 331112008468 G5 box; other site 331112008469 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 331112008470 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 331112008471 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 331112008472 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 331112008473 Active Sites [active] 331112008474 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 331112008475 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 331112008476 metal binding site [ion binding]; metal-binding site 331112008477 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 331112008478 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09664 331112008479 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 331112008480 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 331112008481 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cd09646 331112008482 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09670 331112008483 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09669 331112008484 helicase Cas3; Provisional; Region: PRK09694 331112008485 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 331112008486 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 331112008487 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 331112008488 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 331112008489 Active Sites [active] 331112008490 sulfite reductase subunit beta; Provisional; Region: PRK13504 331112008491 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 331112008492 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 331112008493 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 331112008494 Flavodoxin; Region: Flavodoxin_1; pfam00258 331112008495 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 331112008496 FAD binding pocket [chemical binding]; other site 331112008497 FAD binding motif [chemical binding]; other site 331112008498 catalytic residues [active] 331112008499 NAD binding pocket [chemical binding]; other site 331112008500 phosphate binding motif [ion binding]; other site 331112008501 beta-alpha-beta structure motif; other site 331112008502 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 331112008503 homohexamer interface [polypeptide binding]; other site 331112008504 putative substrate stabilizing pore; other site 331112008505 pterin binding site; other site 331112008506 oxidoreductase; Provisional; Region: PRK10015 331112008507 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 331112008508 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 331112008509 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 331112008510 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 331112008511 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 331112008512 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 331112008513 Ligand binding site [chemical binding]; other site 331112008514 Electron transfer flavoprotein domain; Region: ETF; pfam01012 331112008515 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 331112008516 benzoate transport; Region: 2A0115; TIGR00895 331112008517 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112008518 putative substrate translocation pore; other site 331112008519 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 331112008520 FAD binding domain; Region: FAD_binding_4; pfam01565 331112008521 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 331112008522 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 331112008523 NADP binding site [chemical binding]; other site 331112008524 homodimer interface [polypeptide binding]; other site 331112008525 active site 331112008526 Major Facilitator Superfamily; Region: MFS_1; pfam07690 331112008527 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112008528 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 331112008529 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 331112008530 nucleotide binding site [chemical binding]; other site 331112008531 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 331112008532 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 331112008533 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 331112008534 Repair protein; Region: Repair_PSII; pfam04536 331112008535 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112008536 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112008537 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112008538 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 331112008539 enolase; Provisional; Region: eno; PRK00077 331112008540 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 331112008541 dimer interface [polypeptide binding]; other site 331112008542 metal binding site [ion binding]; metal-binding site 331112008543 substrate binding pocket [chemical binding]; other site 331112008544 CTP synthetase; Validated; Region: pyrG; PRK05380 331112008545 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 331112008546 Catalytic site [active] 331112008547 active site 331112008548 UTP binding site [chemical binding]; other site 331112008549 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 331112008550 active site 331112008551 putative oxyanion hole; other site 331112008552 catalytic triad [active] 331112008553 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 331112008554 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 331112008555 homodimer interface [polypeptide binding]; other site 331112008556 metal binding site [ion binding]; metal-binding site 331112008557 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 331112008558 homodimer interface [polypeptide binding]; other site 331112008559 active site 331112008560 putative chemical substrate binding site [chemical binding]; other site 331112008561 metal binding site [ion binding]; metal-binding site 331112008562 toxin MazF; Provisional; Region: PRK09907 331112008563 antitoxin MazE; Provisional; Region: PRK09798 331112008564 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 331112008565 HD domain; Region: HD_4; pfam13328 331112008566 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 331112008567 synthetase active site [active] 331112008568 NTP binding site [chemical binding]; other site 331112008569 metal binding site [ion binding]; metal-binding site 331112008570 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 331112008571 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 331112008572 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 331112008573 TRAM domain; Region: TRAM; pfam01938 331112008574 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 331112008575 S-adenosylmethionine binding site [chemical binding]; other site 331112008576 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 331112008577 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 331112008578 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 331112008579 dimerization interface [polypeptide binding]; other site 331112008580 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 331112008581 dimer interface [polypeptide binding]; other site 331112008582 phosphorylation site [posttranslational modification] 331112008583 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 331112008584 ATP binding site [chemical binding]; other site 331112008585 Mg2+ binding site [ion binding]; other site 331112008586 G-X-G motif; other site 331112008587 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 331112008588 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 331112008589 active site 331112008590 phosphorylation site [posttranslational modification] 331112008591 intermolecular recognition site; other site 331112008592 dimerization interface [polypeptide binding]; other site 331112008593 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 331112008594 putative binding surface; other site 331112008595 active site 331112008596 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 331112008597 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 331112008598 active site 331112008599 tetramer interface [polypeptide binding]; other site 331112008600 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 331112008601 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 331112008602 active site 331112008603 tetramer interface [polypeptide binding]; other site 331112008604 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112008605 D-galactonate transporter; Region: 2A0114; TIGR00893 331112008606 putative substrate translocation pore; other site 331112008607 flavodoxin; Provisional; Region: PRK08105 331112008608 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 331112008609 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 331112008610 probable active site [active] 331112008611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 331112008612 SecY interacting protein Syd; Provisional; Region: PRK04968 331112008613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 331112008614 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 331112008615 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 331112008616 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 331112008617 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 331112008618 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 331112008619 serine transporter; Region: stp; TIGR00814 331112008620 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 331112008621 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 331112008622 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 331112008623 flap endonuclease-like protein; Provisional; Region: PRK09482 331112008624 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 331112008625 active site 331112008626 metal binding site 1 [ion binding]; metal-binding site 331112008627 putative 5' ssDNA interaction site; other site 331112008628 metal binding site 3; metal-binding site 331112008629 metal binding site 2 [ion binding]; metal-binding site 331112008630 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 331112008631 putative DNA binding site [nucleotide binding]; other site 331112008632 putative metal binding site [ion binding]; other site 331112008633 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 331112008634 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 331112008635 dimer interface [polypeptide binding]; other site 331112008636 active site 331112008637 metal binding site [ion binding]; metal-binding site 331112008638 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 331112008639 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 331112008640 intersubunit interface [polypeptide binding]; other site 331112008641 active site 331112008642 Zn2+ binding site [ion binding]; other site 331112008643 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 331112008644 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112008645 putative substrate translocation pore; other site 331112008646 L-fucose isomerase; Provisional; Region: fucI; PRK10991 331112008647 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 331112008648 hexamer (dimer of trimers) interface [polypeptide binding]; other site 331112008649 trimer interface [polypeptide binding]; other site 331112008650 substrate binding site [chemical binding]; other site 331112008651 Mn binding site [ion binding]; other site 331112008652 L-fuculokinase; Provisional; Region: PRK10331 331112008653 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 331112008654 nucleotide binding site [chemical binding]; other site 331112008655 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 331112008656 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 331112008657 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 331112008658 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 331112008659 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 331112008660 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 331112008661 hypothetical protein; Provisional; Region: PRK10873 331112008662 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 331112008663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112008664 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 331112008665 dimerization interface [polypeptide binding]; other site 331112008666 substrate binding pocket [chemical binding]; other site 331112008667 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 331112008668 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 331112008669 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 331112008670 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331112008671 catalytic residue [active] 331112008672 CsdA-binding activator; Provisional; Region: PRK15019 331112008673 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 331112008674 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 331112008675 putative ATP binding site [chemical binding]; other site 331112008676 putative substrate interface [chemical binding]; other site 331112008677 murein transglycosylase A; Provisional; Region: mltA; PRK11162 331112008678 MltA specific insert domain; Region: MltA; pfam03562 331112008679 3D domain; Region: 3D; pfam06725 331112008680 AMIN domain; Region: AMIN; pfam11741 331112008681 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 331112008682 active site 331112008683 metal binding site [ion binding]; metal-binding site 331112008684 N-acetylglutamate synthase; Validated; Region: PRK05279 331112008685 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 331112008686 putative feedback inhibition sensing region; other site 331112008687 putative nucleotide binding site [chemical binding]; other site 331112008688 putative substrate binding site [chemical binding]; other site 331112008689 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112008690 Coenzyme A binding pocket [chemical binding]; other site 331112008691 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 331112008692 AAA domain; Region: AAA_30; pfam13604 331112008693 Family description; Region: UvrD_C_2; pfam13538 331112008694 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 331112008695 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 331112008696 protease3; Provisional; Region: PRK15101 331112008697 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 331112008698 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331112008699 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331112008700 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 331112008701 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 331112008702 hypothetical protein; Provisional; Region: PRK10332 331112008703 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 331112008704 hypothetical protein; Provisional; Region: PRK11521 331112008705 hypothetical protein; Provisional; Region: PRK10557 331112008706 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 331112008707 hypothetical protein; Provisional; Region: PRK10506 331112008708 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 331112008709 thymidylate synthase; Reviewed; Region: thyA; PRK01827 331112008710 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 331112008711 dimerization interface [polypeptide binding]; other site 331112008712 active site 331112008713 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 331112008714 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 331112008715 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 331112008716 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 331112008717 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 331112008718 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 331112008719 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 331112008720 putative active site [active] 331112008721 Ap4A binding site [chemical binding]; other site 331112008722 nudix motif; other site 331112008723 putative metal binding site [ion binding]; other site 331112008724 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 331112008725 putative DNA-binding cleft [nucleotide binding]; other site 331112008726 putative DNA clevage site; other site 331112008727 molecular lever; other site 331112008728 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 331112008729 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 331112008730 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 331112008731 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 331112008732 active site 331112008733 catalytic tetrad [active] 331112008734 lysophospholipid transporter LplT; Provisional; Region: PRK11195 331112008735 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112008736 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 331112008737 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 331112008738 putative acyl-acceptor binding pocket; other site 331112008739 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 331112008740 acyl-activating enzyme (AAE) consensus motif; other site 331112008741 putative AMP binding site [chemical binding]; other site 331112008742 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 331112008743 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112008744 DNA binding site [nucleotide binding] 331112008745 domain linker motif; other site 331112008746 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 331112008747 dimerization interface (closed form) [polypeptide binding]; other site 331112008748 ligand binding site [chemical binding]; other site 331112008749 diaminopimelate decarboxylase; Provisional; Region: PRK11165 331112008750 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 331112008751 active site 331112008752 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 331112008753 substrate binding site [chemical binding]; other site 331112008754 catalytic residues [active] 331112008755 dimer interface [polypeptide binding]; other site 331112008756 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 331112008757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112008758 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 331112008759 putative dimerization interface [polypeptide binding]; other site 331112008760 putative racemase; Provisional; Region: PRK10200 331112008761 aspartate racemase; Region: asp_race; TIGR00035 331112008762 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 331112008763 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112008764 putative substrate translocation pore; other site 331112008765 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112008766 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 331112008767 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 331112008768 NADP binding site [chemical binding]; other site 331112008769 homodimer interface [polypeptide binding]; other site 331112008770 active site 331112008771 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 331112008772 putative acyltransferase; Provisional; Region: PRK05790 331112008773 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 331112008774 dimer interface [polypeptide binding]; other site 331112008775 active site 331112008776 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 331112008777 serine transporter; Region: stp; TIGR00814 331112008778 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 331112008779 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 331112008780 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 331112008781 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 331112008782 Tetratricopeptide repeat; Region: TPR_3; pfam07720 331112008783 Tetratricopeptide repeat; Region: TPR_3; pfam07720 331112008784 transcriptional regulator; Provisional; Region: PRK11906 331112008785 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 331112008786 DNA binding site [nucleotide binding] 331112008787 Tetratricopeptide repeat; Region: TPR_2; pfam07719 331112008788 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 331112008789 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 331112008790 DNA binding residues [nucleotide binding] 331112008791 dimerization interface [polypeptide binding]; other site 331112008792 invasion protein OrgB; Provisional; Region: PRK15322 331112008793 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112008794 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112008795 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112008796 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112008797 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 331112008798 Type III secretion needle MxiH like; Region: MxiH; cl09641 331112008799 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327; cl12363 331112008800 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; pfam09480 331112008801 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 331112008802 DNA binding residues [nucleotide binding] 331112008803 dimerization interface [polypeptide binding]; other site 331112008804 InvH outer membrane lipoprotein; Region: InvH; pfam04741 331112008805 type III secretion system protein SpaS; Validated; Region: PRK08156 331112008806 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 331112008807 type III secretion system protein SpaQ; Provisional; Region: PRK15333 331112008808 type III secretion system protein SpaP; Provisional; Region: spaP; PRK12796 331112008809 type III secretion system protein SpaO; Validated; Region: PRK08158 331112008810 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 331112008811 putative transposase OrfB; Reviewed; Region: PHA02517 331112008812 HTH-like domain; Region: HTH_21; pfam13276 331112008813 Integrase core domain; Region: rve; pfam00665 331112008814 Integrase core domain; Region: rve_2; pfam13333 331112008815 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112008816 Transposase; Region: HTH_Tnp_1; pfam01527 331112008817 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 331112008818 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331112008819 Peptidase family M23; Region: Peptidase_M23; pfam01551 331112008820 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 331112008821 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 331112008822 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 331112008823 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 331112008824 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 331112008825 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 331112008826 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 331112008827 catalytic loop [active] 331112008828 iron binding site [ion binding]; other site 331112008829 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 331112008830 GAF domain; Region: GAF; cl17456 331112008831 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 331112008832 PAS domain; Region: PAS; smart00091 331112008833 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 331112008834 Walker A motif; other site 331112008835 ATP binding site [chemical binding]; other site 331112008836 Walker B motif; other site 331112008837 arginine finger; other site 331112008838 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 331112008839 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 331112008840 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 331112008841 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 331112008842 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 331112008843 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 331112008844 catalytic residue [active] 331112008845 peptidase; Reviewed; Region: PRK13004 331112008846 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 331112008847 putative metal binding site [ion binding]; other site 331112008848 putative dimer interface [polypeptide binding]; other site 331112008849 D-hydantoinase; Region: D-hydantoinase; TIGR02033 331112008850 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 331112008851 tetramer interface [polypeptide binding]; other site 331112008852 active site 331112008853 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 331112008854 carbamate kinase; Reviewed; Region: PRK12686 331112008855 putative substrate binding site [chemical binding]; other site 331112008856 homodimer interface [polypeptide binding]; other site 331112008857 nucleotide binding site [chemical binding]; other site 331112008858 nucleotide binding site [chemical binding]; other site 331112008859 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 331112008860 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 331112008861 XdhC Rossmann domain; Region: XdhC_C; pfam13478 331112008862 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 331112008863 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 331112008864 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 331112008865 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 331112008866 Ligand binding site; other site 331112008867 metal-binding site 331112008868 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 331112008869 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 331112008870 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 331112008871 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112008872 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 331112008873 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 331112008874 active site 331112008875 putative substrate binding pocket [chemical binding]; other site 331112008876 probable selenate reductase, FAD-binding subunit; Region: Se_sel_red_FAD; TIGR03312 331112008877 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 331112008878 putative hypoxanthine oxidase; Provisional; Region: PRK09800 331112008879 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 331112008880 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 331112008881 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 331112008882 uracil-xanthine permease; Region: ncs2; TIGR00801 331112008883 guanine deaminase; Provisional; Region: PRK09228 331112008884 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 331112008885 active site 331112008886 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 331112008887 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 331112008888 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12809 331112008889 4Fe-4S binding domain; Region: Fer4; pfam00037 331112008890 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 331112008891 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112008892 xanthine permease; Region: pbuX; TIGR03173 331112008893 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 331112008894 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 331112008895 active site 331112008896 metal binding site [ion binding]; metal-binding site 331112008897 nudix motif; other site 331112008898 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 331112008899 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 331112008900 dimer interface [polypeptide binding]; other site 331112008901 putative anticodon binding site; other site 331112008902 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 331112008903 motif 1; other site 331112008904 active site 331112008905 motif 2; other site 331112008906 motif 3; other site 331112008907 peptide chain release factor 2; Validated; Region: prfB; PRK00578 331112008908 This domain is found in peptide chain release factors; Region: PCRF; smart00937 331112008909 RF-1 domain; Region: RF-1; pfam00472 331112008910 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 331112008911 DHH family; Region: DHH; pfam01368 331112008912 DHHA1 domain; Region: DHHA1; pfam02272 331112008913 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 331112008914 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 331112008915 dimerization domain [polypeptide binding]; other site 331112008916 dimer interface [polypeptide binding]; other site 331112008917 catalytic residues [active] 331112008918 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 331112008919 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 331112008920 active site 331112008921 Int/Topo IB signature motif; other site 331112008922 flavodoxin FldB; Provisional; Region: PRK12359 331112008923 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 331112008924 putative global regulator; Reviewed; Region: PRK09559 331112008925 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 331112008926 hemolysin; Provisional; Region: PRK15087 331112008927 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 331112008928 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 331112008929 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 331112008930 beta-galactosidase; Region: BGL; TIGR03356 331112008931 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 331112008932 classical (c) SDRs; Region: SDR_c; cd05233 331112008933 NAD(P) binding site [chemical binding]; other site 331112008934 active site 331112008935 glycine dehydrogenase; Provisional; Region: PRK05367 331112008936 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 331112008937 tetramer interface [polypeptide binding]; other site 331112008938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112008939 catalytic residue [active] 331112008940 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 331112008941 tetramer interface [polypeptide binding]; other site 331112008942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112008943 catalytic residue [active] 331112008944 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 331112008945 lipoyl attachment site [posttranslational modification]; other site 331112008946 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 331112008947 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 331112008948 oxidoreductase; Provisional; Region: PRK08013 331112008949 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 331112008950 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 331112008951 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 331112008952 proline aminopeptidase P II; Provisional; Region: PRK10879 331112008953 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 331112008954 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 331112008955 active site 331112008956 hypothetical protein; Reviewed; Region: PRK01736 331112008957 Z-ring-associated protein; Provisional; Region: PRK10972 331112008958 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 331112008959 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 331112008960 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 331112008961 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 331112008962 ligand binding site [chemical binding]; other site 331112008963 NAD binding site [chemical binding]; other site 331112008964 tetramer interface [polypeptide binding]; other site 331112008965 catalytic site [active] 331112008966 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 331112008967 L-serine binding site [chemical binding]; other site 331112008968 ACT domain interface; other site 331112008969 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 331112008970 tetramer (dimer of dimers) interface [polypeptide binding]; other site 331112008971 active site 331112008972 dimer interface [polypeptide binding]; other site 331112008973 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 331112008974 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 331112008975 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112008976 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 331112008977 putative dimerization interface [polypeptide binding]; other site 331112008978 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 331112008979 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 331112008980 active site 331112008981 substrate binding site [chemical binding]; other site 331112008982 coenzyme B12 binding site [chemical binding]; other site 331112008983 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 331112008984 B12 binding site [chemical binding]; other site 331112008985 cobalt ligand [ion binding]; other site 331112008986 membrane ATPase/protein kinase; Provisional; Region: PRK09435 331112008987 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 331112008988 Walker A; other site 331112008989 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 331112008990 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 331112008991 substrate binding site [chemical binding]; other site 331112008992 oxyanion hole (OAH) forming residues; other site 331112008993 trimer interface [polypeptide binding]; other site 331112008994 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 331112008995 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 331112008996 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 331112008997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112008998 Transcriptional regulator [Transcription]; Region: LysR; COG0583 331112008999 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 331112009000 dimerization interface [polypeptide binding]; other site 331112009001 Uncharacterized conserved protein [Function unknown]; Region: COG2968 331112009002 oxidative stress defense protein; Provisional; Region: PRK11087 331112009003 arginine exporter protein; Provisional; Region: PRK09304 331112009004 mechanosensitive channel MscS; Provisional; Region: PRK10334 331112009005 Mechanosensitive ion channel; Region: MS_channel; pfam00924 331112009006 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 331112009007 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 331112009008 active site 331112009009 intersubunit interface [polypeptide binding]; other site 331112009010 zinc binding site [ion binding]; other site 331112009011 Na+ binding site [ion binding]; other site 331112009012 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 331112009013 Phosphoglycerate kinase; Region: PGK; pfam00162 331112009014 substrate binding site [chemical binding]; other site 331112009015 hinge regions; other site 331112009016 ADP binding site [chemical binding]; other site 331112009017 catalytic site [active] 331112009018 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 331112009019 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 331112009020 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 331112009021 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 331112009022 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 331112009023 active site 331112009024 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 331112009025 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10022 331112009026 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 331112009027 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 331112009028 putative active site [active] 331112009029 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 331112009030 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 331112009031 putative NAD(P) binding site [chemical binding]; other site 331112009032 catalytic Zn binding site [ion binding]; other site 331112009033 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 331112009034 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 331112009035 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 331112009036 active site 331112009037 P-loop; other site 331112009038 phosphorylation site [posttranslational modification] 331112009039 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112009040 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112009041 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112009042 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112009043 transketolase; Reviewed; Region: PRK12753 331112009044 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 331112009045 TPP-binding site [chemical binding]; other site 331112009046 dimer interface [polypeptide binding]; other site 331112009047 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 331112009048 PYR/PP interface [polypeptide binding]; other site 331112009049 dimer interface [polypeptide binding]; other site 331112009050 TPP binding site [chemical binding]; other site 331112009051 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331112009052 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 331112009053 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 331112009054 agmatinase; Region: agmatinase; TIGR01230 331112009055 oligomer interface [polypeptide binding]; other site 331112009056 putative active site [active] 331112009057 Mn binding site [ion binding]; other site 331112009058 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 331112009059 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 331112009060 dimer interface [polypeptide binding]; other site 331112009061 active site 331112009062 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 331112009063 catalytic residues [active] 331112009064 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 331112009065 Virulence promoting factor; Region: YqgB; pfam11036 331112009066 S-adenosylmethionine synthetase; Validated; Region: PRK05250 331112009067 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 331112009068 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 331112009069 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 331112009070 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 331112009071 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112009072 putative substrate translocation pore; other site 331112009073 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112009074 hypothetical protein; Provisional; Region: PRK04860 331112009075 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 331112009076 DNA-specific endonuclease I; Provisional; Region: PRK15137 331112009077 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 331112009078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 331112009079 RNA methyltransferase, RsmE family; Region: TIGR00046 331112009080 glutathione synthetase; Provisional; Region: PRK05246 331112009081 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 331112009082 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 331112009083 hypothetical protein; Validated; Region: PRK00228 331112009084 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 331112009085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112009086 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112009087 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112009088 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 331112009089 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 331112009090 Walker A motif; other site 331112009091 ATP binding site [chemical binding]; other site 331112009092 Walker B motif; other site 331112009093 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 331112009094 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 331112009095 catalytic residue [active] 331112009096 YGGT family; Region: YGGT; pfam02325 331112009097 YGGT family; Region: YGGT; pfam02325 331112009098 hypothetical protein; Validated; Region: PRK05090 331112009099 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 331112009100 active site 331112009101 dimerization interface [polypeptide binding]; other site 331112009102 HemN family oxidoreductase; Provisional; Region: PRK05660 331112009103 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 331112009104 FeS/SAM binding site; other site 331112009105 HemN C-terminal domain; Region: HemN_C; pfam06969 331112009106 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 331112009107 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 331112009108 homodimer interface [polypeptide binding]; other site 331112009109 active site 331112009110 hypothetical protein; Provisional; Region: PRK10626 331112009111 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 331112009112 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 331112009113 hypothetical protein; Provisional; Region: PRK11702 331112009114 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 331112009115 adenine DNA glycosylase; Provisional; Region: PRK10880 331112009116 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 331112009117 minor groove reading motif; other site 331112009118 helix-hairpin-helix signature motif; other site 331112009119 substrate binding pocket [chemical binding]; other site 331112009120 active site 331112009121 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 331112009122 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 331112009123 DNA binding and oxoG recognition site [nucleotide binding] 331112009124 murein transglycosylase C; Provisional; Region: mltC; PRK11671 331112009125 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 331112009126 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 331112009127 N-acetyl-D-glucosamine binding site [chemical binding]; other site 331112009128 catalytic residue [active] 331112009129 nucleoside transporter; Region: 2A0110; TIGR00889 331112009130 ornithine decarboxylase; Provisional; Region: PRK13578 331112009131 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 331112009132 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 331112009133 homodimer interface [polypeptide binding]; other site 331112009134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112009135 catalytic residue [active] 331112009136 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 331112009137 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 331112009138 putative general secretion pathway protein YghD; Provisional; Region: PRK09731 331112009139 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 331112009140 GspL-like protein; Provisional; Region: PRK09662 331112009141 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 331112009142 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 331112009143 type II secretion system protein J; Region: gspJ; TIGR01711 331112009144 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 331112009145 type II secretion system protein I; Region: gspI; TIGR01707 331112009146 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 331112009147 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 331112009148 Type II transport protein GspH; Region: GspH; pfam12019 331112009149 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 331112009150 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 331112009151 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 331112009152 type II secretion system protein F; Region: GspF; TIGR02120 331112009153 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 331112009154 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 331112009155 type II secretion system protein E; Region: type_II_gspE; TIGR02533 331112009156 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 331112009157 Walker A motif; other site 331112009158 ATP binding site [chemical binding]; other site 331112009159 Walker B motif; other site 331112009160 type II secretion system protein D; Region: type_II_gspD; TIGR02517 331112009161 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331112009162 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331112009163 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331112009164 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 331112009165 putative type II secretion protein GspC; Provisional; Region: PRK09681 331112009166 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 331112009167 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 331112009168 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 331112009169 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 331112009170 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 331112009171 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 331112009172 Calcium-activated chloride channel; Region: Anoctamin; pfam04547 331112009173 Peptidase M60-like family; Region: M60-like; pfam13402 331112009174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112009175 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112009176 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112009177 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112009178 glycolate transporter; Provisional; Region: PRK09695 331112009179 L-lactate permease; Region: Lactate_perm; cl00701 331112009180 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 331112009181 active site 331112009182 hypothetical protein; Provisional; Region: PRK09732 331112009183 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 331112009184 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 331112009185 Cysteine-rich domain; Region: CCG; pfam02754 331112009186 Cysteine-rich domain; Region: CCG; pfam02754 331112009187 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 331112009188 FAD binding domain; Region: FAD_binding_4; pfam01565 331112009189 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 331112009190 FAD binding domain; Region: FAD_binding_4; pfam01565 331112009191 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 331112009192 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112009193 DNA-binding site [nucleotide binding]; DNA binding site 331112009194 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 331112009195 acyl-CoA synthetase; Validated; Region: PRK09192 331112009196 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 331112009197 acyl-activating enzyme (AAE) consensus motif; other site 331112009198 active site 331112009199 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 331112009200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331112009201 NAD(P) binding site [chemical binding]; other site 331112009202 active site 331112009203 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 331112009204 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 331112009205 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 331112009206 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331112009207 catalytic residue [active] 331112009208 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 331112009209 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 331112009210 Predicted permeases [General function prediction only]; Region: COG0795 331112009211 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 331112009212 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 331112009213 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 331112009214 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 331112009215 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 331112009216 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 331112009217 active site 331112009218 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 331112009219 TMP-binding site; other site 331112009220 ATP-binding site [chemical binding]; other site 331112009221 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 331112009222 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 331112009223 TMP-binding site; other site 331112009224 ATP-binding site [chemical binding]; other site 331112009225 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 331112009226 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 331112009227 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 331112009228 CHAP domain; Region: CHAP; pfam05257 331112009229 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 331112009230 putative S-transferase; Provisional; Region: PRK11752 331112009231 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 331112009232 C-terminal domain interface [polypeptide binding]; other site 331112009233 GSH binding site (G-site) [chemical binding]; other site 331112009234 dimer interface [polypeptide binding]; other site 331112009235 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 331112009236 dimer interface [polypeptide binding]; other site 331112009237 N-terminal domain interface [polypeptide binding]; other site 331112009238 active site 331112009239 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 331112009240 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 331112009241 hydrogenase nickel incorporation protein HybF; Provisional; Region: PRK12380 331112009242 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 331112009243 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 331112009244 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 331112009245 putative substrate-binding site; other site 331112009246 nickel binding site [ion binding]; other site 331112009247 hydrogenase 2 large subunit; Provisional; Region: PRK10467 331112009248 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 331112009249 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 331112009250 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 331112009251 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 331112009252 4Fe-4S binding domain; Region: Fer4_6; pfam12837 331112009253 hydrogenase 2 small subunit; Provisional; Region: PRK10468 331112009254 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 331112009255 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 331112009256 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 331112009257 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 331112009258 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 331112009259 active site 331112009260 catalytic tetrad [active] 331112009261 hypothetical protein; Provisional; Region: PRK05208 331112009262 oxidoreductase; Provisional; Region: PRK07985 331112009263 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 331112009264 NAD binding site [chemical binding]; other site 331112009265 metal binding site [ion binding]; metal-binding site 331112009266 active site 331112009267 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 331112009268 biopolymer transport protein ExbD; Provisional; Region: PRK11267 331112009269 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 331112009270 biopolymer transport protein ExbB; Provisional; Region: PRK10414 331112009271 cystathionine beta-lyase; Provisional; Region: PRK08114 331112009272 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 331112009273 homodimer interface [polypeptide binding]; other site 331112009274 substrate-cofactor binding pocket; other site 331112009275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112009276 catalytic residue [active] 331112009277 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 331112009278 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 331112009279 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 331112009280 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 331112009281 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112009282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112009283 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 331112009284 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 331112009285 dimer interface [polypeptide binding]; other site 331112009286 active site 331112009287 metal binding site [ion binding]; metal-binding site 331112009288 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 331112009289 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 331112009290 active site 331112009291 catalytic tetrad [active] 331112009292 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 331112009293 putative outer membrane lipoprotein; Provisional; Region: PRK09973 331112009294 hypothetical protein; Provisional; Region: PRK01254 331112009295 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 331112009296 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 331112009297 FtsI repressor; Provisional; Region: PRK10883 331112009298 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 331112009299 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 331112009300 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 331112009301 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 331112009302 putative acyl-acceptor binding pocket; other site 331112009303 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 331112009304 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 331112009305 CAP-like domain; other site 331112009306 active site 331112009307 primary dimer interface [polypeptide binding]; other site 331112009308 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331112009309 putative ABC transporter periplasmic-binding protein; Provisional; Region: PRK09755 331112009310 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331112009311 peptide binding site [polypeptide binding]; other site 331112009312 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 331112009313 toxin interface [polypeptide binding]; other site 331112009314 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 331112009315 Zn binding site [ion binding]; other site 331112009316 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 331112009317 non-specific DNA binding site [nucleotide binding]; other site 331112009318 salt bridge; other site 331112009319 sequence-specific DNA binding site [nucleotide binding]; other site 331112009320 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 331112009321 peptide binding site [polypeptide binding]; other site 331112009322 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 331112009323 TIGR00156 family protein; Region: TIGR00156 331112009324 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 331112009325 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 331112009326 active site 331112009327 phosphorylation site [posttranslational modification] 331112009328 intermolecular recognition site; other site 331112009329 dimerization interface [polypeptide binding]; other site 331112009330 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 331112009331 DNA binding site [nucleotide binding] 331112009332 sensor protein QseC; Provisional; Region: PRK10337 331112009333 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 331112009334 dimer interface [polypeptide binding]; other site 331112009335 phosphorylation site [posttranslational modification] 331112009336 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 331112009337 ATP binding site [chemical binding]; other site 331112009338 Mg2+ binding site [ion binding]; other site 331112009339 G-X-G motif; other site 331112009340 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 331112009341 Uncharacterized conserved protein [Function unknown]; Region: COG1359 331112009342 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 331112009343 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 331112009344 ATP binding site [chemical binding]; other site 331112009345 Mg2+ binding site [ion binding]; other site 331112009346 G-X-G motif; other site 331112009347 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 331112009348 anchoring element; other site 331112009349 dimer interface [polypeptide binding]; other site 331112009350 ATP binding site [chemical binding]; other site 331112009351 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 331112009352 active site 331112009353 metal binding site [ion binding]; metal-binding site 331112009354 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 331112009355 esterase YqiA; Provisional; Region: PRK11071 331112009356 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 331112009357 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 331112009358 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 331112009359 active site 331112009360 metal binding site [ion binding]; metal-binding site 331112009361 hexamer interface [polypeptide binding]; other site 331112009362 putative dehydrogenase; Provisional; Region: PRK11039 331112009363 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 331112009364 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 331112009365 dimer interface [polypeptide binding]; other site 331112009366 ADP-ribose binding site [chemical binding]; other site 331112009367 active site 331112009368 nudix motif; other site 331112009369 metal binding site [ion binding]; metal-binding site 331112009370 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 331112009371 hypothetical protein; Provisional; Region: PRK11653 331112009372 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 331112009373 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 331112009374 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 331112009375 putative active site [active] 331112009376 metal binding site [ion binding]; metal-binding site 331112009377 zinc transporter ZupT; Provisional; Region: PRK04201 331112009378 ZIP Zinc transporter; Region: Zip; pfam02535 331112009379 Protein of unknown function (DUF4051); Region: DUF4051; pfam13260 331112009380 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 331112009381 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 331112009382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 331112009383 putative fimbrial protein; Provisional; Region: PRK09733 331112009384 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 331112009385 PapC N-terminal domain; Region: PapC_N; pfam13954 331112009386 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 331112009387 PapC C-terminal domain; Region: PapC_C; pfam13953 331112009388 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 331112009389 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 331112009390 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 331112009391 Fimbrial protein; Region: Fimbrial; pfam00419 331112009392 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 331112009393 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 331112009394 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 331112009395 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 331112009396 putative ribose interaction site [chemical binding]; other site 331112009397 putative ADP binding site [chemical binding]; other site 331112009398 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 331112009399 active site 331112009400 nucleotide binding site [chemical binding]; other site 331112009401 HIGH motif; other site 331112009402 KMSKS motif; other site 331112009403 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 331112009404 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 331112009405 metal binding triad; other site 331112009406 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 331112009407 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 331112009408 metal binding triad; other site 331112009409 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 331112009410 Uncharacterized conserved protein [Function unknown]; Region: COG3025 331112009411 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 331112009412 putative active site [active] 331112009413 putative metal binding residues [ion binding]; other site 331112009414 signature motif; other site 331112009415 putative triphosphate binding site [ion binding]; other site 331112009416 CHAD domain; Region: CHAD; pfam05235 331112009417 SH3 domain-containing protein; Provisional; Region: PRK10884 331112009418 Bacterial SH3 domain homologues; Region: SH3b; smart00287 331112009419 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 331112009420 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 331112009421 active site 331112009422 NTP binding site [chemical binding]; other site 331112009423 metal binding triad [ion binding]; metal-binding site 331112009424 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 331112009425 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 331112009426 Zn2+ binding site [ion binding]; other site 331112009427 Mg2+ binding site [ion binding]; other site 331112009428 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 331112009429 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 331112009430 homooctamer interface [polypeptide binding]; other site 331112009431 active site 331112009432 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 331112009433 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 331112009434 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112009435 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112009436 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112009437 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112009438 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 331112009439 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 331112009440 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 331112009441 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 331112009442 transmembrane helices; other site 331112009443 UGMP family protein; Validated; Region: PRK09604 331112009444 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 331112009445 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 331112009446 DNA primase; Validated; Region: dnaG; PRK05667 331112009447 CHC2 zinc finger; Region: zf-CHC2; pfam01807 331112009448 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 331112009449 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 331112009450 active site 331112009451 metal binding site [ion binding]; metal-binding site 331112009452 interdomain interaction site; other site 331112009453 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 331112009454 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 331112009455 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 331112009456 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 331112009457 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 331112009458 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 331112009459 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 331112009460 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 331112009461 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 331112009462 DNA binding residues [nucleotide binding] 331112009463 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 331112009464 active site 331112009465 SUMO-1 interface [polypeptide binding]; other site 331112009466 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 331112009467 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 331112009468 FAD binding pocket [chemical binding]; other site 331112009469 FAD binding motif [chemical binding]; other site 331112009470 phosphate binding motif [ion binding]; other site 331112009471 NAD binding pocket [chemical binding]; other site 331112009472 Predicted transcriptional regulators [Transcription]; Region: COG1695 331112009473 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 331112009474 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 331112009475 PAS fold; Region: PAS_3; pfam08447 331112009476 putative active site [active] 331112009477 heme pocket [chemical binding]; other site 331112009478 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 331112009479 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 331112009480 dimer interface [polypeptide binding]; other site 331112009481 putative CheW interface [polypeptide binding]; other site 331112009482 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 331112009483 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 331112009484 inhibitor-cofactor binding pocket; inhibition site 331112009485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112009486 catalytic residue [active] 331112009487 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 331112009488 dimer interface [polypeptide binding]; other site 331112009489 putative tRNA-binding site [nucleotide binding]; other site 331112009490 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 331112009491 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112009492 DNA binding site [nucleotide binding] 331112009493 domain linker motif; other site 331112009494 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 331112009495 putative dimerization interface [polypeptide binding]; other site 331112009496 putative ligand binding site [chemical binding]; other site 331112009497 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 331112009498 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 331112009499 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 331112009500 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 331112009501 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 331112009502 cryptic beta-D-galactosidase subunit beta; Reviewed; Region: ebgC; PRK10202 331112009503 inner membrane transporter YjeM; Provisional; Region: PRK15238 331112009504 alpha-glucosidase; Provisional; Region: PRK10137 331112009505 Protein of unknown function, DUF608; Region: DUF608; pfam04685 331112009506 Trehalase; Region: Trehalase; cl17346 331112009507 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 331112009508 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 331112009509 active site 331112009510 FMN binding site [chemical binding]; other site 331112009511 2,4-decadienoyl-CoA binding site; other site 331112009512 catalytic residue [active] 331112009513 4Fe-4S cluster binding site [ion binding]; other site 331112009514 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 331112009515 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 331112009516 non-specific DNA binding site [nucleotide binding]; other site 331112009517 salt bridge; other site 331112009518 sequence-specific DNA binding site [nucleotide binding]; other site 331112009519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4680 331112009520 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 331112009521 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 331112009522 S-adenosylmethionine binding site [chemical binding]; other site 331112009523 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 331112009524 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 331112009525 putative active site [active] 331112009526 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 331112009527 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 331112009528 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 331112009529 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 331112009530 serine/threonine transporter SstT; Provisional; Region: PRK13628 331112009531 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 331112009532 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 331112009533 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 331112009534 galactarate dehydratase; Region: galactar-dH20; TIGR03248 331112009535 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 331112009536 Glucuronate isomerase; Region: UxaC; pfam02614 331112009537 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 331112009538 D-galactonate transporter; Region: 2A0114; TIGR00893 331112009539 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112009540 putative substrate translocation pore; other site 331112009541 CblD like pilus biogenesis initiator; Region: CblD; cl06460 331112009542 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 331112009543 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 331112009544 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; pfam04449 331112009545 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 331112009546 putative fimbrial protein TcfA; Provisional; Region: PRK15308 331112009547 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 331112009548 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112009549 DNA-binding site [nucleotide binding]; DNA binding site 331112009550 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 331112009551 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 331112009552 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 331112009553 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 331112009554 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 331112009555 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 331112009556 Predicted membrane protein [Function unknown]; Region: COG5393 331112009557 YqjK-like protein; Region: YqjK; pfam13997 331112009558 Predicted membrane protein [Function unknown]; Region: COG2259 331112009559 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 331112009560 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 331112009561 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 331112009562 putative dimer interface [polypeptide binding]; other site 331112009563 N-terminal domain interface [polypeptide binding]; other site 331112009564 putative substrate binding pocket (H-site) [chemical binding]; other site 331112009565 Predicted membrane protein [Function unknown]; Region: COG3152 331112009566 Predicted membrane protein [Function unknown]; Region: COG3152 331112009567 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112009568 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 331112009569 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 331112009570 dimerization interface [polypeptide binding]; other site 331112009571 Pirin-related protein [General function prediction only]; Region: COG1741 331112009572 Pirin; Region: Pirin; pfam02678 331112009573 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 331112009574 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 331112009575 serine transporter; Region: stp; TIGR00814 331112009576 L-serine dehydratase TdcG; Provisional; Region: PRK15040 331112009577 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 331112009578 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 331112009579 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 331112009580 homotrimer interaction site [polypeptide binding]; other site 331112009581 putative active site [active] 331112009582 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 331112009583 Pyruvate formate lyase 1; Region: PFL1; cd01678 331112009584 coenzyme A binding site [chemical binding]; other site 331112009585 active site 331112009586 catalytic residues [active] 331112009587 glycine loop; other site 331112009588 propionate/acetate kinase; Provisional; Region: PRK12379 331112009589 Acetokinase family; Region: Acetate_kinase; cl17229 331112009590 threonine/serine transporter TdcC; Provisional; Region: PRK13629 331112009591 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 331112009592 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 331112009593 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 331112009594 tetramer interface [polypeptide binding]; other site 331112009595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112009596 catalytic residue [active] 331112009597 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 331112009598 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112009599 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 331112009600 putative substrate binding pocket [chemical binding]; other site 331112009601 putative dimerization interface [polypeptide binding]; other site 331112009602 DNA-binding transcriptional activator TdcR; Provisional; Region: PRK11424 331112009603 glycerate kinase I; Provisional; Region: PRK10342 331112009604 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 331112009605 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 331112009606 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 331112009607 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112009608 D-galactonate transporter; Region: 2A0114; TIGR00893 331112009609 putative substrate translocation pore; other site 331112009610 galactarate dehydratase; Region: galactar-dH20; TIGR03248 331112009611 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 331112009612 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 331112009613 putative regulator PrlF; Provisional; Region: PRK09974 331112009614 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 331112009615 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 331112009616 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 331112009617 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 331112009618 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 331112009619 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 331112009620 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 331112009621 active site 331112009622 phosphorylation site [posttranslational modification] 331112009623 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 331112009624 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 331112009625 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 331112009626 active pocket/dimerization site; other site 331112009627 active site 331112009628 phosphorylation site [posttranslational modification] 331112009629 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 331112009630 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 331112009631 active site 331112009632 dimer interface [polypeptide binding]; other site 331112009633 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 331112009634 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 331112009635 dimer interface [polypeptide binding]; other site 331112009636 active site 331112009637 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 331112009638 putative active site [active] 331112009639 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 331112009640 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 331112009641 active site 331112009642 intersubunit interface [polypeptide binding]; other site 331112009643 zinc binding site [ion binding]; other site 331112009644 Na+ binding site [ion binding]; other site 331112009645 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional; Region: PRK09756 331112009646 active site 331112009647 phosphorylation site [posttranslational modification] 331112009648 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional; Region: PRK09757 331112009649 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional; Region: PRK09855 331112009650 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 331112009651 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 331112009652 active site 331112009653 trimer interface [polypeptide binding]; other site 331112009654 allosteric site; other site 331112009655 active site lid [active] 331112009656 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 331112009657 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 331112009658 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 331112009659 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 331112009660 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 331112009661 PapC N-terminal domain; Region: PapC_N; pfam13954 331112009662 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 331112009663 PapC C-terminal domain; Region: PapC_C; pfam13953 331112009664 Fimbrial protein; Region: Fimbrial; pfam00419 331112009665 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 331112009666 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 331112009667 putative SAM binding site [chemical binding]; other site 331112009668 putative homodimer interface [polypeptide binding]; other site 331112009669 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 331112009670 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 331112009671 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 331112009672 putative ligand binding site [chemical binding]; other site 331112009673 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 331112009674 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 331112009675 dimer interface [polypeptide binding]; other site 331112009676 active site 331112009677 outer membrane lipoprotein; Provisional; Region: PRK11023 331112009678 BON domain; Region: BON; pfam04972 331112009679 BON domain; Region: BON; pfam04972 331112009680 Predicted permease; Region: DUF318; pfam03773 331112009681 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 331112009682 NADH(P)-binding; Region: NAD_binding_10; pfam13460 331112009683 NAD binding site [chemical binding]; other site 331112009684 active site 331112009685 intracellular protease, PfpI family; Region: PfpI; TIGR01382 331112009686 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 331112009687 proposed catalytic triad [active] 331112009688 conserved cys residue [active] 331112009689 hypothetical protein; Provisional; Region: PRK03467 331112009690 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 331112009691 GIY-YIG motif/motif A; other site 331112009692 putative active site [active] 331112009693 putative metal binding site [ion binding]; other site 331112009694 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 331112009695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112009696 Coenzyme A binding pocket [chemical binding]; other site 331112009697 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 331112009698 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 331112009699 Peptidase family U32; Region: Peptidase_U32; pfam01136 331112009700 putative protease; Provisional; Region: PRK15447 331112009701 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 331112009702 hypothetical protein; Provisional; Region: PRK10508 331112009703 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 331112009704 tryptophan permease; Provisional; Region: PRK10483 331112009705 aromatic amino acid transport protein; Region: araaP; TIGR00837 331112009706 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 331112009707 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 331112009708 ATP binding site [chemical binding]; other site 331112009709 Mg++ binding site [ion binding]; other site 331112009710 motif III; other site 331112009711 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 331112009712 nucleotide binding region [chemical binding]; other site 331112009713 ATP-binding site [chemical binding]; other site 331112009714 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 331112009715 putative RNA binding site [nucleotide binding]; other site 331112009716 lipoprotein NlpI; Provisional; Region: PRK11189 331112009717 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 331112009718 binding surface 331112009719 TPR motif; other site 331112009720 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 331112009721 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 331112009722 RNase E interface [polypeptide binding]; other site 331112009723 trimer interface [polypeptide binding]; other site 331112009724 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 331112009725 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 331112009726 RNase E interface [polypeptide binding]; other site 331112009727 trimer interface [polypeptide binding]; other site 331112009728 active site 331112009729 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 331112009730 putative nucleic acid binding region [nucleotide binding]; other site 331112009731 G-X-X-G motif; other site 331112009732 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 331112009733 RNA binding site [nucleotide binding]; other site 331112009734 domain interface; other site 331112009735 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 331112009736 16S/18S rRNA binding site [nucleotide binding]; other site 331112009737 S13e-L30e interaction site [polypeptide binding]; other site 331112009738 25S rRNA binding site [nucleotide binding]; other site 331112009739 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 331112009740 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 331112009741 RNA binding site [nucleotide binding]; other site 331112009742 active site 331112009743 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 331112009744 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 331112009745 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 331112009746 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 331112009747 translation initiation factor IF-2; Region: IF-2; TIGR00487 331112009748 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 331112009749 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 331112009750 G1 box; other site 331112009751 putative GEF interaction site [polypeptide binding]; other site 331112009752 GTP/Mg2+ binding site [chemical binding]; other site 331112009753 Switch I region; other site 331112009754 G2 box; other site 331112009755 G3 box; other site 331112009756 Switch II region; other site 331112009757 G4 box; other site 331112009758 G5 box; other site 331112009759 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 331112009760 Translation-initiation factor 2; Region: IF-2; pfam11987 331112009761 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 331112009762 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 331112009763 NusA N-terminal domain; Region: NusA_N; pfam08529 331112009764 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 331112009765 RNA binding site [nucleotide binding]; other site 331112009766 homodimer interface [polypeptide binding]; other site 331112009767 NusA-like KH domain; Region: KH_5; pfam13184 331112009768 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 331112009769 G-X-X-G motif; other site 331112009770 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 331112009771 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 331112009772 ribosome maturation protein RimP; Reviewed; Region: PRK00092 331112009773 Sm and related proteins; Region: Sm_like; cl00259 331112009774 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 331112009775 putative oligomer interface [polypeptide binding]; other site 331112009776 putative RNA binding site [nucleotide binding]; other site 331112009777 argininosuccinate synthase; Validated; Region: PRK05370 331112009778 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 331112009779 Sulfatase; Region: Sulfatase; pfam00884 331112009780 Preprotein translocase SecG subunit; Region: SecG; pfam03840 331112009781 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 331112009782 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 331112009783 active site 331112009784 substrate binding site [chemical binding]; other site 331112009785 metal binding site [ion binding]; metal-binding site 331112009786 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 331112009787 dihydropteroate synthase; Region: DHPS; TIGR01496 331112009788 substrate binding pocket [chemical binding]; other site 331112009789 dimer interface [polypeptide binding]; other site 331112009790 inhibitor binding site; inhibition site 331112009791 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 331112009792 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 331112009793 Walker A motif; other site 331112009794 ATP binding site [chemical binding]; other site 331112009795 Walker B motif; other site 331112009796 arginine finger; other site 331112009797 Peptidase family M41; Region: Peptidase_M41; pfam01434 331112009798 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 331112009799 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 331112009800 S-adenosylmethionine binding site [chemical binding]; other site 331112009801 RNA-binding protein YhbY; Provisional; Region: PRK10343 331112009802 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 331112009803 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 331112009804 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 331112009805 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 331112009806 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 331112009807 GTPase CgtA; Reviewed; Region: obgE; PRK12298 331112009808 GTP1/OBG; Region: GTP1_OBG; pfam01018 331112009809 Obg GTPase; Region: Obg; cd01898 331112009810 G1 box; other site 331112009811 GTP/Mg2+ binding site [chemical binding]; other site 331112009812 Switch I region; other site 331112009813 G2 box; other site 331112009814 G3 box; other site 331112009815 Switch II region; other site 331112009816 G4 box; other site 331112009817 G5 box; other site 331112009818 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 331112009819 EamA-like transporter family; Region: EamA; pfam00892 331112009820 EamA-like transporter family; Region: EamA; pfam00892 331112009821 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 331112009822 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 331112009823 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 331112009824 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 331112009825 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 331112009826 substrate binding pocket [chemical binding]; other site 331112009827 chain length determination region; other site 331112009828 substrate-Mg2+ binding site; other site 331112009829 catalytic residues [active] 331112009830 aspartate-rich region 1; other site 331112009831 active site lid residues [active] 331112009832 aspartate-rich region 2; other site 331112009833 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 331112009834 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 331112009835 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 331112009836 hinge; other site 331112009837 active site 331112009838 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 331112009839 anti sigma factor interaction site; other site 331112009840 regulatory phosphorylation site [posttranslational modification]; other site 331112009841 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 331112009842 mce related protein; Region: MCE; pfam02470 331112009843 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 331112009844 conserved hypothetical integral membrane protein; Region: TIGR00056 331112009845 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 331112009846 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 331112009847 Walker A/P-loop; other site 331112009848 ATP binding site [chemical binding]; other site 331112009849 Q-loop/lid; other site 331112009850 ABC transporter signature motif; other site 331112009851 Walker B; other site 331112009852 D-loop; other site 331112009853 H-loop/switch region; other site 331112009854 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 331112009855 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 331112009856 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 331112009857 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 331112009858 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 331112009859 putative active site [active] 331112009860 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 331112009861 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 331112009862 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 331112009863 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 331112009864 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 331112009865 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 331112009866 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 331112009867 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 331112009868 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 331112009869 Walker A/P-loop; other site 331112009870 ATP binding site [chemical binding]; other site 331112009871 Q-loop/lid; other site 331112009872 ABC transporter signature motif; other site 331112009873 Walker B; other site 331112009874 D-loop; other site 331112009875 H-loop/switch region; other site 331112009876 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 331112009877 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 331112009878 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 331112009879 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 331112009880 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 331112009881 30S subunit binding site; other site 331112009882 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 331112009883 active site 331112009884 phosphorylation site [posttranslational modification] 331112009885 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 331112009886 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 331112009887 dimerization domain swap beta strand [polypeptide binding]; other site 331112009888 regulatory protein interface [polypeptide binding]; other site 331112009889 active site 331112009890 regulatory phosphorylation site [posttranslational modification]; other site 331112009891 hypothetical protein; Provisional; Region: PRK10345 331112009892 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 331112009893 Transglycosylase; Region: Transgly; cl17702 331112009894 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 331112009895 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 331112009896 conserved cys residue [active] 331112009897 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 331112009898 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 331112009899 putative active site [active] 331112009900 heme pocket [chemical binding]; other site 331112009901 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 331112009902 dimer interface [polypeptide binding]; other site 331112009903 phosphorylation site [posttranslational modification] 331112009904 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 331112009905 ATP binding site [chemical binding]; other site 331112009906 Mg2+ binding site [ion binding]; other site 331112009907 G-X-G motif; other site 331112009908 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 331112009909 active site 331112009910 phosphorylation site [posttranslational modification] 331112009911 intermolecular recognition site; other site 331112009912 dimerization interface [polypeptide binding]; other site 331112009913 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 331112009914 putative binding surface; other site 331112009915 active site 331112009916 radical SAM protein, TIGR01212 family; Region: TIGR01212 331112009917 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 331112009918 FeS/SAM binding site; other site 331112009919 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 331112009920 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 331112009921 active site 331112009922 dimer interface [polypeptide binding]; other site 331112009923 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 331112009924 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 331112009925 active site 331112009926 FMN binding site [chemical binding]; other site 331112009927 substrate binding site [chemical binding]; other site 331112009928 3Fe-4S cluster binding site [ion binding]; other site 331112009929 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 331112009930 domain interface; other site 331112009931 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 331112009932 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 331112009933 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112009934 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 331112009935 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 331112009936 N-acetylmannosamine kinase; Provisional; Region: PRK05082 331112009937 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 331112009938 nucleotide binding site [chemical binding]; other site 331112009939 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 331112009940 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 331112009941 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 331112009942 putative active site cavity [active] 331112009943 putative sialic acid transporter; Provisional; Region: PRK03893 331112009944 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112009945 putative substrate translocation pore; other site 331112009946 N-acetylneuraminate lyase; Region: nanA; TIGR00683 331112009947 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 331112009948 inhibitor site; inhibition site 331112009949 active site 331112009950 dimer interface [polypeptide binding]; other site 331112009951 catalytic residue [active] 331112009952 transcriptional regulator NanR; Provisional; Region: PRK03837 331112009953 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112009954 DNA-binding site [nucleotide binding]; DNA binding site 331112009955 FCD domain; Region: FCD; pfam07729 331112009956 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 331112009957 stringent starvation protein A; Provisional; Region: sspA; PRK09481 331112009958 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 331112009959 C-terminal domain interface [polypeptide binding]; other site 331112009960 putative GSH binding site (G-site) [chemical binding]; other site 331112009961 dimer interface [polypeptide binding]; other site 331112009962 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 331112009963 dimer interface [polypeptide binding]; other site 331112009964 N-terminal domain interface [polypeptide binding]; other site 331112009965 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 331112009966 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 331112009967 23S rRNA interface [nucleotide binding]; other site 331112009968 L3 interface [polypeptide binding]; other site 331112009969 Predicted ATPase [General function prediction only]; Region: COG1485 331112009970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 331112009971 hypothetical protein; Provisional; Region: PRK11677 331112009972 serine endoprotease; Provisional; Region: PRK10139 331112009973 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 331112009974 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 331112009975 protein binding site [polypeptide binding]; other site 331112009976 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 331112009977 serine endoprotease; Provisional; Region: PRK10898 331112009978 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 331112009979 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 331112009980 malate dehydrogenase; Provisional; Region: PRK05086 331112009981 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 331112009982 NAD binding site [chemical binding]; other site 331112009983 dimerization interface [polypeptide binding]; other site 331112009984 Substrate binding site [chemical binding]; other site 331112009985 arginine repressor; Provisional; Region: PRK05066 331112009986 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 331112009987 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 331112009988 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 331112009989 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 331112009990 RNAase interaction site [polypeptide binding]; other site 331112009991 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 331112009992 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 331112009993 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 331112009994 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112009995 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112009996 efflux system membrane protein; Provisional; Region: PRK11594 331112009997 transcriptional regulator; Provisional; Region: PRK10632 331112009998 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112009999 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 331112010000 putative effector binding pocket; other site 331112010001 dimerization interface [polypeptide binding]; other site 331112010002 protease TldD; Provisional; Region: tldD; PRK10735 331112010003 hypothetical protein; Provisional; Region: PRK10899 331112010004 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 331112010005 ribonuclease G; Provisional; Region: PRK11712 331112010006 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 331112010007 homodimer interface [polypeptide binding]; other site 331112010008 oligonucleotide binding site [chemical binding]; other site 331112010009 Maf-like protein; Region: Maf; pfam02545 331112010010 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 331112010011 active site 331112010012 dimer interface [polypeptide binding]; other site 331112010013 rod shape-determining protein MreD; Provisional; Region: PRK11060 331112010014 rod shape-determining protein MreC; Region: mreC; TIGR00219 331112010015 rod shape-determining protein MreC; Region: MreC; pfam04085 331112010016 rod shape-determining protein MreB; Provisional; Region: PRK13927 331112010017 MreB and similar proteins; Region: MreB_like; cd10225 331112010018 nucleotide binding site [chemical binding]; other site 331112010019 Mg binding site [ion binding]; other site 331112010020 putative protofilament interaction site [polypeptide binding]; other site 331112010021 RodZ interaction site [polypeptide binding]; other site 331112010022 regulatory protein CsrD; Provisional; Region: PRK11059 331112010023 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112010024 metal binding site [ion binding]; metal-binding site 331112010025 active site 331112010026 I-site; other site 331112010027 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 331112010028 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 331112010029 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 331112010030 NADP binding site [chemical binding]; other site 331112010031 dimer interface [polypeptide binding]; other site 331112010032 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 331112010033 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 331112010034 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 331112010035 carboxyltransferase (CT) interaction site; other site 331112010036 biotinylation site [posttranslational modification]; other site 331112010037 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 331112010038 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 331112010039 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 331112010040 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 331112010041 hypothetical protein; Provisional; Region: PRK10633 331112010042 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 331112010043 Na binding site [ion binding]; other site 331112010044 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 331112010045 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 331112010046 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 331112010047 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 331112010048 FMN binding site [chemical binding]; other site 331112010049 active site 331112010050 catalytic residues [active] 331112010051 substrate binding site [chemical binding]; other site 331112010052 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 331112010053 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 331112010054 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 331112010055 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 331112010056 DNA methylase; Region: N6_N4_Mtase; pfam01555 331112010057 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 331112010058 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 331112010059 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112010060 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 331112010061 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 331112010062 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112010063 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112010064 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 331112010065 Protein export membrane protein; Region: SecD_SecF; cl14618 331112010066 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 331112010067 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 331112010068 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 331112010069 substrate binding pocket [chemical binding]; other site 331112010070 membrane-bound complex binding site; other site 331112010071 hinge residues; other site 331112010072 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 331112010073 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 331112010074 conserved gate region; other site 331112010075 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 331112010076 dimer interface [polypeptide binding]; other site 331112010077 conserved gate region; other site 331112010078 putative PBP binding loops; other site 331112010079 ABC-ATPase subunit interface; other site 331112010080 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 331112010081 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 331112010082 Walker A/P-loop; other site 331112010083 ATP binding site [chemical binding]; other site 331112010084 Q-loop/lid; other site 331112010085 ABC transporter signature motif; other site 331112010086 Walker B; other site 331112010087 D-loop; other site 331112010088 H-loop/switch region; other site 331112010089 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 331112010090 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 331112010091 trimer interface [polypeptide binding]; other site 331112010092 putative metal binding site [ion binding]; other site 331112010093 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 331112010094 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 331112010095 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 331112010096 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 331112010097 shikimate binding site; other site 331112010098 NAD(P) binding site [chemical binding]; other site 331112010099 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 331112010100 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331112010101 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 331112010102 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331112010103 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331112010104 hypothetical protein; Validated; Region: PRK03430 331112010105 hypothetical protein; Provisional; Region: PRK10736 331112010106 DNA protecting protein DprA; Region: dprA; TIGR00732 331112010107 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 331112010108 active site 331112010109 catalytic residues [active] 331112010110 metal binding site [ion binding]; metal-binding site 331112010111 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 331112010112 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 331112010113 putative active site [active] 331112010114 substrate binding site [chemical binding]; other site 331112010115 putative cosubstrate binding site; other site 331112010116 catalytic site [active] 331112010117 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 331112010118 substrate binding site [chemical binding]; other site 331112010119 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 331112010120 putative RNA binding site [nucleotide binding]; other site 331112010121 16S rRNA methyltransferase B; Provisional; Region: PRK10901 331112010122 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 331112010123 S-adenosylmethionine binding site [chemical binding]; other site 331112010124 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 331112010125 TrkA-N domain; Region: TrkA_N; pfam02254 331112010126 TrkA-C domain; Region: TrkA_C; pfam02080 331112010127 TrkA-N domain; Region: TrkA_N; pfam02254 331112010128 TrkA-C domain; Region: TrkA_C; pfam02080 331112010129 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 331112010130 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 331112010131 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 331112010132 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 331112010133 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 331112010134 DNA binding residues [nucleotide binding] 331112010135 dimer interface [polypeptide binding]; other site 331112010136 metal binding site [ion binding]; metal-binding site 331112010137 hypothetical protein; Provisional; Region: PRK10203 331112010138 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 331112010139 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 331112010140 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 331112010141 alphaNTD homodimer interface [polypeptide binding]; other site 331112010142 alphaNTD - beta interaction site [polypeptide binding]; other site 331112010143 alphaNTD - beta' interaction site [polypeptide binding]; other site 331112010144 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 331112010145 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 331112010146 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 331112010147 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 331112010148 RNA binding surface [nucleotide binding]; other site 331112010149 30S ribosomal protein S11; Validated; Region: PRK05309 331112010150 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 331112010151 30S ribosomal protein S13; Region: bact_S13; TIGR03631 331112010152 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 331112010153 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 331112010154 SecY translocase; Region: SecY; pfam00344 331112010155 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 331112010156 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 331112010157 23S rRNA binding site [nucleotide binding]; other site 331112010158 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 331112010159 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 331112010160 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 331112010161 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 331112010162 23S rRNA interface [nucleotide binding]; other site 331112010163 5S rRNA interface [nucleotide binding]; other site 331112010164 L27 interface [polypeptide binding]; other site 331112010165 L5 interface [polypeptide binding]; other site 331112010166 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 331112010167 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 331112010168 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 331112010169 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 331112010170 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 331112010171 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 331112010172 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 331112010173 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 331112010174 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 331112010175 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 331112010176 RNA binding site [nucleotide binding]; other site 331112010177 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 331112010178 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 331112010179 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 331112010180 23S rRNA interface [nucleotide binding]; other site 331112010181 putative translocon interaction site; other site 331112010182 signal recognition particle (SRP54) interaction site; other site 331112010183 L23 interface [polypeptide binding]; other site 331112010184 trigger factor interaction site; other site 331112010185 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 331112010186 23S rRNA interface [nucleotide binding]; other site 331112010187 5S rRNA interface [nucleotide binding]; other site 331112010188 putative antibiotic binding site [chemical binding]; other site 331112010189 L25 interface [polypeptide binding]; other site 331112010190 L27 interface [polypeptide binding]; other site 331112010191 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 331112010192 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 331112010193 G-X-X-G motif; other site 331112010194 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 331112010195 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 331112010196 protein-rRNA interface [nucleotide binding]; other site 331112010197 putative translocon binding site; other site 331112010198 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 331112010199 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 331112010200 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 331112010201 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 331112010202 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 331112010203 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 331112010204 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 331112010205 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 331112010206 protein secretion protein GspB; Provisional; Region: PRK09697 331112010207 AAA domain; Region: AAA_22; pfam13401 331112010208 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 331112010209 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 331112010210 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 331112010211 type II secretion system protein D; Region: type_II_gspD; TIGR02517 331112010212 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331112010213 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331112010214 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331112010215 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 331112010216 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 331112010217 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 331112010218 Walker A motif; other site 331112010219 ATP binding site [chemical binding]; other site 331112010220 Walker B motif; other site 331112010221 type II secretion system protein F; Region: GspF; TIGR02120 331112010222 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 331112010223 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 331112010224 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 331112010225 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 331112010226 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 331112010227 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 331112010228 type II secretion system protein I; Region: gspI; TIGR01707 331112010229 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 331112010230 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 331112010231 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 331112010232 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 331112010233 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 331112010234 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 331112010235 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 331112010236 GspL periplasmic domain; Region: GspL_C; pfam12693 331112010237 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 331112010238 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 331112010239 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 331112010240 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 331112010241 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 331112010242 heme binding site [chemical binding]; other site 331112010243 ferroxidase pore; other site 331112010244 ferroxidase diiron center [ion binding]; other site 331112010245 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 331112010246 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 331112010247 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 331112010248 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 331112010249 aromatic chitin/cellulose binding site residues [chemical binding]; other site 331112010250 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 331112010251 active site 331112010252 elongation factor Tu; Reviewed; Region: PRK00049 331112010253 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 331112010254 G1 box; other site 331112010255 GEF interaction site [polypeptide binding]; other site 331112010256 GTP/Mg2+ binding site [chemical binding]; other site 331112010257 Switch I region; other site 331112010258 G2 box; other site 331112010259 G3 box; other site 331112010260 Switch II region; other site 331112010261 G4 box; other site 331112010262 G5 box; other site 331112010263 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 331112010264 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 331112010265 Antibiotic Binding Site [chemical binding]; other site 331112010266 elongation factor G; Reviewed; Region: PRK00007 331112010267 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 331112010268 G1 box; other site 331112010269 putative GEF interaction site [polypeptide binding]; other site 331112010270 GTP/Mg2+ binding site [chemical binding]; other site 331112010271 Switch I region; other site 331112010272 G2 box; other site 331112010273 G3 box; other site 331112010274 Switch II region; other site 331112010275 G4 box; other site 331112010276 G5 box; other site 331112010277 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 331112010278 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 331112010279 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 331112010280 30S ribosomal protein S7; Validated; Region: PRK05302 331112010281 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 331112010282 S17 interaction site [polypeptide binding]; other site 331112010283 S8 interaction site; other site 331112010284 16S rRNA interaction site [nucleotide binding]; other site 331112010285 streptomycin interaction site [chemical binding]; other site 331112010286 23S rRNA interaction site [nucleotide binding]; other site 331112010287 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 331112010288 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 331112010289 sulfur relay protein TusC; Validated; Region: PRK00211 331112010290 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 331112010291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 331112010292 YheO-like PAS domain; Region: PAS_6; pfam08348 331112010293 HTH domain; Region: HTH_22; pfam13309 331112010294 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 331112010295 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 331112010296 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 331112010297 phi X174 lysis protein; Provisional; Region: PRK02793 331112010298 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 331112010299 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 331112010300 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 331112010301 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 331112010302 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 331112010303 TrkA-N domain; Region: TrkA_N; pfam02254 331112010304 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 331112010305 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 331112010306 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112010307 Walker A/P-loop; other site 331112010308 ATP binding site [chemical binding]; other site 331112010309 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 331112010310 ABC transporter signature motif; other site 331112010311 Walker B; other site 331112010312 D-loop; other site 331112010313 ABC transporter; Region: ABC_tran_2; pfam12848 331112010314 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 331112010315 putative hydrolase; Provisional; Region: PRK10985 331112010316 hypothetical protein; Provisional; Region: PRK04966 331112010317 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 331112010318 active site 331112010319 hypothetical protein; Provisional; Region: PRK10738 331112010320 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 331112010321 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 331112010322 ligand binding site [chemical binding]; other site 331112010323 flexible hinge region; other site 331112010324 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 331112010325 putative switch regulator; other site 331112010326 non-specific DNA interactions [nucleotide binding]; other site 331112010327 DNA binding site [nucleotide binding] 331112010328 sequence specific DNA binding site [nucleotide binding]; other site 331112010329 putative cAMP binding site [chemical binding]; other site 331112010330 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 331112010331 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 331112010332 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 331112010333 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 331112010334 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 331112010335 inhibitor-cofactor binding pocket; inhibition site 331112010336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112010337 catalytic residue [active] 331112010338 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 331112010339 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 331112010340 glutamine binding [chemical binding]; other site 331112010341 catalytic triad [active] 331112010342 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 331112010343 cell filamentation protein Fic; Provisional; Region: PRK10347 331112010344 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 331112010345 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 331112010346 substrate binding site [chemical binding]; other site 331112010347 putative transporter; Provisional; Region: PRK03699 331112010348 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112010349 putative substrate translocation pore; other site 331112010350 nitrite reductase subunit NirD; Provisional; Region: PRK14989 331112010351 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112010352 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 331112010353 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 331112010354 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 331112010355 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 331112010356 nitrite transporter NirC; Provisional; Region: PRK11562 331112010357 siroheme synthase; Provisional; Region: cysG; PRK10637 331112010358 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 331112010359 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 331112010360 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 331112010361 active site 331112010362 SAM binding site [chemical binding]; other site 331112010363 homodimer interface [polypeptide binding]; other site 331112010364 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 331112010365 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 331112010366 hypothetical protein; Provisional; Region: PHA02764 331112010367 fructoselysine-6-P-deglycase; Provisional; Region: frlB; PRK11382 331112010368 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 331112010369 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 331112010370 dimer interface [polypeptide binding]; other site 331112010371 active site 331112010372 fructoselysine 3-epimerase; Provisional; Region: PRK09856 331112010373 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 331112010374 AP (apurinic/apyrimidinic) site pocket; other site 331112010375 DNA interaction; other site 331112010376 Metal-binding active site; metal-binding site 331112010377 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 331112010378 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 331112010379 substrate binding site [chemical binding]; other site 331112010380 ATP binding site [chemical binding]; other site 331112010381 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 331112010382 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112010383 DNA-binding site [nucleotide binding]; DNA binding site 331112010384 UTRA domain; Region: UTRA; pfam07702 331112010385 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 331112010386 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 331112010387 Protein of unknown function; Region: YhfT; pfam10797 331112010388 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 331112010389 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 331112010390 active site 331112010391 substrate binding pocket [chemical binding]; other site 331112010392 homodimer interaction site [polypeptide binding]; other site 331112010393 putative mutase; Provisional; Region: PRK12383 331112010394 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; COG1015 331112010395 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 331112010396 dimer interface [polypeptide binding]; other site 331112010397 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 331112010398 active site 331112010399 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 331112010400 substrate binding site [chemical binding]; other site 331112010401 catalytic residue [active] 331112010402 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 331112010403 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 331112010404 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 331112010405 active site 331112010406 HIGH motif; other site 331112010407 dimer interface [polypeptide binding]; other site 331112010408 KMSKS motif; other site 331112010409 phosphoglycolate phosphatase; Provisional; Region: PRK13222 331112010410 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 331112010411 motif II; other site 331112010412 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 331112010413 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 331112010414 substrate binding site [chemical binding]; other site 331112010415 hexamer interface [polypeptide binding]; other site 331112010416 metal binding site [ion binding]; metal-binding site 331112010417 DNA adenine methylase; Provisional; Region: PRK10904 331112010418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 331112010419 cell division protein DamX; Validated; Region: PRK10905 331112010420 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 331112010421 active site 331112010422 dimer interface [polypeptide binding]; other site 331112010423 metal binding site [ion binding]; metal-binding site 331112010424 shikimate kinase; Reviewed; Region: aroK; PRK00131 331112010425 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 331112010426 ADP binding site [chemical binding]; other site 331112010427 magnesium binding site [ion binding]; other site 331112010428 putative shikimate binding site; other site 331112010429 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 331112010430 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331112010431 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 331112010432 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 331112010433 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 331112010434 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 331112010435 Transglycosylase; Region: Transgly; pfam00912 331112010436 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 331112010437 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 331112010438 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 331112010439 ADP-ribose binding site [chemical binding]; other site 331112010440 dimer interface [polypeptide binding]; other site 331112010441 active site 331112010442 nudix motif; other site 331112010443 metal binding site [ion binding]; metal-binding site 331112010444 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 331112010445 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 331112010446 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 331112010447 motif II; other site 331112010448 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 331112010449 RNA binding surface [nucleotide binding]; other site 331112010450 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 331112010451 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 331112010452 dimerization interface [polypeptide binding]; other site 331112010453 domain crossover interface; other site 331112010454 redox-dependent activation switch; other site 331112010455 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 331112010456 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 331112010457 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 331112010458 active site 331112010459 substrate-binding site [chemical binding]; other site 331112010460 metal-binding site [ion binding] 331112010461 ATP binding site [chemical binding]; other site 331112010462 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 331112010463 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 331112010464 dimerization interface [polypeptide binding]; other site 331112010465 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 331112010466 dimer interface [polypeptide binding]; other site 331112010467 phosphorylation site [posttranslational modification] 331112010468 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 331112010469 ATP binding site [chemical binding]; other site 331112010470 G-X-G motif; other site 331112010471 osmolarity response regulator; Provisional; Region: ompR; PRK09468 331112010472 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 331112010473 active site 331112010474 phosphorylation site [posttranslational modification] 331112010475 intermolecular recognition site; other site 331112010476 dimerization interface [polypeptide binding]; other site 331112010477 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 331112010478 DNA binding site [nucleotide binding] 331112010479 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 331112010480 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 331112010481 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 331112010482 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 331112010483 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 331112010484 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 331112010485 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 331112010486 RNA binding site [nucleotide binding]; other site 331112010487 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 331112010488 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 331112010489 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 331112010490 G1 box; other site 331112010491 GTP/Mg2+ binding site [chemical binding]; other site 331112010492 Switch I region; other site 331112010493 G2 box; other site 331112010494 G3 box; other site 331112010495 Switch II region; other site 331112010496 G4 box; other site 331112010497 G5 box; other site 331112010498 Nucleoside recognition; Region: Gate; pfam07670 331112010499 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 331112010500 Nucleoside recognition; Region: Gate; pfam07670 331112010501 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 331112010502 putative transposase; Provisional; Region: PRK09857 331112010503 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 331112010504 carboxylesterase BioH; Provisional; Region: PRK10349 331112010505 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 331112010506 DNA utilization protein GntX; Provisional; Region: PRK11595 331112010507 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331112010508 active site 331112010509 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 331112010510 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 331112010511 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 331112010512 high-affinity gluconate transporter; Provisional; Region: PRK14984 331112010513 gluconate transporter; Region: gntP; TIGR00791 331112010514 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 331112010515 4-alpha-glucanotransferase; Region: malQ; TIGR00217 331112010516 maltodextrin phosphorylase; Provisional; Region: PRK14985 331112010517 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 331112010518 homodimer interface [polypeptide binding]; other site 331112010519 active site pocket [active] 331112010520 transcriptional regulator MalT; Provisional; Region: PRK04841 331112010521 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 331112010522 DNA binding residues [nucleotide binding] 331112010523 dimerization interface [polypeptide binding]; other site 331112010524 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 331112010525 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 331112010526 putative active site [active] 331112010527 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 331112010528 hypothetical protein; Reviewed; Region: PRK09588 331112010529 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 331112010530 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 331112010531 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 331112010532 Walker A motif; other site 331112010533 ATP binding site [chemical binding]; other site 331112010534 Walker B motif; other site 331112010535 arginine finger; other site 331112010536 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 331112010537 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 331112010538 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 331112010539 intramembrane serine protease GlpG; Provisional; Region: PRK10907 331112010540 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 331112010541 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 331112010542 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 331112010543 active site residue [active] 331112010544 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 331112010545 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 331112010546 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 331112010547 glycogen phosphorylase; Provisional; Region: PRK14986 331112010548 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 331112010549 homodimer interface [polypeptide binding]; other site 331112010550 active site pocket [active] 331112010551 glycogen synthase; Provisional; Region: glgA; PRK00654 331112010552 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 331112010553 ADP-binding pocket [chemical binding]; other site 331112010554 homodimer interface [polypeptide binding]; other site 331112010555 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 331112010556 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 331112010557 ligand binding site; other site 331112010558 oligomer interface; other site 331112010559 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 331112010560 sulfate 1 binding site; other site 331112010561 glycogen debranching enzyme; Provisional; Region: PRK03705 331112010562 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 331112010563 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 331112010564 active site 331112010565 catalytic site [active] 331112010566 glycogen branching enzyme; Provisional; Region: PRK05402 331112010567 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 331112010568 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 331112010569 active site 331112010570 catalytic site [active] 331112010571 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 331112010572 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 331112010573 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 331112010574 putative antibiotic transporter; Provisional; Region: PRK10739 331112010575 low affinity gluconate transporter; Provisional; Region: PRK10472 331112010576 gluconate transporter; Region: gntP; TIGR00791 331112010577 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 331112010578 ATP-binding site [chemical binding]; other site 331112010579 Gluconate-6-phosphate binding site [chemical binding]; other site 331112010580 Shikimate kinase; Region: SKI; pfam01202 331112010581 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 331112010582 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112010583 DNA binding site [nucleotide binding] 331112010584 domain linker motif; other site 331112010585 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 331112010586 putative ligand binding site [chemical binding]; other site 331112010587 putative dimerization interface [polypeptide binding]; other site 331112010588 Pirin-related protein [General function prediction only]; Region: COG1741 331112010589 Pirin; Region: Pirin; pfam02678 331112010590 putative oxidoreductase; Provisional; Region: PRK10206 331112010591 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 331112010592 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 331112010593 putative acetyltransferase YhhY; Provisional; Region: PRK10140 331112010594 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112010595 Coenzyme A binding pocket [chemical binding]; other site 331112010596 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 331112010597 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 331112010598 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 331112010599 hypothetical protein; Provisional; Region: PRK10350 331112010600 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 331112010601 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 331112010602 putative active site [active] 331112010603 catalytic site [active] 331112010604 putative metal binding site [ion binding]; other site 331112010605 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 331112010606 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 331112010607 Walker A/P-loop; other site 331112010608 ATP binding site [chemical binding]; other site 331112010609 Q-loop/lid; other site 331112010610 ABC transporter signature motif; other site 331112010611 Walker B; other site 331112010612 D-loop; other site 331112010613 H-loop/switch region; other site 331112010614 TOBE domain; Region: TOBE_2; pfam08402 331112010615 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 331112010616 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 331112010617 dimer interface [polypeptide binding]; other site 331112010618 conserved gate region; other site 331112010619 putative PBP binding loops; other site 331112010620 ABC-ATPase subunit interface; other site 331112010621 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 331112010622 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 331112010623 dimer interface [polypeptide binding]; other site 331112010624 conserved gate region; other site 331112010625 putative PBP binding loops; other site 331112010626 ABC-ATPase subunit interface; other site 331112010627 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 331112010628 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 331112010629 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 331112010630 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 331112010631 Walker A/P-loop; other site 331112010632 ATP binding site [chemical binding]; other site 331112010633 Q-loop/lid; other site 331112010634 ABC transporter signature motif; other site 331112010635 Walker B; other site 331112010636 D-loop; other site 331112010637 H-loop/switch region; other site 331112010638 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 331112010639 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 331112010640 Walker A/P-loop; other site 331112010641 ATP binding site [chemical binding]; other site 331112010642 Q-loop/lid; other site 331112010643 ABC transporter signature motif; other site 331112010644 Walker B; other site 331112010645 D-loop; other site 331112010646 H-loop/switch region; other site 331112010647 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 331112010648 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 331112010649 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 331112010650 TM-ABC transporter signature motif; other site 331112010651 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112010652 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 331112010653 TM-ABC transporter signature motif; other site 331112010654 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 331112010655 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 331112010656 dimerization interface [polypeptide binding]; other site 331112010657 ligand binding site [chemical binding]; other site 331112010658 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 331112010659 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 331112010660 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 331112010661 dimerization interface [polypeptide binding]; other site 331112010662 ligand binding site [chemical binding]; other site 331112010663 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 331112010664 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 331112010665 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 331112010666 DNA binding residues [nucleotide binding] 331112010667 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 331112010668 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 331112010669 cell division protein FtsE; Provisional; Region: PRK10908 331112010670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112010671 Walker A/P-loop; other site 331112010672 ATP binding site [chemical binding]; other site 331112010673 Q-loop/lid; other site 331112010674 ABC transporter signature motif; other site 331112010675 Walker B; other site 331112010676 D-loop; other site 331112010677 H-loop/switch region; other site 331112010678 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 331112010679 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 331112010680 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 331112010681 P loop; other site 331112010682 GTP binding site [chemical binding]; other site 331112010683 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 331112010684 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 331112010685 S-adenosylmethionine binding site [chemical binding]; other site 331112010686 hypothetical protein; Provisional; Region: PRK10910 331112010687 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 331112010688 Predicted membrane protein [Function unknown]; Region: COG3714 331112010689 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 331112010690 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 331112010691 metal-binding site [ion binding] 331112010692 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 331112010693 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 331112010694 CPxP motif; other site 331112010695 hypothetical protein; Provisional; Region: PRK11212 331112010696 hypothetical protein; Provisional; Region: PRK11615 331112010697 major facilitator superfamily transporter; Provisional; Region: PRK05122 331112010698 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112010699 putative substrate translocation pore; other site 331112010700 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 331112010701 Domain of unknown function DUF20; Region: UPF0118; pfam01594 331112010702 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 331112010703 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 331112010704 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 331112010705 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 331112010706 substrate binding site [chemical binding]; other site 331112010707 nickel transporter permease NikB; Provisional; Region: PRK10352 331112010708 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 331112010709 dimer interface [polypeptide binding]; other site 331112010710 conserved gate region; other site 331112010711 putative PBP binding loops; other site 331112010712 ABC-ATPase subunit interface; other site 331112010713 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 331112010714 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 331112010715 dimer interface [polypeptide binding]; other site 331112010716 conserved gate region; other site 331112010717 putative PBP binding loops; other site 331112010718 ABC-ATPase subunit interface; other site 331112010719 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 331112010720 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112010721 Walker A/P-loop; other site 331112010722 ATP binding site [chemical binding]; other site 331112010723 Q-loop/lid; other site 331112010724 ABC transporter signature motif; other site 331112010725 Walker B; other site 331112010726 D-loop; other site 331112010727 H-loop/switch region; other site 331112010728 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331112010729 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 331112010730 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112010731 Walker A/P-loop; other site 331112010732 ATP binding site [chemical binding]; other site 331112010733 Q-loop/lid; other site 331112010734 ABC transporter signature motif; other site 331112010735 Walker B; other site 331112010736 D-loop; other site 331112010737 H-loop/switch region; other site 331112010738 nickel responsive regulator; Provisional; Region: PRK02967 331112010739 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 331112010740 PAAR motif; Region: PAAR_motif; cl15808 331112010741 RHS Repeat; Region: RHS_repeat; pfam05593 331112010742 RHS Repeat; Region: RHS_repeat; pfam05593 331112010743 RHS Repeat; Region: RHS_repeat; pfam05593 331112010744 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 331112010745 RHS Repeat; Region: RHS_repeat; pfam05593 331112010746 RHS Repeat; Region: RHS_repeat; pfam05593 331112010747 RHS protein; Region: RHS; pfam03527 331112010748 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 331112010749 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 331112010750 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 331112010751 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 331112010752 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 331112010753 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 331112010754 Walker A/P-loop; other site 331112010755 ATP binding site [chemical binding]; other site 331112010756 Q-loop/lid; other site 331112010757 ABC transporter signature motif; other site 331112010758 Walker B; other site 331112010759 D-loop; other site 331112010760 H-loop/switch region; other site 331112010761 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 331112010762 Walker A/P-loop; other site 331112010763 ATP binding site [chemical binding]; other site 331112010764 Q-loop/lid; other site 331112010765 ABC transporter signature motif; other site 331112010766 Walker B; other site 331112010767 D-loop; other site 331112010768 H-loop/switch region; other site 331112010769 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 331112010770 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 331112010771 HlyD family secretion protein; Region: HlyD; pfam00529 331112010772 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112010773 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112010774 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 331112010775 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 331112010776 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 331112010777 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 331112010778 Predicted flavoproteins [General function prediction only]; Region: COG2081 331112010779 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 331112010780 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 331112010781 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 331112010782 universal stress protein UspB; Provisional; Region: PRK04960 331112010783 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 331112010784 Ligand Binding Site [chemical binding]; other site 331112010785 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 331112010786 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112010787 POT family; Region: PTR2; pfam00854 331112010788 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 331112010789 S-adenosylmethionine binding site [chemical binding]; other site 331112010790 oligopeptidase A; Provisional; Region: PRK10911 331112010791 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 331112010792 active site 331112010793 Zn binding site [ion binding]; other site 331112010794 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 331112010795 glutathione reductase; Validated; Region: PRK06116 331112010796 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 331112010797 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112010798 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 331112010799 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 331112010800 dimerization interface [polypeptide binding]; other site 331112010801 putative DNA binding site [nucleotide binding]; other site 331112010802 putative Zn2+ binding site [ion binding]; other site 331112010803 arsenical pump membrane protein; Provisional; Region: PRK15445 331112010804 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 331112010805 transmembrane helices; other site 331112010806 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 331112010807 ArsC family; Region: ArsC; pfam03960 331112010808 catalytic residues [active] 331112010809 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 331112010810 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 331112010811 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 331112010812 DNA binding residues [nucleotide binding] 331112010813 dimerization interface [polypeptide binding]; other site 331112010814 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 331112010815 MgtC family; Region: MgtC; pfam02308 331112010816 acid-resistance protein; Provisional; Region: hdeB; PRK11566 331112010817 acid-resistance protein; Provisional; Region: PRK10208 331112010818 acid-resistance membrane protein; Provisional; Region: PRK10209 331112010819 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 331112010820 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 331112010821 pyruvate kinase; Provisional; Region: PRK05826 331112010822 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 331112010823 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112010824 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112010825 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 331112010826 Protein export membrane protein; Region: SecD_SecF; cl14618 331112010827 transcriptional regulator YdeO; Provisional; Region: PRK09940 331112010828 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112010829 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 331112010830 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112010831 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 331112010832 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112010833 catalytic residue [active] 331112010834 Haem-binding domain; Region: Haem_bd; pfam14376 331112010835 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 331112010836 trehalase; Provisional; Region: treF; PRK13270 331112010837 Trehalase; Region: Trehalase; pfam01204 331112010838 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 331112010839 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 331112010840 DNA binding residues [nucleotide binding] 331112010841 dimerization interface [polypeptide binding]; other site 331112010842 Transcriptional regulator [Transcription]; Region: LysR; COG0583 331112010843 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112010844 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 331112010845 putative effector binding pocket; other site 331112010846 putative dimerization interface [polypeptide binding]; other site 331112010847 inner membrane protein YhjD; Region: TIGR00766 331112010848 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112010849 metabolite-proton symporter; Region: 2A0106; TIGR00883 331112010850 putative substrate translocation pore; other site 331112010851 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 331112010852 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 331112010853 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 331112010854 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 331112010855 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 331112010856 substrate binding site [chemical binding]; other site 331112010857 ATP binding site [chemical binding]; other site 331112010858 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 331112010859 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331112010860 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 331112010861 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 331112010862 putative diguanylate cyclase; Provisional; Region: PRK13561 331112010863 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 331112010864 metal binding site [ion binding]; metal-binding site 331112010865 active site 331112010866 I-site; other site 331112010867 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 331112010868 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 331112010869 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 331112010870 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 331112010871 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 331112010872 serine transporter; Region: stp; TIGR00814 331112010873 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 331112010874 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112010875 Walker A/P-loop; other site 331112010876 ATP binding site [chemical binding]; other site 331112010877 Q-loop/lid; other site 331112010878 ABC transporter signature motif; other site 331112010879 Walker B; other site 331112010880 D-loop; other site 331112010881 H-loop/switch region; other site 331112010882 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 331112010883 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 331112010884 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112010885 Walker A/P-loop; other site 331112010886 ATP binding site [chemical binding]; other site 331112010887 Q-loop/lid; other site 331112010888 ABC transporter signature motif; other site 331112010889 Walker B; other site 331112010890 D-loop; other site 331112010891 H-loop/switch region; other site 331112010892 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 331112010893 dipeptide transporter; Provisional; Region: PRK10913 331112010894 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 331112010895 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 331112010896 dimer interface [polypeptide binding]; other site 331112010897 conserved gate region; other site 331112010898 putative PBP binding loops; other site 331112010899 ABC-ATPase subunit interface; other site 331112010900 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 331112010901 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 331112010902 dimer interface [polypeptide binding]; other site 331112010903 conserved gate region; other site 331112010904 putative PBP binding loops; other site 331112010905 ABC-ATPase subunit interface; other site 331112010906 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 331112010907 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 331112010908 peptide binding site [polypeptide binding]; other site 331112010909 phosphoethanolamine transferase; Provisional; Region: PRK11560 331112010910 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 331112010911 Sulfatase; Region: Sulfatase; pfam00884 331112010912 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 331112010913 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112010914 putative substrate translocation pore; other site 331112010915 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 331112010916 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 331112010917 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 331112010918 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112010919 Coenzyme A binding pocket [chemical binding]; other site 331112010920 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 331112010921 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 331112010922 molybdopterin cofactor binding site [chemical binding]; other site 331112010923 substrate binding site [chemical binding]; other site 331112010924 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 331112010925 molybdopterin cofactor binding site; other site 331112010926 putative outer membrane lipoprotein; Provisional; Region: PRK10510 331112010927 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 331112010928 ligand binding site [chemical binding]; other site 331112010929 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 331112010930 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 331112010931 dimerization interface [polypeptide binding]; other site 331112010932 ligand binding site [chemical binding]; other site 331112010933 NADP binding site [chemical binding]; other site 331112010934 catalytic site [active] 331112010935 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 331112010936 Predicted transcriptional regulator [Transcription]; Region: COG2944 331112010937 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 331112010938 non-specific DNA binding site [nucleotide binding]; other site 331112010939 salt bridge; other site 331112010940 sequence-specific DNA binding site [nucleotide binding]; other site 331112010941 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 331112010942 DNA-binding site [nucleotide binding]; DNA binding site 331112010943 RNA-binding motif; other site 331112010944 small toxic polypeptide; Provisional; Region: PRK09759 331112010945 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112010946 Helix-turn-helix domain; Region: HTH_28; pfam13518 331112010947 Helix-turn-helix domain; Region: HTH_28; pfam13518 331112010948 putative transposase OrfB; Reviewed; Region: PHA02517 331112010949 HTH-like domain; Region: HTH_21; pfam13276 331112010950 Integrase core domain; Region: rve; pfam00665 331112010951 Integrase core domain; Region: rve_2; pfam13333 331112010952 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 331112010953 DALR anticodon binding domain; Region: DALR_1; pfam05746 331112010954 anticodon binding site; other site 331112010955 tRNA binding surface [nucleotide binding]; other site 331112010956 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 331112010957 dimer interface [polypeptide binding]; other site 331112010958 motif 1; other site 331112010959 active site 331112010960 motif 2; other site 331112010961 motif 3; other site 331112010962 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 331112010963 YsaB-like lipoprotein; Region: YsaB; pfam13983 331112010964 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 331112010965 Acyltransferase family; Region: Acyl_transf_3; pfam01757 331112010966 hypothetical protein; Provisional; Region: PRK11383 331112010967 yiaA/B two helix domain; Region: YiaAB; pfam05360 331112010968 yiaA/B two helix domain; Region: YiaAB; pfam05360 331112010969 hypothetical protein; Provisional; Region: PRK11403 331112010970 yiaA/B two helix domain; Region: YiaAB; pfam05360 331112010971 xylulokinase; Provisional; Region: PRK15027 331112010972 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 331112010973 N- and C-terminal domain interface [polypeptide binding]; other site 331112010974 active site 331112010975 MgATP binding site [chemical binding]; other site 331112010976 catalytic site [active] 331112010977 metal binding site [ion binding]; metal-binding site 331112010978 xylulose binding site [chemical binding]; other site 331112010979 homodimer interface [polypeptide binding]; other site 331112010980 xylose isomerase; Provisional; Region: PRK05474 331112010981 xylose isomerase; Region: xylose_isom_A; TIGR02630 331112010982 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 331112010983 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 331112010984 putative ligand binding site [chemical binding]; other site 331112010985 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 331112010986 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 331112010987 Walker A/P-loop; other site 331112010988 ATP binding site [chemical binding]; other site 331112010989 Q-loop/lid; other site 331112010990 ABC transporter signature motif; other site 331112010991 Walker B; other site 331112010992 D-loop; other site 331112010993 H-loop/switch region; other site 331112010994 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 331112010995 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112010996 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 331112010997 TM-ABC transporter signature motif; other site 331112010998 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 331112010999 putative dimerization interface [polypeptide binding]; other site 331112011000 Transcriptional regulators [Transcription]; Region: PurR; COG1609 331112011001 putative ligand binding site [chemical binding]; other site 331112011002 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112011003 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 331112011004 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112011005 hypothetical protein; Provisional; Region: PRK10356 331112011006 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 331112011007 alpha-amylase; Reviewed; Region: malS; PRK09505 331112011008 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 331112011009 active site 331112011010 catalytic site [active] 331112011011 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 331112011012 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 331112011013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112011014 homodimer interface [polypeptide binding]; other site 331112011015 catalytic residue [active] 331112011016 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 331112011017 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 331112011018 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 331112011019 Transcriptional regulator [Transcription]; Region: IclR; COG1414 331112011020 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 331112011021 Bacterial transcriptional regulator; Region: IclR; pfam01614 331112011022 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 331112011023 Domain of unknown function (DUF386); Region: DUF386; cl01047 331112011024 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM; Provisional; Region: PRK09877 331112011025 L-dehydroascorbate transporter large permease subunit; Provisional; Region: PRK15060 331112011026 DctM-like transporters; Region: DctM; pfam06808 331112011027 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 331112011028 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 331112011029 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 331112011030 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 331112011031 putative N- and C-terminal domain interface [polypeptide binding]; other site 331112011032 putative active site [active] 331112011033 MgATP binding site [chemical binding]; other site 331112011034 catalytic site [active] 331112011035 metal binding site [ion binding]; metal-binding site 331112011036 putative xylulose binding site [chemical binding]; other site 331112011037 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 331112011038 active site 331112011039 dimer interface [polypeptide binding]; other site 331112011040 magnesium binding site [ion binding]; other site 331112011041 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 331112011042 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 331112011043 AP (apurinic/apyrimidinic) site pocket; other site 331112011044 DNA interaction; other site 331112011045 Metal-binding active site; metal-binding site 331112011046 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 331112011047 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 331112011048 intersubunit interface [polypeptide binding]; other site 331112011049 active site 331112011050 Zn2+ binding site [ion binding]; other site 331112011051 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 331112011052 Transcriptional regulator [Transcription]; Region: LysR; COG0583 331112011053 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112011054 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 331112011055 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 331112011056 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112011057 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112011058 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 331112011059 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 331112011060 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 331112011061 NAD(P) binding site [chemical binding]; other site 331112011062 catalytic residues [active] 331112011063 putative alcohol dehydrogenase; Provisional; Region: PRK09860 331112011064 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 331112011065 dimer interface [polypeptide binding]; other site 331112011066 active site 331112011067 metal binding site [ion binding]; metal-binding site 331112011068 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 331112011069 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 331112011070 G1 box; other site 331112011071 putative GEF interaction site [polypeptide binding]; other site 331112011072 GTP/Mg2+ binding site [chemical binding]; other site 331112011073 Switch I region; other site 331112011074 G2 box; other site 331112011075 G3 box; other site 331112011076 Switch II region; other site 331112011077 G4 box; other site 331112011078 G5 box; other site 331112011079 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 331112011080 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 331112011081 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 331112011082 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 331112011083 selenocysteine synthase; Provisional; Region: PRK04311 331112011084 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 331112011085 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 331112011086 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331112011087 catalytic residue [active] 331112011088 putative glutathione S-transferase; Provisional; Region: PRK10357 331112011089 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 331112011090 putative C-terminal domain interface [polypeptide binding]; other site 331112011091 putative GSH binding site (G-site) [chemical binding]; other site 331112011092 putative dimer interface [polypeptide binding]; other site 331112011093 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 331112011094 dimer interface [polypeptide binding]; other site 331112011095 N-terminal domain interface [polypeptide binding]; other site 331112011096 putative substrate binding pocket (H-site) [chemical binding]; other site 331112011097 putative lyase; Provisional; Region: PRK09687 331112011098 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 331112011099 RHS protein; Region: RHS; pfam03527 331112011100 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 331112011101 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 331112011102 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112011103 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112011104 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 331112011105 Pleckstrin homology-like domain; Region: PH-like; cl17171 331112011106 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 331112011107 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 331112011108 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 331112011109 active site 331112011110 P-loop; other site 331112011111 phosphorylation site [posttranslational modification] 331112011112 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 331112011113 active site 331112011114 phosphorylation site [posttranslational modification] 331112011115 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 331112011116 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 331112011117 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 331112011118 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 331112011119 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 331112011120 hypothetical protein; Provisional; Region: PRK11020 331112011121 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 331112011122 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 331112011123 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 331112011124 trimer interface [polypeptide binding]; other site 331112011125 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 331112011126 trimer interface [polypeptide binding]; other site 331112011127 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 331112011128 Haemagglutinin; Region: HIM; pfam05662 331112011129 Haemagglutinin; Region: HIM; pfam05662 331112011130 YadA-like C-terminal region; Region: YadA; pfam03895 331112011131 L-lactate permease; Provisional; Region: PRK10420 331112011132 glycolate transporter; Provisional; Region: PRK09695 331112011133 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 331112011134 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112011135 DNA-binding site [nucleotide binding]; DNA binding site 331112011136 FCD domain; Region: FCD; pfam07729 331112011137 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 331112011138 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 331112011139 phosphate binding site [ion binding]; other site 331112011140 putative rRNA methylase; Provisional; Region: PRK10358 331112011141 serine acetyltransferase; Provisional; Region: cysE; PRK11132 331112011142 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 331112011143 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 331112011144 trimer interface [polypeptide binding]; other site 331112011145 active site 331112011146 substrate binding site [chemical binding]; other site 331112011147 CoA binding site [chemical binding]; other site 331112011148 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 331112011149 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 331112011150 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 331112011151 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 331112011152 SecA binding site; other site 331112011153 Preprotein binding site; other site 331112011154 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 331112011155 GSH binding site [chemical binding]; other site 331112011156 catalytic residues [active] 331112011157 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 331112011158 active site residue [active] 331112011159 phosphoglyceromutase; Provisional; Region: PRK05434 331112011160 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 331112011161 AmiB activator; Provisional; Region: PRK11637 331112011162 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 331112011163 Peptidase family M23; Region: Peptidase_M23; pfam01551 331112011164 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 331112011165 NodB motif; other site 331112011166 putative active site [active] 331112011167 putative catalytic site [active] 331112011168 Zn binding site [ion binding]; other site 331112011169 putative glycosyl transferase; Provisional; Region: PRK10073 331112011170 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 331112011171 active site 331112011172 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 331112011173 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 331112011174 NAD(P) binding site [chemical binding]; other site 331112011175 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 331112011176 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 331112011177 substrate-cofactor binding pocket; other site 331112011178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112011179 catalytic residue [active] 331112011180 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 331112011181 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 331112011182 NADP binding site [chemical binding]; other site 331112011183 homopentamer interface [polypeptide binding]; other site 331112011184 substrate binding site [chemical binding]; other site 331112011185 active site 331112011186 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 331112011187 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 331112011188 putative active site [active] 331112011189 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 331112011190 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 331112011191 putative active site [active] 331112011192 O-Antigen ligase; Region: Wzy_C; pfam04932 331112011193 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 331112011194 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 331112011195 active site 331112011196 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 331112011197 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 331112011198 Ligand binding site; other site 331112011199 metal-binding site 331112011200 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 331112011201 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; pfam06176 331112011202 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 331112011203 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 331112011204 Ligand binding site; other site 331112011205 metal-binding site 331112011206 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 331112011207 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 331112011208 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 331112011209 Ligand binding site; other site 331112011210 metal-binding site 331112011211 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 331112011212 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 331112011213 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 331112011214 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 331112011215 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 331112011216 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 331112011217 putative active site [active] 331112011218 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 331112011219 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 331112011220 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 331112011221 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 331112011222 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 331112011223 active site 331112011224 (T/H)XGH motif; other site 331112011225 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 331112011226 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 331112011227 DNA binding site [nucleotide binding] 331112011228 catalytic residue [active] 331112011229 H2TH interface [polypeptide binding]; other site 331112011230 putative catalytic residues [active] 331112011231 turnover-facilitating residue; other site 331112011232 intercalation triad [nucleotide binding]; other site 331112011233 8OG recognition residue [nucleotide binding]; other site 331112011234 putative reading head residues; other site 331112011235 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 331112011236 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 331112011237 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 331112011238 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 331112011239 hypothetical protein; Reviewed; Region: PRK00024 331112011240 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 331112011241 MPN+ (JAMM) motif; other site 331112011242 Zinc-binding site [ion binding]; other site 331112011243 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 331112011244 Flavoprotein; Region: Flavoprotein; pfam02441 331112011245 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 331112011246 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 331112011247 trimer interface [polypeptide binding]; other site 331112011248 active site 331112011249 division inhibitor protein; Provisional; Region: slmA; PRK09480 331112011250 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112011251 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331112011252 active site 331112011253 ribonuclease PH; Reviewed; Region: rph; PRK00173 331112011254 Ribonuclease PH; Region: RNase_PH_bact; cd11362 331112011255 hexamer interface [polypeptide binding]; other site 331112011256 active site 331112011257 hypothetical protein; Provisional; Region: PRK11820 331112011258 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 331112011259 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 331112011260 Predicted membrane protein [Function unknown]; Region: COG2860 331112011261 UPF0126 domain; Region: UPF0126; pfam03458 331112011262 UPF0126 domain; Region: UPF0126; pfam03458 331112011263 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 331112011264 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 331112011265 nucleotide binding pocket [chemical binding]; other site 331112011266 K-X-D-G motif; other site 331112011267 catalytic site [active] 331112011268 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 331112011269 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 331112011270 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 331112011271 catalytic site [active] 331112011272 G-X2-G-X-G-K; other site 331112011273 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 331112011274 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 331112011275 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 331112011276 Zn2+ binding site [ion binding]; other site 331112011277 Mg2+ binding site [ion binding]; other site 331112011278 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 331112011279 synthetase active site [active] 331112011280 NTP binding site [chemical binding]; other site 331112011281 metal binding site [ion binding]; metal-binding site 331112011282 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 331112011283 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 331112011284 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 331112011285 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 331112011286 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 331112011287 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 331112011288 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 331112011289 generic binding surface II; other site 331112011290 ssDNA binding site; other site 331112011291 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 331112011292 ATP binding site [chemical binding]; other site 331112011293 putative Mg++ binding site [ion binding]; other site 331112011294 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 331112011295 nucleotide binding region [chemical binding]; other site 331112011296 ATP-binding site [chemical binding]; other site 331112011297 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 331112011298 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 331112011299 AsmA family; Region: AsmA; pfam05170 331112011300 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 331112011301 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 331112011302 putative alpha-glucosidase; Provisional; Region: PRK10658 331112011303 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 331112011304 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 331112011305 active site 331112011306 homotrimer interface [polypeptide binding]; other site 331112011307 catalytic site [active] 331112011308 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 331112011309 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 331112011310 putative transporter; Provisional; Region: PRK11462 331112011311 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 331112011312 sugar efflux transporter; Region: 2A0120; TIGR00899 331112011313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112011314 putative substrate translocation pore; other site 331112011315 EamA-like transporter family; Region: EamA; pfam00892 331112011316 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 331112011317 EamA-like transporter family; Region: EamA; pfam00892 331112011318 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 331112011319 lipoprotein, YaeC family; Region: TIGR00363 331112011320 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 331112011321 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 331112011322 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112011323 putative substrate translocation pore; other site 331112011324 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 331112011325 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 331112011326 cryptic adenine deaminase; Provisional; Region: PRK10027 331112011327 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 331112011328 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 331112011329 active site 331112011330 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 331112011331 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 331112011332 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112011333 putative substrate translocation pore; other site 331112011334 regulatory protein UhpC; Provisional; Region: PRK11663 331112011335 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112011336 putative substrate translocation pore; other site 331112011337 sensory histidine kinase UhpB; Provisional; Region: PRK11644 331112011338 MASE1; Region: MASE1; pfam05231 331112011339 Histidine kinase; Region: HisKA_3; pfam07730 331112011340 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 331112011341 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 331112011342 active site 331112011343 phosphorylation site [posttranslational modification] 331112011344 intermolecular recognition site; other site 331112011345 dimerization interface [polypeptide binding]; other site 331112011346 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 331112011347 DNA binding residues [nucleotide binding] 331112011348 dimerization interface [polypeptide binding]; other site 331112011349 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 331112011350 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 331112011351 putative valine binding site [chemical binding]; other site 331112011352 dimer interface [polypeptide binding]; other site 331112011353 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 331112011354 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 331112011355 PYR/PP interface [polypeptide binding]; other site 331112011356 dimer interface [polypeptide binding]; other site 331112011357 TPP binding site [chemical binding]; other site 331112011358 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 331112011359 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 331112011360 TPP-binding site [chemical binding]; other site 331112011361 dimer interface [polypeptide binding]; other site 331112011362 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 331112011363 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112011364 putative substrate translocation pore; other site 331112011365 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 331112011366 Domain of unknown function (DUF202); Region: DUF202; pfam02656 331112011367 Predicted membrane protein [Function unknown]; Region: COG2149 331112011368 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 331112011369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 331112011370 Probable transposase; Region: OrfB_IS605; pfam01385 331112011371 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 331112011372 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 331112011373 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 331112011374 NAD binding site [chemical binding]; other site 331112011375 sugar binding site [chemical binding]; other site 331112011376 divalent metal binding site [ion binding]; other site 331112011377 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 331112011378 dimer interface [polypeptide binding]; other site 331112011379 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 331112011380 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 331112011381 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 331112011382 active site turn [active] 331112011383 phosphorylation site [posttranslational modification] 331112011384 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 331112011385 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112011386 DNA-binding site [nucleotide binding]; DNA binding site 331112011387 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 331112011388 putative transporter; Validated; Region: PRK03818 331112011389 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 331112011390 TrkA-C domain; Region: TrkA_C; pfam02080 331112011391 TrkA-C domain; Region: TrkA_C; pfam02080 331112011392 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 331112011393 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 331112011394 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 331112011395 putative dimer interface [polypeptide binding]; other site 331112011396 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 331112011397 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 331112011398 putative dimer interface [polypeptide binding]; other site 331112011399 hypothetical protein; Provisional; Region: PRK11616 331112011400 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 331112011401 putative oxidoreductase; Provisional; Region: PRK11445 331112011402 hypothetical protein; Provisional; Region: PRK07236 331112011403 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112011404 D-galactonate transporter; Region: 2A0114; TIGR00893 331112011405 putative substrate translocation pore; other site 331112011406 galactonate dehydratase; Provisional; Region: PRK14017 331112011407 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 331112011408 putative active site pocket [active] 331112011409 putative metal binding site [ion binding]; other site 331112011410 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 331112011411 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 331112011412 active site 331112011413 intersubunit interface [polypeptide binding]; other site 331112011414 catalytic residue [active] 331112011415 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 331112011416 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 331112011417 Transcriptional regulators [Transcription]; Region: FadR; COG2186 331112011418 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112011419 DNA-binding site [nucleotide binding]; DNA binding site 331112011420 FCD domain; Region: FCD; pfam07729 331112011421 hypothetical protein; Provisional; Region: PRK10215 331112011422 sugar phosphate phosphatase; Provisional; Region: PRK10513 331112011423 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 331112011424 active site 331112011425 motif I; other site 331112011426 motif II; other site 331112011427 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 331112011428 hypothetical protein; Provisional; Region: PRK11426 331112011429 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 331112011430 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 331112011431 Mg2+ binding site [ion binding]; other site 331112011432 G-X-G motif; other site 331112011433 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 331112011434 anchoring element; other site 331112011435 dimer interface [polypeptide binding]; other site 331112011436 ATP binding site [chemical binding]; other site 331112011437 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 331112011438 active site 331112011439 putative metal-binding site [ion binding]; other site 331112011440 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 331112011441 recF protein; Region: recf; TIGR00611 331112011442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112011443 Walker A/P-loop; other site 331112011444 ATP binding site [chemical binding]; other site 331112011445 Q-loop/lid; other site 331112011446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112011447 ABC transporter signature motif; other site 331112011448 Walker B; other site 331112011449 D-loop; other site 331112011450 H-loop/switch region; other site 331112011451 DNA polymerase III subunit beta; Validated; Region: PRK05643 331112011452 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 331112011453 putative DNA binding surface [nucleotide binding]; other site 331112011454 dimer interface [polypeptide binding]; other site 331112011455 beta-clamp/clamp loader binding surface; other site 331112011456 beta-clamp/translesion DNA polymerase binding surface; other site 331112011457 DnaA N-terminal domain; Region: DnaA_N; pfam11638 331112011458 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 331112011459 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 331112011460 Walker A motif; other site 331112011461 ATP binding site [chemical binding]; other site 331112011462 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 331112011463 Walker B motif; other site 331112011464 arginine finger; other site 331112011465 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 331112011466 DnaA box-binding interface [nucleotide binding]; other site 331112011467 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 331112011468 ribonuclease P; Reviewed; Region: rnpA; PRK01732 331112011469 hypothetical protein; Validated; Region: PRK00041 331112011470 membrane protein insertase; Provisional; Region: PRK01318 331112011471 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 331112011472 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 331112011473 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 331112011474 trmE is a tRNA modification GTPase; Region: trmE; cd04164 331112011475 G1 box; other site 331112011476 GTP/Mg2+ binding site [chemical binding]; other site 331112011477 Switch I region; other site 331112011478 G2 box; other site 331112011479 Switch II region; other site 331112011480 G3 box; other site 331112011481 G4 box; other site 331112011482 G5 box; other site 331112011483 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 331112011484 Tryptophanese operon leader peptide; Region: Tna_leader; pfam08053 331112011485 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 331112011486 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 331112011487 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331112011488 catalytic residue [active] 331112011489 tryptophan permease TnaB; Provisional; Region: PRK09664 331112011490 aromatic amino acid transport protein; Region: araaP; TIGR00837 331112011491 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 331112011492 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112011493 putative substrate translocation pore; other site 331112011494 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 331112011495 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112011496 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 331112011497 substrate binding pocket [chemical binding]; other site 331112011498 dimerization interface [polypeptide binding]; other site 331112011499 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 331112011500 Predicted flavoprotein [General function prediction only]; Region: COG0431 331112011501 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 331112011502 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 331112011503 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 331112011504 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 331112011505 active site 331112011506 motif I; other site 331112011507 motif II; other site 331112011508 putative inner membrane protein; Provisional; Region: PRK09823 331112011509 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 331112011510 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 331112011511 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 331112011512 active site 331112011513 trimer interface [polypeptide binding]; other site 331112011514 allosteric site; other site 331112011515 active site lid [active] 331112011516 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 331112011517 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 331112011518 trimer interface; other site 331112011519 sugar binding site [chemical binding]; other site 331112011520 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 331112011521 beta-galactosidase; Region: BGL; TIGR03356 331112011522 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 331112011523 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 331112011524 active site turn [active] 331112011525 phosphorylation site [posttranslational modification] 331112011526 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 331112011527 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 331112011528 HPr interaction site; other site 331112011529 glycerol kinase (GK) interaction site [polypeptide binding]; other site 331112011530 active site 331112011531 phosphorylation site [posttranslational modification] 331112011532 transcriptional antiterminator BglG; Provisional; Region: PRK09772 331112011533 CAT RNA binding domain; Region: CAT_RBD; pfam03123 331112011534 PRD domain; Region: PRD; pfam00874 331112011535 PRD domain; Region: PRD; pfam00874 331112011536 transcriptional regulator PhoU; Provisional; Region: PRK11115 331112011537 PhoU domain; Region: PhoU; pfam01895 331112011538 PhoU domain; Region: PhoU; pfam01895 331112011539 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 331112011540 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 331112011541 Walker A/P-loop; other site 331112011542 ATP binding site [chemical binding]; other site 331112011543 Q-loop/lid; other site 331112011544 ABC transporter signature motif; other site 331112011545 Walker B; other site 331112011546 D-loop; other site 331112011547 H-loop/switch region; other site 331112011548 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 331112011549 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 331112011550 dimer interface [polypeptide binding]; other site 331112011551 conserved gate region; other site 331112011552 putative PBP binding loops; other site 331112011553 ABC-ATPase subunit interface; other site 331112011554 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 331112011555 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 331112011556 dimer interface [polypeptide binding]; other site 331112011557 conserved gate region; other site 331112011558 putative PBP binding loops; other site 331112011559 ABC-ATPase subunit interface; other site 331112011560 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 331112011561 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 331112011562 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 331112011563 glutaminase active site [active] 331112011564 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 331112011565 dimer interface [polypeptide binding]; other site 331112011566 active site 331112011567 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 331112011568 dimer interface [polypeptide binding]; other site 331112011569 active site 331112011570 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 331112011571 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 331112011572 Substrate binding site; other site 331112011573 Mg++ binding site; other site 331112011574 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 331112011575 active site 331112011576 substrate binding site [chemical binding]; other site 331112011577 CoA binding site [chemical binding]; other site 331112011578 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 331112011579 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 331112011580 gamma subunit interface [polypeptide binding]; other site 331112011581 epsilon subunit interface [polypeptide binding]; other site 331112011582 LBP interface [polypeptide binding]; other site 331112011583 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 331112011584 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 331112011585 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 331112011586 alpha subunit interaction interface [polypeptide binding]; other site 331112011587 Walker A motif; other site 331112011588 ATP binding site [chemical binding]; other site 331112011589 Walker B motif; other site 331112011590 inhibitor binding site; inhibition site 331112011591 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 331112011592 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 331112011593 core domain interface [polypeptide binding]; other site 331112011594 delta subunit interface [polypeptide binding]; other site 331112011595 epsilon subunit interface [polypeptide binding]; other site 331112011596 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 331112011597 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 331112011598 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 331112011599 beta subunit interaction interface [polypeptide binding]; other site 331112011600 Walker A motif; other site 331112011601 ATP binding site [chemical binding]; other site 331112011602 Walker B motif; other site 331112011603 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 331112011604 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 331112011605 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 331112011606 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 331112011607 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 331112011608 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 331112011609 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 331112011610 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 331112011611 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 331112011612 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 331112011613 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 331112011614 S-adenosylmethionine binding site [chemical binding]; other site 331112011615 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 331112011616 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 331112011617 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 331112011618 FMN-binding protein MioC; Provisional; Region: PRK09004 331112011619 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 331112011620 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 331112011621 putative DNA binding site [nucleotide binding]; other site 331112011622 putative Zn2+ binding site [ion binding]; other site 331112011623 AsnC family; Region: AsnC_trans_reg; pfam01037 331112011624 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 331112011625 dimer interface [polypeptide binding]; other site 331112011626 active site 331112011627 hypothetical protein; Provisional; Region: yieM; PRK10997 331112011628 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 331112011629 metal ion-dependent adhesion site (MIDAS); other site 331112011630 regulatory ATPase RavA; Provisional; Region: PRK13531 331112011631 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 331112011632 Walker A motif; other site 331112011633 ATP binding site [chemical binding]; other site 331112011634 Walker B motif; other site 331112011635 arginine finger; other site 331112011636 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 331112011637 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 331112011638 potassium uptake protein; Region: kup; TIGR00794 331112011639 D-ribose pyranase; Provisional; Region: PRK11797 331112011640 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 331112011641 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 331112011642 Walker A/P-loop; other site 331112011643 ATP binding site [chemical binding]; other site 331112011644 Q-loop/lid; other site 331112011645 ABC transporter signature motif; other site 331112011646 Walker B; other site 331112011647 D-loop; other site 331112011648 H-loop/switch region; other site 331112011649 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 331112011650 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112011651 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 331112011652 TM-ABC transporter signature motif; other site 331112011653 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 331112011654 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 331112011655 ligand binding site [chemical binding]; other site 331112011656 dimerization interface [polypeptide binding]; other site 331112011657 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 331112011658 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 331112011659 substrate binding site [chemical binding]; other site 331112011660 dimer interface [polypeptide binding]; other site 331112011661 ATP binding site [chemical binding]; other site 331112011662 putative transposase OrfB; Reviewed; Region: PHA02517 331112011663 HTH-like domain; Region: HTH_21; pfam13276 331112011664 Integrase core domain; Region: rve; pfam00665 331112011665 Integrase core domain; Region: rve_2; pfam13333 331112011666 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112011667 Transposase; Region: HTH_Tnp_1; pfam01527 331112011668 putative transporter; Provisional; Region: PRK10504 331112011669 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112011670 putative substrate translocation pore; other site 331112011671 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112011672 Transcriptional regulators [Transcription]; Region: FadR; COG2186 331112011673 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112011674 DNA-binding site [nucleotide binding]; DNA binding site 331112011675 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 331112011676 transcriptional regulator HdfR; Provisional; Region: PRK03601 331112011677 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112011678 LysR substrate binding domain; Region: LysR_substrate; pfam03466 331112011679 dimerization interface [polypeptide binding]; other site 331112011680 hypothetical protein; Provisional; Region: PRK11027 331112011681 putative ATP-dependent protease; Provisional; Region: PRK09862 331112011682 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 331112011683 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 331112011684 Walker A motif; other site 331112011685 ATP binding site [chemical binding]; other site 331112011686 Walker B motif; other site 331112011687 arginine finger; other site 331112011688 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 331112011689 ilvG operon leader peptide; Provisional; Region: PRK10424 331112011690 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 331112011691 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 331112011692 PYR/PP interface [polypeptide binding]; other site 331112011693 dimer interface [polypeptide binding]; other site 331112011694 TPP binding site [chemical binding]; other site 331112011695 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 331112011696 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 331112011697 TPP-binding site [chemical binding]; other site 331112011698 dimer interface [polypeptide binding]; other site 331112011699 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 331112011700 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 331112011701 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 331112011702 homodimer interface [polypeptide binding]; other site 331112011703 substrate-cofactor binding pocket; other site 331112011704 catalytic residue [active] 331112011705 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 331112011706 threonine dehydratase; Reviewed; Region: PRK09224 331112011707 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 331112011708 tetramer interface [polypeptide binding]; other site 331112011709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112011710 catalytic residue [active] 331112011711 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 331112011712 putative Ile/Val binding site [chemical binding]; other site 331112011713 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 331112011714 putative Ile/Val binding site [chemical binding]; other site 331112011715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112011716 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 331112011717 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 331112011718 putative dimerization interface [polypeptide binding]; other site 331112011719 ketol-acid reductoisomerase; Validated; Region: PRK05225 331112011720 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 331112011721 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 331112011722 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 331112011723 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 331112011724 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 331112011725 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 331112011726 Part of AAA domain; Region: AAA_19; pfam13245 331112011727 Family description; Region: UvrD_C_2; pfam13538 331112011728 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 331112011729 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 331112011730 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 331112011731 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 331112011732 ATP binding site [chemical binding]; other site 331112011733 Mg++ binding site [ion binding]; other site 331112011734 motif III; other site 331112011735 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 331112011736 nucleotide binding region [chemical binding]; other site 331112011737 ATP-binding site [chemical binding]; other site 331112011738 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 331112011739 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 331112011740 catalytic residues [active] 331112011741 putative rho operon leader peptide; Provisional; Region: PRK09979 331112011742 transcription termination factor Rho; Provisional; Region: rho; PRK09376 331112011743 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 331112011744 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 331112011745 RNA binding site [nucleotide binding]; other site 331112011746 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 331112011747 multimer interface [polypeptide binding]; other site 331112011748 Walker A motif; other site 331112011749 ATP binding site [chemical binding]; other site 331112011750 Walker B motif; other site 331112011751 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 331112011752 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 331112011753 Mg++ binding site [ion binding]; other site 331112011754 putative catalytic motif [active] 331112011755 substrate binding site [chemical binding]; other site 331112011756 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 331112011757 Chain length determinant protein; Region: Wzz; pfam02706 331112011758 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 331112011759 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 331112011760 active site 331112011761 homodimer interface [polypeptide binding]; other site 331112011762 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 331112011763 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 331112011764 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 331112011765 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 331112011766 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 331112011767 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 331112011768 NAD binding site [chemical binding]; other site 331112011769 substrate binding site [chemical binding]; other site 331112011770 homodimer interface [polypeptide binding]; other site 331112011771 active site 331112011772 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 331112011773 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 331112011774 substrate binding site; other site 331112011775 tetramer interface; other site 331112011776 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 331112011777 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 331112011778 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 331112011779 inhibitor-cofactor binding pocket; inhibition site 331112011780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112011781 catalytic residue [active] 331112011782 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 331112011783 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 331112011784 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 331112011785 putative common antigen polymerase; Provisional; Region: PRK02975 331112011786 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 331112011787 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 331112011788 putative transport protein YifK; Provisional; Region: PRK10746 331112011789 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 331112011790 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 331112011791 FeS/SAM binding site; other site 331112011792 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 331112011793 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 331112011794 HemY protein N-terminus; Region: HemY_N; pfam07219 331112011795 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 331112011796 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 331112011797 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 331112011798 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 331112011799 active site 331112011800 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 331112011801 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 331112011802 domain interfaces; other site 331112011803 active site 331112011804 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 331112011805 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 331112011806 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 331112011807 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 331112011808 putative iron binding site [ion binding]; other site 331112011809 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 331112011810 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 331112011811 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 331112011812 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 331112011813 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 331112011814 hypothetical protein; Provisional; Region: PRK10963 331112011815 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 331112011816 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 331112011817 active site 331112011818 DNA binding site [nucleotide binding] 331112011819 Int/Topo IB signature motif; other site 331112011820 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 331112011821 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 331112011822 motif II; other site 331112011823 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 331112011824 Part of AAA domain; Region: AAA_19; pfam13245 331112011825 Family description; Region: UvrD_C_2; pfam13538 331112011826 Predicted periplasmic protein [Function unknown]; Region: COG3698 331112011827 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 331112011828 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 331112011829 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 331112011830 Cl binding site [ion binding]; other site 331112011831 oligomer interface [polypeptide binding]; other site 331112011832 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 331112011833 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 331112011834 EamA-like transporter family; Region: EamA; cl17759 331112011835 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 331112011836 CoenzymeA binding site [chemical binding]; other site 331112011837 subunit interaction site [polypeptide binding]; other site 331112011838 PHB binding site; other site 331112011839 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 331112011840 dimerization interface [polypeptide binding]; other site 331112011841 substrate binding site [chemical binding]; other site 331112011842 active site 331112011843 calcium binding site [ion binding]; other site 331112011844 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 331112011845 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 331112011846 ATP binding site [chemical binding]; other site 331112011847 putative Mg++ binding site [ion binding]; other site 331112011848 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 331112011849 nucleotide binding region [chemical binding]; other site 331112011850 ATP-binding site [chemical binding]; other site 331112011851 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 331112011852 Helicase and RNase D C-terminal; Region: HRDC; smart00341 331112011853 threonine efflux system; Provisional; Region: PRK10229 331112011854 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 331112011855 lysophospholipase L2; Provisional; Region: PRK10749 331112011856 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 331112011857 putative hydrolase; Provisional; Region: PRK10976 331112011858 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 331112011859 active site 331112011860 motif I; other site 331112011861 motif II; other site 331112011862 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 331112011863 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 331112011864 EamA-like transporter family; Region: EamA; pfam00892 331112011865 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 331112011866 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112011867 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 331112011868 putative dimerization interface [polypeptide binding]; other site 331112011869 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 331112011870 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 331112011871 THF binding site; other site 331112011872 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 331112011873 substrate binding site [chemical binding]; other site 331112011874 THF binding site; other site 331112011875 zinc-binding site [ion binding]; other site 331112011876 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 331112011877 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 331112011878 uridine phosphorylase; Provisional; Region: PRK11178 331112011879 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 331112011880 DNA recombination protein RmuC; Provisional; Region: PRK10361 331112011881 RmuC family; Region: RmuC; pfam02646 331112011882 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 331112011883 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 331112011884 S-adenosylmethionine binding site [chemical binding]; other site 331112011885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 331112011886 SCP-2 sterol transfer family; Region: SCP2; pfam02036 331112011887 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 331112011888 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 331112011889 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 331112011890 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 331112011891 sec-independent translocase; Provisional; Region: PRK01770 331112011892 sec-independent translocase; Provisional; Region: tatB; PRK00404 331112011893 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 331112011894 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 331112011895 active site 331112011896 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 331112011897 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 331112011898 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 331112011899 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 331112011900 FMN reductase; Validated; Region: fre; PRK08051 331112011901 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 331112011902 FAD binding pocket [chemical binding]; other site 331112011903 FAD binding motif [chemical binding]; other site 331112011904 phosphate binding motif [ion binding]; other site 331112011905 beta-alpha-beta structure motif; other site 331112011906 NAD binding pocket [chemical binding]; other site 331112011907 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 331112011908 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 331112011909 dimer interface [polypeptide binding]; other site 331112011910 active site 331112011911 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 331112011912 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 331112011913 substrate binding site [chemical binding]; other site 331112011914 oxyanion hole (OAH) forming residues; other site 331112011915 trimer interface [polypeptide binding]; other site 331112011916 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 331112011917 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 331112011918 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 331112011919 proline dipeptidase; Provisional; Region: PRK13607 331112011920 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 331112011921 active site 331112011922 hypothetical protein; Provisional; Region: PRK11568 331112011923 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 331112011924 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 331112011925 potassium transporter; Provisional; Region: PRK10750 331112011926 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 331112011927 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 331112011928 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 331112011929 Walker A motif; other site 331112011930 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 331112011931 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 331112011932 GTP binding site; other site 331112011933 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 331112011934 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 331112011935 serine/threonine protein kinase; Provisional; Region: PRK11768 331112011936 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 331112011937 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 331112011938 catalytic residues [active] 331112011939 hinge region; other site 331112011940 alpha helical domain; other site 331112011941 hypothetical protein; Provisional; Region: PRK11367 331112011942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 331112011943 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 331112011944 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 331112011945 putative acyl-acceptor binding pocket; other site 331112011946 DNA polymerase I; Provisional; Region: PRK05755 331112011947 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 331112011948 active site 331112011949 metal binding site 1 [ion binding]; metal-binding site 331112011950 putative 5' ssDNA interaction site; other site 331112011951 metal binding site 3; metal-binding site 331112011952 metal binding site 2 [ion binding]; metal-binding site 331112011953 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 331112011954 putative DNA binding site [nucleotide binding]; other site 331112011955 putative metal binding site [ion binding]; other site 331112011956 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 331112011957 active site 331112011958 catalytic site [active] 331112011959 substrate binding site [chemical binding]; other site 331112011960 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 331112011961 active site 331112011962 DNA binding site [nucleotide binding] 331112011963 catalytic site [active] 331112011964 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 331112011965 G1 box; other site 331112011966 GTP/Mg2+ binding site [chemical binding]; other site 331112011967 Switch I region; other site 331112011968 G2 box; other site 331112011969 G3 box; other site 331112011970 Switch II region; other site 331112011971 G4 box; other site 331112011972 G5 box; other site 331112011973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 331112011974 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 331112011975 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 331112011976 FeS/SAM binding site; other site 331112011977 HemN C-terminal domain; Region: HemN_C; pfam06969 331112011978 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 331112011979 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 331112011980 active site 331112011981 phosphorylation site [posttranslational modification] 331112011982 intermolecular recognition site; other site 331112011983 dimerization interface [polypeptide binding]; other site 331112011984 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 331112011985 Walker A motif; other site 331112011986 ATP binding site [chemical binding]; other site 331112011987 Walker B motif; other site 331112011988 arginine finger; other site 331112011989 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 331112011990 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 331112011991 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 331112011992 putative active site [active] 331112011993 heme pocket [chemical binding]; other site 331112011994 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 331112011995 dimer interface [polypeptide binding]; other site 331112011996 phosphorylation site [posttranslational modification] 331112011997 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 331112011998 ATP binding site [chemical binding]; other site 331112011999 Mg2+ binding site [ion binding]; other site 331112012000 G-X-G motif; other site 331112012001 glutamine synthetase; Provisional; Region: glnA; PRK09469 331112012002 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 331112012003 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 331112012004 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 331112012005 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 331112012006 G1 box; other site 331112012007 putative GEF interaction site [polypeptide binding]; other site 331112012008 GTP/Mg2+ binding site [chemical binding]; other site 331112012009 Switch I region; other site 331112012010 G2 box; other site 331112012011 G3 box; other site 331112012012 Switch II region; other site 331112012013 G4 box; other site 331112012014 G5 box; other site 331112012015 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 331112012016 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 331112012017 transcriptional regulator protein; Region: phnR; TIGR03337 331112012018 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112012019 DNA-binding site [nucleotide binding]; DNA binding site 331112012020 UTRA domain; Region: UTRA; pfam07702 331112012021 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 331112012022 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112012023 putative substrate translocation pore; other site 331112012024 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 331112012025 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 331112012026 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 331112012027 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 331112012028 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 331112012029 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 331112012030 substrate binding site [chemical binding]; other site 331112012031 ATP binding site [chemical binding]; other site 331112012032 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 331112012033 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 331112012034 Class I aldolases; Region: Aldolase_Class_I; cl17187 331112012035 catalytic residue [active] 331112012036 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 331112012037 putative oxidoreductase; Provisional; Region: PRK10083 331112012038 NAD(P) binding site [chemical binding]; other site 331112012039 benzoate transport; Region: 2A0115; TIGR00895 331112012040 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112012041 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112012042 shikimate transporter; Provisional; Region: PRK09952 331112012043 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112012044 putative substrate translocation pore; other site 331112012045 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 331112012046 active site 331112012047 catalytic residues [active] 331112012048 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 331112012049 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 331112012050 motif II; other site 331112012051 hypothetical protein; Reviewed; Region: PRK01637 331112012052 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 331112012053 putative active site [active] 331112012054 dimerization interface [polypeptide binding]; other site 331112012055 putative tRNAtyr binding site [nucleotide binding]; other site 331112012056 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112012057 Coenzyme A binding pocket [chemical binding]; other site 331112012058 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 331112012059 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 331112012060 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112012061 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112012062 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112012063 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 331112012064 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 331112012065 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 331112012066 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 331112012067 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 331112012068 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 331112012069 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 331112012070 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 331112012071 [4Fe-4S] binding site [ion binding]; other site 331112012072 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 331112012073 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 331112012074 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 331112012075 molybdopterin cofactor binding site; other site 331112012076 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 331112012077 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 331112012078 putative frv operon regulatory protein; Provisional; Region: PRK09863 331112012079 HTH domain; Region: HTH_11; pfam08279 331112012080 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 331112012081 active site 331112012082 phosphorylation site [posttranslational modification] 331112012083 putative peptidase; Provisional; Region: PRK09864 331112012084 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 331112012085 oligomer interface [polypeptide binding]; other site 331112012086 active site 331112012087 metal binding site [ion binding]; metal-binding site 331112012088 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 331112012089 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 331112012090 active site 331112012091 P-loop; other site 331112012092 phosphorylation site [posttranslational modification] 331112012093 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 331112012094 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 331112012095 active site 331112012096 phosphorylation site [posttranslational modification] 331112012097 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 331112012098 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 331112012099 intersubunit interface [polypeptide binding]; other site 331112012100 active site 331112012101 Zn2+ binding site [ion binding]; other site 331112012102 L-rhamnose isomerase; Provisional; Region: PRK01076 331112012103 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 331112012104 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 331112012105 N- and C-terminal domain interface [polypeptide binding]; other site 331112012106 active site 331112012107 putative catalytic site [active] 331112012108 metal binding site [ion binding]; metal-binding site 331112012109 ATP binding site [chemical binding]; other site 331112012110 rhamnulokinase; Provisional; Region: rhaB; PRK10640 331112012111 carbohydrate binding site [chemical binding]; other site 331112012112 transcriptional activator RhaS; Provisional; Region: PRK13503 331112012113 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 331112012114 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112012115 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112012116 transcriptional activator RhaR; Provisional; Region: PRK13500 331112012117 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 331112012118 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112012119 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112012120 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 331112012121 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 331112012122 superoxide dismutase; Provisional; Region: PRK10925 331112012123 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 331112012124 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 331112012125 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 331112012126 2-keto-3-deoxygluconate transporter; Region: kdgT; TIGR00793 331112012127 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 331112012128 MOSC domain; Region: MOSC; pfam03473 331112012129 3-alpha domain; Region: 3-alpha; pfam03475 331112012130 two-component sensor protein; Provisional; Region: cpxA; PRK09470 331112012131 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 331112012132 dimerization interface [polypeptide binding]; other site 331112012133 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 331112012134 dimer interface [polypeptide binding]; other site 331112012135 phosphorylation site [posttranslational modification] 331112012136 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 331112012137 ATP binding site [chemical binding]; other site 331112012138 Mg2+ binding site [ion binding]; other site 331112012139 G-X-G motif; other site 331112012140 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 331112012141 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 331112012142 active site 331112012143 intermolecular recognition site; other site 331112012144 dimerization interface [polypeptide binding]; other site 331112012145 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 331112012146 DNA binding site [nucleotide binding] 331112012147 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 331112012148 dimer interface [polypeptide binding]; other site 331112012149 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 331112012150 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 331112012151 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 331112012152 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 331112012153 active site 331112012154 ADP/pyrophosphate binding site [chemical binding]; other site 331112012155 dimerization interface [polypeptide binding]; other site 331112012156 allosteric effector site; other site 331112012157 fructose-1,6-bisphosphate binding site; other site 331112012158 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 331112012159 sulfate transporter subunit; Provisional; Region: PRK10752 331112012160 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 331112012161 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 331112012162 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 331112012163 triosephosphate isomerase; Provisional; Region: PRK14567 331112012164 substrate binding site [chemical binding]; other site 331112012165 dimer interface [polypeptide binding]; other site 331112012166 catalytic triad [active] 331112012167 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 331112012168 Predicted membrane protein [Function unknown]; Region: COG3152 331112012169 hypothetical protein; Provisional; Region: PRK09981 331112012170 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 331112012171 Ligand Binding Site [chemical binding]; other site 331112012172 ferredoxin-NADP reductase; Provisional; Region: PRK10926 331112012173 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 331112012174 FAD binding pocket [chemical binding]; other site 331112012175 FAD binding motif [chemical binding]; other site 331112012176 phosphate binding motif [ion binding]; other site 331112012177 beta-alpha-beta structure motif; other site 331112012178 NAD binding pocket [chemical binding]; other site 331112012179 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 331112012180 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 331112012181 putative active site [active] 331112012182 glycerol kinase; Provisional; Region: glpK; PRK00047 331112012183 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 331112012184 N- and C-terminal domain interface [polypeptide binding]; other site 331112012185 active site 331112012186 MgATP binding site [chemical binding]; other site 331112012187 catalytic site [active] 331112012188 metal binding site [ion binding]; metal-binding site 331112012189 glycerol binding site [chemical binding]; other site 331112012190 homotetramer interface [polypeptide binding]; other site 331112012191 homodimer interface [polypeptide binding]; other site 331112012192 FBP binding site [chemical binding]; other site 331112012193 protein IIAGlc interface [polypeptide binding]; other site 331112012194 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 331112012195 amphipathic channel; other site 331112012196 Asn-Pro-Ala signature motifs; other site 331112012197 septal ring assembly protein ZapB; Provisional; Region: PRK15422 331112012198 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 331112012199 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 331112012200 UbiA prenyltransferase family; Region: UbiA; pfam01040 331112012201 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 331112012202 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 331112012203 Walker A motif; other site 331112012204 ATP binding site [chemical binding]; other site 331112012205 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 331112012206 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 331112012207 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 331112012208 active site 331112012209 HslU subunit interaction site [polypeptide binding]; other site 331112012210 essential cell division protein FtsN; Provisional; Region: PRK10927 331112012211 cell division protein FtsN; Provisional; Region: PRK12757 331112012212 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112012213 DNA binding site [nucleotide binding] 331112012214 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 331112012215 domain linker motif; other site 331112012216 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 331112012217 dimerization interface [polypeptide binding]; other site 331112012218 ligand binding site [chemical binding]; other site 331112012219 primosome assembly protein PriA; Validated; Region: PRK05580 331112012220 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 331112012221 ATP binding site [chemical binding]; other site 331112012222 putative Mg++ binding site [ion binding]; other site 331112012223 helicase superfamily c-terminal domain; Region: HELICc; smart00490 331112012224 ATP-binding site [chemical binding]; other site 331112012225 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 331112012226 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 331112012227 hypothetical protein; Provisional; Region: PRK10030 331112012228 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 331112012229 dimerization interface [polypeptide binding]; other site 331112012230 DNA binding site [nucleotide binding] 331112012231 corepressor binding sites; other site 331112012232 cystathionine gamma-synthase; Provisional; Region: PRK08045 331112012233 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 331112012234 homodimer interface [polypeptide binding]; other site 331112012235 substrate-cofactor binding pocket; other site 331112012236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112012237 catalytic residue [active] 331112012238 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 331112012239 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 331112012240 putative catalytic residues [active] 331112012241 putative nucleotide binding site [chemical binding]; other site 331112012242 putative aspartate binding site [chemical binding]; other site 331112012243 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 331112012244 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 331112012245 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 331112012246 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 331112012247 FAD binding site [chemical binding]; other site 331112012248 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 331112012249 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 331112012250 heme binding site [chemical binding]; other site 331112012251 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 331112012252 EamA-like transporter family; Region: EamA; pfam00892 331112012253 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 331112012254 EamA-like transporter family; Region: EamA; pfam00892 331112012255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 331112012256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112012257 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112012258 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112012259 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 331112012260 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 331112012261 dimer interface [polypeptide binding]; other site 331112012262 active site 331112012263 metal binding site [ion binding]; metal-binding site 331112012264 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 331112012265 active site 331112012266 intersubunit interactions; other site 331112012267 catalytic residue [active] 331112012268 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 331112012269 dimerization domain swap beta strand [polypeptide binding]; other site 331112012270 regulatory protein interface [polypeptide binding]; other site 331112012271 active site 331112012272 regulatory phosphorylation site [posttranslational modification]; other site 331112012273 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 331112012274 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 331112012275 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 331112012276 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 331112012277 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 331112012278 active site 331112012279 phosphorylation site [posttranslational modification] 331112012280 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 331112012281 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 331112012282 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 331112012283 active site 331112012284 P-loop; other site 331112012285 phosphorylation site [posttranslational modification] 331112012286 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 331112012287 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 331112012288 dimer interface [polypeptide binding]; other site 331112012289 active site 331112012290 glycine loop; other site 331112012291 pyruvate formate lyase II activase; Provisional; Region: PRK10076 331112012292 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 331112012293 active site 331112012294 P-loop; other site 331112012295 phosphorylation site [posttranslational modification] 331112012296 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 331112012297 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112012298 hypothetical protein; Provisional; Region: PRK10649 331112012299 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 331112012300 Sulfatase; Region: Sulfatase; pfam00884 331112012301 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 331112012302 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 331112012303 acetylornithine deacetylase; Provisional; Region: PRK05111 331112012304 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 331112012305 metal binding site [ion binding]; metal-binding site 331112012306 putative dimer interface [polypeptide binding]; other site 331112012307 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 331112012308 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 331112012309 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 331112012310 nucleotide binding site [chemical binding]; other site 331112012311 N-acetyl-L-glutamate binding site [chemical binding]; other site 331112012312 argininosuccinate lyase; Provisional; Region: PRK04833 331112012313 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 331112012314 active sites [active] 331112012315 tetramer interface [polypeptide binding]; other site 331112012316 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 331112012317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112012318 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 331112012319 dimerization interface [polypeptide binding]; other site 331112012320 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 331112012321 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331112012322 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 331112012323 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 331112012324 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112012325 hypothetical protein; Provisional; Region: PRK11056 331112012326 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 331112012327 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 331112012328 S-adenosylmethionine binding site [chemical binding]; other site 331112012329 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 331112012330 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 331112012331 N-terminal plug; other site 331112012332 ligand-binding site [chemical binding]; other site 331112012333 glutamate racemase; Provisional; Region: PRK00865 331112012334 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 331112012335 FAD binding domain; Region: FAD_binding_4; pfam01565 331112012336 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 331112012337 Biotin operon repressor [Transcription]; Region: BirA; COG1654 331112012338 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 331112012339 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 331112012340 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 331112012341 pantothenate kinase; Provisional; Region: PRK05439 331112012342 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 331112012343 ATP-binding site [chemical binding]; other site 331112012344 CoA-binding site [chemical binding]; other site 331112012345 Mg2+-binding site [ion binding]; other site 331112012346 elongation factor Tu; Reviewed; Region: PRK00049 331112012347 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 331112012348 G1 box; other site 331112012349 GEF interaction site [polypeptide binding]; other site 331112012350 GTP/Mg2+ binding site [chemical binding]; other site 331112012351 Switch I region; other site 331112012352 G2 box; other site 331112012353 G3 box; other site 331112012354 Switch II region; other site 331112012355 G4 box; other site 331112012356 G5 box; other site 331112012357 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 331112012358 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 331112012359 Antibiotic Binding Site [chemical binding]; other site 331112012360 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 331112012361 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 331112012362 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 331112012363 putative homodimer interface [polypeptide binding]; other site 331112012364 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 331112012365 heterodimer interface [polypeptide binding]; other site 331112012366 homodimer interface [polypeptide binding]; other site 331112012367 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 331112012368 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 331112012369 23S rRNA interface [nucleotide binding]; other site 331112012370 L7/L12 interface [polypeptide binding]; other site 331112012371 putative thiostrepton binding site; other site 331112012372 L25 interface [polypeptide binding]; other site 331112012373 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 331112012374 mRNA/rRNA interface [nucleotide binding]; other site 331112012375 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 331112012376 23S rRNA interface [nucleotide binding]; other site 331112012377 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 331112012378 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 331112012379 core dimer interface [polypeptide binding]; other site 331112012380 peripheral dimer interface [polypeptide binding]; other site 331112012381 L10 interface [polypeptide binding]; other site 331112012382 L11 interface [polypeptide binding]; other site 331112012383 putative EF-Tu interaction site [polypeptide binding]; other site 331112012384 putative EF-G interaction site [polypeptide binding]; other site 331112012385 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 331112012386 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 331112012387 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 331112012388 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 331112012389 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 331112012390 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 331112012391 RPB3 interaction site [polypeptide binding]; other site 331112012392 RPB1 interaction site [polypeptide binding]; other site 331112012393 RPB11 interaction site [polypeptide binding]; other site 331112012394 RPB10 interaction site [polypeptide binding]; other site 331112012395 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 331112012396 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 331112012397 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 331112012398 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 331112012399 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 331112012400 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 331112012401 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 331112012402 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 331112012403 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 331112012404 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 331112012405 DNA binding site [nucleotide binding] 331112012406 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 331112012407 stationary phase growth adaptation protein; Provisional; Region: PRK09717 331112012408 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 331112012409 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 331112012410 FeS/SAM binding site; other site 331112012411 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 331112012412 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 331112012413 ThiS interaction site; other site 331112012414 putative active site [active] 331112012415 tetramer interface [polypeptide binding]; other site 331112012416 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 331112012417 thiS-thiF/thiG interaction site; other site 331112012418 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 331112012419 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 331112012420 ATP binding site [chemical binding]; other site 331112012421 substrate interface [chemical binding]; other site 331112012422 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 331112012423 thiamine phosphate binding site [chemical binding]; other site 331112012424 active site 331112012425 pyrophosphate binding site [ion binding]; other site 331112012426 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 331112012427 ThiC-associated domain; Region: ThiC-associated; pfam13667 331112012428 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 331112012429 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 331112012430 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 331112012431 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 331112012432 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 331112012433 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 331112012434 putative NADH binding site [chemical binding]; other site 331112012435 putative active site [active] 331112012436 nudix motif; other site 331112012437 putative metal binding site [ion binding]; other site 331112012438 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 331112012439 substrate binding site [chemical binding]; other site 331112012440 active site 331112012441 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 331112012442 Active_site [active] 331112012443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 331112012444 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 331112012445 IHF dimer interface [polypeptide binding]; other site 331112012446 IHF - DNA interface [nucleotide binding]; other site 331112012447 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 331112012448 zinc resistance protein; Provisional; Region: zraP; PRK11546 331112012449 dimer interface [polypeptide binding]; other site 331112012450 sensor protein ZraS; Provisional; Region: PRK10364 331112012451 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 331112012452 dimer interface [polypeptide binding]; other site 331112012453 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 331112012454 ATP binding site [chemical binding]; other site 331112012455 Mg2+ binding site [ion binding]; other site 331112012456 G-X-G motif; other site 331112012457 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 331112012458 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 331112012459 active site 331112012460 phosphorylation site [posttranslational modification] 331112012461 intermolecular recognition site; other site 331112012462 dimerization interface [polypeptide binding]; other site 331112012463 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 331112012464 Walker A motif; other site 331112012465 ATP binding site [chemical binding]; other site 331112012466 Walker B motif; other site 331112012467 arginine finger; other site 331112012468 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 331112012469 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 331112012470 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 331112012471 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 331112012472 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 331112012473 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 331112012474 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 331112012475 purine monophosphate binding site [chemical binding]; other site 331112012476 dimer interface [polypeptide binding]; other site 331112012477 putative catalytic residues [active] 331112012478 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 331112012479 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 331112012480 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112012481 Coenzyme A binding pocket [chemical binding]; other site 331112012482 homoserine O-succinyltransferase; Provisional; Region: PRK05368 331112012483 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 331112012484 proposed active site lysine [active] 331112012485 conserved cys residue [active] 331112012486 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 331112012487 malate synthase A; Region: malate_syn_A; TIGR01344 331112012488 active site 331112012489 isocitrate lyase; Provisional; Region: PRK15063 331112012490 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 331112012491 tetramer interface [polypeptide binding]; other site 331112012492 active site 331112012493 Mg2+/Mn2+ binding site [ion binding]; other site 331112012494 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 331112012495 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 331112012496 transcriptional repressor IclR; Provisional; Region: PRK11569 331112012497 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 331112012498 Bacterial transcriptional regulator; Region: IclR; pfam01614 331112012499 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 331112012500 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 331112012501 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 331112012502 substrate binding pocket [chemical binding]; other site 331112012503 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 331112012504 B12 binding site [chemical binding]; other site 331112012505 cobalt ligand [ion binding]; other site 331112012506 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 331112012507 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 331112012508 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 331112012509 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 331112012510 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 331112012511 active site pocket [active] 331112012512 oxyanion hole [active] 331112012513 catalytic triad [active] 331112012514 active site nucleophile [active] 331112012515 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 331112012516 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 331112012517 RNA binding surface [nucleotide binding]; other site 331112012518 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 331112012519 probable active site [active] 331112012520 hypothetical protein; Provisional; Region: PRK10515 331112012521 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 331112012522 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 331112012523 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 331112012524 Zeta toxin; Region: Zeta_toxin; pfam06414 331112012525 aspartate kinase III; Validated; Region: PRK09084 331112012526 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 331112012527 nucleotide binding site [chemical binding]; other site 331112012528 putative catalytic residues [active] 331112012529 aspartate binding site [chemical binding]; other site 331112012530 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 331112012531 lysine allosteric regulatory site; other site 331112012532 dimer interface [polypeptide binding]; other site 331112012533 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 331112012534 dimer interface [polypeptide binding]; other site 331112012535 Lysine riboswitch; EcHS_A4808 331112012536 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 331112012537 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 331112012538 active site 331112012539 dimer interface [polypeptide binding]; other site 331112012540 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 331112012541 dimer interface [polypeptide binding]; other site 331112012542 active site 331112012543 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 331112012544 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 331112012545 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 331112012546 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 331112012547 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 331112012548 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 331112012549 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112012550 putative substrate translocation pore; other site 331112012551 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112012552 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 331112012553 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 331112012554 dimer interface [polypeptide binding]; other site 331112012555 conserved gate region; other site 331112012556 putative PBP binding loops; other site 331112012557 ABC-ATPase subunit interface; other site 331112012558 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 331112012559 dimer interface [polypeptide binding]; other site 331112012560 conserved gate region; other site 331112012561 putative PBP binding loops; other site 331112012562 ABC-ATPase subunit interface; other site 331112012563 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 331112012564 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 331112012565 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 331112012566 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 331112012567 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 331112012568 Walker A/P-loop; other site 331112012569 ATP binding site [chemical binding]; other site 331112012570 Q-loop/lid; other site 331112012571 ABC transporter signature motif; other site 331112012572 Walker B; other site 331112012573 D-loop; other site 331112012574 H-loop/switch region; other site 331112012575 TOBE domain; Region: TOBE_2; pfam08402 331112012576 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 331112012577 trimer interface; other site 331112012578 sugar binding site [chemical binding]; other site 331112012579 maltose regulon periplasmic protein; Provisional; Region: PRK10564 331112012580 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 331112012581 SopA-like central domain; Region: SopA; pfam13981 331112012582 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 331112012583 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 331112012584 UbiA prenyltransferase family; Region: UbiA; pfam01040 331112012585 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 331112012586 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 331112012587 putative acyl-acceptor binding pocket; other site 331112012588 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 331112012589 LexA repressor; Validated; Region: PRK00215 331112012590 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 331112012591 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 331112012592 Catalytic site [active] 331112012593 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 331112012594 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 331112012595 hypothetical protein; Provisional; Region: PRK10428 331112012596 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 331112012597 metal binding site 2 [ion binding]; metal-binding site 331112012598 putative DNA binding helix; other site 331112012599 metal binding site 1 [ion binding]; metal-binding site 331112012600 dimer interface [polypeptide binding]; other site 331112012601 structural Zn2+ binding site [ion binding]; other site 331112012602 Protein of unknown function (DUF2713); Region: DUF2713; pfam10897 331112012603 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 331112012604 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 331112012605 FMN binding site [chemical binding]; other site 331112012606 active site 331112012607 catalytic residues [active] 331112012608 substrate binding site [chemical binding]; other site 331112012609 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 331112012610 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 331112012611 NADP binding site [chemical binding]; other site 331112012612 dimer interface [polypeptide binding]; other site 331112012613 replicative DNA helicase; Provisional; Region: PRK08006 331112012614 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 331112012615 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 331112012616 Walker A motif; other site 331112012617 ATP binding site [chemical binding]; other site 331112012618 Walker B motif; other site 331112012619 DNA binding loops [nucleotide binding] 331112012620 alanine racemase; Reviewed; Region: alr; PRK00053 331112012621 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 331112012622 active site 331112012623 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 331112012624 substrate binding site [chemical binding]; other site 331112012625 catalytic residues [active] 331112012626 dimer interface [polypeptide binding]; other site 331112012627 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 331112012628 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 331112012629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112012630 homodimer interface [polypeptide binding]; other site 331112012631 catalytic residue [active] 331112012632 secondary thiamine-phosphate synthase enzyme; Region: TIGR00149_YjbQ 331112012633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 331112012634 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 331112012635 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 331112012636 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 331112012637 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 331112012638 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 331112012639 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 331112012640 dimer interface [polypeptide binding]; other site 331112012641 ssDNA binding site [nucleotide binding]; other site 331112012642 tetramer (dimer of dimers) interface [polypeptide binding]; other site 331112012643 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 331112012644 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 331112012645 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 331112012646 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 331112012647 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 331112012648 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112012649 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 331112012650 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 331112012651 DNA binding residues [nucleotide binding] 331112012652 dimer interface [polypeptide binding]; other site 331112012653 [2Fe-2S] cluster binding site [ion binding]; other site 331112012654 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 331112012655 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 331112012656 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 331112012657 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 331112012658 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 331112012659 Na binding site [ion binding]; other site 331112012660 Predicted membrane protein [Function unknown]; Region: COG3162 331112012661 acetyl-CoA synthetase; Provisional; Region: PRK00174 331112012662 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 331112012663 active site 331112012664 CoA binding site [chemical binding]; other site 331112012665 acyl-activating enzyme (AAE) consensus motif; other site 331112012666 AMP binding site [chemical binding]; other site 331112012667 acetate binding site [chemical binding]; other site 331112012668 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 331112012669 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 331112012670 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 331112012671 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 331112012672 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 331112012673 heme lyase subunit NrfE; Provisional; Region: PRK10369 331112012674 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 331112012675 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 331112012676 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 331112012677 binding surface 331112012678 TPR motif; other site 331112012679 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 331112012680 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 331112012681 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 331112012682 Sel1-like repeats; Region: SEL1; smart00671 331112012683 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 331112012684 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 331112012685 [4Fe-4S] binding site [ion binding]; other site 331112012686 molybdopterin cofactor binding site; other site 331112012687 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 331112012688 molybdopterin cofactor binding site; other site 331112012689 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 331112012690 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 331112012691 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 331112012692 multidrug resistance protein MdtN; Provisional; Region: PRK10476 331112012693 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 331112012694 HlyD family secretion protein; Region: HlyD_3; pfam13437 331112012695 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 331112012696 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 331112012697 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 331112012698 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 331112012699 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112012700 Coenzyme A binding pocket [chemical binding]; other site 331112012701 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 331112012702 AAA domain; Region: AAA_18; pfam13238 331112012703 active site 331112012704 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 331112012705 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 331112012706 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 331112012707 active site 331112012708 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 331112012709 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 331112012710 Walker A/P-loop; other site 331112012711 ATP binding site [chemical binding]; other site 331112012712 Q-loop/lid; other site 331112012713 ABC transporter signature motif; other site 331112012714 Walker B; other site 331112012715 D-loop; other site 331112012716 H-loop/switch region; other site 331112012717 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 331112012718 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 331112012719 Walker A/P-loop; other site 331112012720 ATP binding site [chemical binding]; other site 331112012721 Q-loop/lid; other site 331112012722 ABC transporter signature motif; other site 331112012723 Walker B; other site 331112012724 D-loop; other site 331112012725 H-loop/switch region; other site 331112012726 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331112012727 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 331112012728 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 331112012729 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 331112012730 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 331112012731 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 331112012732 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112012733 DNA-binding site [nucleotide binding]; DNA binding site 331112012734 UTRA domain; Region: UTRA; pfam07702 331112012735 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 331112012736 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 331112012737 dimer interface [polypeptide binding]; other site 331112012738 conserved gate region; other site 331112012739 putative PBP binding loops; other site 331112012740 ABC-ATPase subunit interface; other site 331112012741 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 331112012742 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 331112012743 substrate binding pocket [chemical binding]; other site 331112012744 membrane-bound complex binding site; other site 331112012745 hinge residues; other site 331112012746 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 331112012747 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 331112012748 Walker A/P-loop; other site 331112012749 ATP binding site [chemical binding]; other site 331112012750 Q-loop/lid; other site 331112012751 ABC transporter signature motif; other site 331112012752 Walker B; other site 331112012753 D-loop; other site 331112012754 H-loop/switch region; other site 331112012755 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 331112012756 dimer interface [polypeptide binding]; other site 331112012757 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 331112012758 hypothetical protein; Provisional; Region: PRK10220 331112012759 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 331112012760 PhnA protein; Region: PhnA; pfam03831 331112012761 hypothetical protein; Provisional; Region: PRK09866 331112012762 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 331112012763 G1 box; other site 331112012764 GTP/Mg2+ binding site [chemical binding]; other site 331112012765 G2 box; other site 331112012766 Switch I region; other site 331112012767 G3 box; other site 331112012768 Switch II region; other site 331112012769 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 331112012770 G2 box; other site 331112012771 Switch I region; other site 331112012772 G3 box; other site 331112012773 Switch II region; other site 331112012774 G4 box; other site 331112012775 G5 box; other site 331112012776 YjcZ-like protein; Region: YjcZ; pfam13990 331112012777 proline/glycine betaine transporter; Provisional; Region: PRK10642 331112012778 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112012779 putative substrate translocation pore; other site 331112012780 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 331112012781 sensor protein BasS/PmrB; Provisional; Region: PRK10755 331112012782 HAMP domain; Region: HAMP; pfam00672 331112012783 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 331112012784 dimer interface [polypeptide binding]; other site 331112012785 phosphorylation site [posttranslational modification] 331112012786 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 331112012787 ATP binding site [chemical binding]; other site 331112012788 Mg2+ binding site [ion binding]; other site 331112012789 G-X-G motif; other site 331112012790 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 331112012791 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 331112012792 active site 331112012793 phosphorylation site [posttranslational modification] 331112012794 intermolecular recognition site; other site 331112012795 dimerization interface [polypeptide binding]; other site 331112012796 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 331112012797 DNA binding site [nucleotide binding] 331112012798 putative metal dependent hydrolase; Provisional; Region: PRK11598 331112012799 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 331112012800 Sulfatase; Region: Sulfatase; pfam00884 331112012801 arginine:agmatin antiporter; Provisional; Region: PRK10644 331112012802 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 331112012803 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112012804 arginine decarboxylase; Provisional; Region: PRK15029 331112012805 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 331112012806 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 331112012807 homodimer interface [polypeptide binding]; other site 331112012808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112012809 catalytic residue [active] 331112012810 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 331112012811 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 331112012812 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112012813 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112012814 alpha-galactosidase; Provisional; Region: PRK15076 331112012815 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 331112012816 NAD binding site [chemical binding]; other site 331112012817 sugar binding site [chemical binding]; other site 331112012818 divalent metal binding site [ion binding]; other site 331112012819 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 331112012820 dimer interface [polypeptide binding]; other site 331112012821 melibiose:sodium symporter; Provisional; Region: PRK10429 331112012822 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 331112012823 hypothetical protein; Provisional; Region: PRK09867 331112012824 fumarate hydratase; Provisional; Region: PRK15389 331112012825 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 331112012826 Fumarase C-terminus; Region: Fumerase_C; pfam05683 331112012827 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 331112012828 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 331112012829 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 331112012830 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 331112012831 active site 331112012832 phosphorylation site [posttranslational modification] 331112012833 intermolecular recognition site; other site 331112012834 dimerization interface [polypeptide binding]; other site 331112012835 Transcriptional regulator; Region: CitT; pfam12431 331112012836 sensory histidine kinase DcuS; Provisional; Region: PRK11086 331112012837 PAS domain; Region: PAS; smart00091 331112012838 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 331112012839 ATP binding site [chemical binding]; other site 331112012840 Mg2+ binding site [ion binding]; other site 331112012841 G-X-G motif; other site 331112012842 Uncharacterized conserved protein [Function unknown]; Region: COG3592 331112012843 Predicted acetyltransferase [General function prediction only]; Region: COG2388 331112012844 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 331112012845 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 331112012846 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 331112012847 dimer interface [polypeptide binding]; other site 331112012848 putative anticodon binding site; other site 331112012849 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 331112012850 motif 1; other site 331112012851 active site 331112012852 motif 2; other site 331112012853 motif 3; other site 331112012854 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 331112012855 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112012856 putative substrate translocation pore; other site 331112012857 POT family; Region: PTR2; pfam00854 331112012858 lysine decarboxylase CadA; Provisional; Region: PRK15400 331112012859 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 331112012860 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 331112012861 homodimer interface [polypeptide binding]; other site 331112012862 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112012863 catalytic residue [active] 331112012864 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 331112012865 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 331112012866 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 331112012867 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 331112012868 DNA binding site [nucleotide binding] 331112012869 putative transcriptional regulator; Provisional; Region: PRK11640 331112012870 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112012871 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 331112012872 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 331112012873 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 331112012874 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 331112012875 DsbD alpha interface [polypeptide binding]; other site 331112012876 catalytic residues [active] 331112012877 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 331112012878 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 331112012879 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 331112012880 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 331112012881 Aspartase; Region: Aspartase; cd01357 331112012882 active sites [active] 331112012883 tetramer interface [polypeptide binding]; other site 331112012884 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 331112012885 putative transporter; Provisional; Region: PRK11021 331112012886 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 331112012887 oligomerisation interface [polypeptide binding]; other site 331112012888 mobile loop; other site 331112012889 roof hairpin; other site 331112012890 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 331112012891 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 331112012892 ring oligomerisation interface [polypeptide binding]; other site 331112012893 ATP/Mg binding site [chemical binding]; other site 331112012894 stacking interactions; other site 331112012895 hinge regions; other site 331112012896 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 331112012897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112012898 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112012899 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112012900 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 331112012901 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 331112012902 FeS/SAM binding site; other site 331112012903 elongation factor P; Validated; Region: PRK00529 331112012904 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 331112012905 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 331112012906 RNA binding site [nucleotide binding]; other site 331112012907 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 331112012908 RNA binding site [nucleotide binding]; other site 331112012909 entericidin A; Provisional; Region: PRK09810 331112012910 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 331112012911 multidrug efflux system protein; Provisional; Region: PRK11431 331112012912 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 331112012913 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 331112012914 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 331112012915 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 331112012916 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 331112012917 Iron-sulfur protein interface; other site 331112012918 proximal quinone binding site [chemical binding]; other site 331112012919 C-subunit interface; other site 331112012920 distal quinone binding site; other site 331112012921 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 331112012922 D-subunit interface [polypeptide binding]; other site 331112012923 Iron-sulfur protein interface; other site 331112012924 proximal quinone binding site [chemical binding]; other site 331112012925 distal quinone binding site [chemical binding]; other site 331112012926 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 331112012927 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 331112012928 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 331112012929 L-aspartate oxidase; Provisional; Region: PRK06175 331112012930 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 331112012931 poxB regulator PoxA; Provisional; Region: PRK09350 331112012932 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 331112012933 motif 1; other site 331112012934 dimer interface [polypeptide binding]; other site 331112012935 active site 331112012936 motif 2; other site 331112012937 motif 3; other site 331112012938 inner membrane transporter YjeM; Provisional; Region: PRK15238 331112012939 putative mechanosensitive channel protein; Provisional; Region: PRK10929 331112012940 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 331112012941 DNA-binding site [nucleotide binding]; DNA binding site 331112012942 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 331112012943 Mechanosensitive ion channel; Region: MS_channel; pfam00924 331112012944 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 331112012945 GTPase RsgA; Reviewed; Region: PRK12288 331112012946 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 331112012947 RNA binding site [nucleotide binding]; other site 331112012948 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 331112012949 GTPase/Zn-binding domain interface [polypeptide binding]; other site 331112012950 GTP/Mg2+ binding site [chemical binding]; other site 331112012951 G4 box; other site 331112012952 G5 box; other site 331112012953 G1 box; other site 331112012954 Switch I region; other site 331112012955 G2 box; other site 331112012956 G3 box; other site 331112012957 Switch II region; other site 331112012958 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 331112012959 catalytic site [active] 331112012960 putative active site [active] 331112012961 putative substrate binding site [chemical binding]; other site 331112012962 dimer interface [polypeptide binding]; other site 331112012963 epoxyqueuosine reductase; Region: TIGR00276 331112012964 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 331112012965 putative carbohydrate kinase; Provisional; Region: PRK10565 331112012966 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 331112012967 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 331112012968 putative substrate binding site [chemical binding]; other site 331112012969 putative ATP binding site [chemical binding]; other site 331112012970 ADP-binding protein; Provisional; Region: PRK10646 331112012971 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 331112012972 AMIN domain; Region: AMIN; pfam11741 331112012973 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 331112012974 active site 331112012975 metal binding site [ion binding]; metal-binding site 331112012976 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 331112012977 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 331112012978 ATP binding site [chemical binding]; other site 331112012979 Mg2+ binding site [ion binding]; other site 331112012980 G-X-G motif; other site 331112012981 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 331112012982 ATP binding site [chemical binding]; other site 331112012983 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 331112012984 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 331112012985 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 331112012986 bacterial Hfq-like; Region: Hfq; cd01716 331112012987 hexamer interface [polypeptide binding]; other site 331112012988 Sm1 motif; other site 331112012989 RNA binding site [nucleotide binding]; other site 331112012990 Sm2 motif; other site 331112012991 GTPase HflX; Provisional; Region: PRK11058 331112012992 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 331112012993 HflX GTPase family; Region: HflX; cd01878 331112012994 G1 box; other site 331112012995 GTP/Mg2+ binding site [chemical binding]; other site 331112012996 Switch I region; other site 331112012997 G2 box; other site 331112012998 G3 box; other site 331112012999 Switch II region; other site 331112013000 G4 box; other site 331112013001 G5 box; other site 331112013002 FtsH protease regulator HflK; Provisional; Region: PRK10930 331112013003 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 331112013004 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 331112013005 FtsH protease regulator HflC; Provisional; Region: PRK11029 331112013006 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 331112013007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 331112013008 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 331112013009 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 331112013010 GDP-binding site [chemical binding]; other site 331112013011 ACT binding site; other site 331112013012 IMP binding site; other site 331112013013 Predicted transcriptional regulator [Transcription]; Region: COG1959 331112013014 transcriptional repressor NsrR; Provisional; Region: PRK11014 331112013015 exoribonuclease R; Provisional; Region: PRK11642 331112013016 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 331112013017 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 331112013018 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 331112013019 RNB domain; Region: RNB; pfam00773 331112013020 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 331112013021 RNA binding site [nucleotide binding]; other site 331112013022 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 331112013023 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 331112013024 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 331112013025 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 331112013026 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 331112013027 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 331112013028 Predicted membrane protein [Function unknown]; Region: COG3766 331112013029 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 331112013030 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 331112013031 Predicted integral membrane protein [Function unknown]; Region: COG5463 331112013032 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 331112013033 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 331112013034 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 331112013035 FAD binding site [chemical binding]; other site 331112013036 substrate binding site [chemical binding]; other site 331112013037 catalytic residues [active] 331112013038 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 331112013039 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 331112013040 esterase; Provisional; Region: PRK10566 331112013041 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 331112013042 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 331112013043 transcriptional repressor UlaR; Provisional; Region: PRK13509 331112013044 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 331112013045 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 331112013046 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 331112013047 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 331112013048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 331112013049 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 331112013050 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 331112013051 active site 331112013052 P-loop; other site 331112013053 phosphorylation site [posttranslational modification] 331112013054 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 331112013055 active site 331112013056 phosphorylation site [posttranslational modification] 331112013057 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 331112013058 active site 331112013059 dimer interface [polypeptide binding]; other site 331112013060 magnesium binding site [ion binding]; other site 331112013061 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 331112013062 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 331112013063 AP (apurinic/apyrimidinic) site pocket; other site 331112013064 DNA interaction; other site 331112013065 Metal-binding active site; metal-binding site 331112013066 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 331112013067 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 331112013068 intersubunit interface [polypeptide binding]; other site 331112013069 active site 331112013070 Zn2+ binding site [ion binding]; other site 331112013071 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 331112013072 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 331112013073 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 331112013074 dimer interface [polypeptide binding]; other site 331112013075 ssDNA binding site [nucleotide binding]; other site 331112013076 tetramer (dimer of dimers) interface [polypeptide binding]; other site 331112013077 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 331112013078 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 331112013079 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 331112013080 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 331112013081 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 331112013082 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 331112013083 DctM-like transporters; Region: DctM; pfam06808 331112013084 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 331112013085 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 331112013086 L-aspartate oxidase; Provisional; Region: PRK06175 331112013087 L-aspartate oxidase; Provisional; Region: PRK06175 331112013088 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 331112013089 Coenzyme A transferase; Region: CoA_trans; smart00882 331112013090 Coenzyme A transferase; Region: CoA_trans; cl17247 331112013091 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 331112013092 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 331112013093 substrate binding site [chemical binding]; other site 331112013094 oxyanion hole (OAH) forming residues; other site 331112013095 trimer interface [polypeptide binding]; other site 331112013096 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 331112013097 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 331112013098 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 1, classical (c) SDR; Region: BKR_1_SDR_c; cd05337 331112013099 putative NAD(P) binding site [chemical binding]; other site 331112013100 active site 331112013101 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 331112013102 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112013103 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 331112013104 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 331112013105 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 331112013106 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 331112013107 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 331112013108 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 331112013109 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 331112013110 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 331112013111 Hemerythrin-like domain; Region: Hr-like; cd12108 331112013112 Fe binding site [ion binding]; other site 331112013113 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 331112013114 EamA-like transporter family; Region: EamA; pfam00892 331112013115 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 331112013116 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 331112013117 NADP binding site [chemical binding]; other site 331112013118 Predicted transcriptional regulators [Transcription]; Region: COG1733 331112013119 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 331112013120 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 331112013121 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 331112013122 active site 331112013123 metal binding site [ion binding]; metal-binding site 331112013124 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 331112013125 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 331112013126 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 331112013127 active site 331112013128 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 331112013129 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 331112013130 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 331112013131 Domain of unknown function DUF21; Region: DUF21; pfam01595 331112013132 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 331112013133 Transporter associated domain; Region: CorC_HlyC; smart01091 331112013134 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112013135 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112013136 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112013137 methionine sulfoxide reductase A; Provisional; Region: PRK00058 331112013138 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 331112013139 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 331112013140 Surface antigen; Region: Bac_surface_Ag; pfam01103 331112013141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 331112013142 Family of unknown function (DUF490); Region: DUF490; pfam04357 331112013143 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 331112013144 putative active site pocket [active] 331112013145 dimerization interface [polypeptide binding]; other site 331112013146 putative catalytic residue [active] 331112013147 antitoxin ChpS; Provisional; Region: PRK11347 331112013148 toxin ChpB; Provisional; Region: PRK09812 331112013149 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 331112013150 dimer interface [polypeptide binding]; other site 331112013151 substrate binding site [chemical binding]; other site 331112013152 metal binding sites [ion binding]; metal-binding site 331112013153 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 331112013154 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 331112013155 putative ligand binding site [chemical binding]; other site 331112013156 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 331112013157 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 331112013158 Walker A/P-loop; other site 331112013159 ATP binding site [chemical binding]; other site 331112013160 Q-loop/lid; other site 331112013161 ABC transporter signature motif; other site 331112013162 Walker B; other site 331112013163 D-loop; other site 331112013164 H-loop/switch region; other site 331112013165 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 331112013166 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112013167 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 331112013168 TM-ABC transporter signature motif; other site 331112013169 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 331112013170 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 331112013171 TM-ABC transporter signature motif; other site 331112013172 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 331112013173 AMP binding site [chemical binding]; other site 331112013174 metal binding site [ion binding]; metal-binding site 331112013175 active site 331112013176 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 331112013177 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331112013178 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331112013179 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331112013180 hypothetical protein; Provisional; Region: PRK05255 331112013181 peptidase PmbA; Provisional; Region: PRK11040 331112013182 cytochrome b562; Provisional; Region: PRK15058 331112013183 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 331112013184 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 331112013185 FeS/SAM binding site; other site 331112013186 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 331112013187 ATP cone domain; Region: ATP-cone; pfam03477 331112013188 Class III ribonucleotide reductase; Region: RNR_III; cd01675 331112013189 effector binding site; other site 331112013190 active site 331112013191 Zn binding site [ion binding]; other site 331112013192 glycine loop; other site 331112013193 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 331112013194 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 331112013195 Ca binding site [ion binding]; other site 331112013196 active site 331112013197 catalytic site [active] 331112013198 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 331112013199 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 331112013200 active site turn [active] 331112013201 phosphorylation site [posttranslational modification] 331112013202 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 331112013203 trehalose repressor; Provisional; Region: treR; PRK09492 331112013204 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112013205 DNA binding site [nucleotide binding] 331112013206 domain linker motif; other site 331112013207 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 331112013208 dimerization interface [polypeptide binding]; other site 331112013209 ligand binding site [chemical binding]; other site 331112013210 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 331112013211 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 331112013212 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 331112013213 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 331112013214 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 331112013215 motif II; other site 331112013216 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 331112013217 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 331112013218 Transposase; Region: DEDD_Tnp_IS110; pfam01548 331112013219 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 331112013220 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 331112013221 homotrimer interaction site [polypeptide binding]; other site 331112013222 putative active site [active] 331112013223 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 331112013224 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 331112013225 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 331112013226 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 331112013227 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 331112013228 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 331112013229 PyrBI operon leader peptide; Region: PyrBI_leader; pfam08052 331112013230 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 331112013231 homotrimer interaction site [polypeptide binding]; other site 331112013232 putative active site [active] 331112013233 oxidoreductase; Provisional; Region: PRK12742 331112013234 classical (c) SDRs; Region: SDR_c; cd05233 331112013235 NAD(P) binding site [chemical binding]; other site 331112013236 active site 331112013237 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 331112013238 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 331112013239 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 331112013240 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 331112013241 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 331112013242 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 331112013243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 331112013244 RNase E inhibitor protein; Provisional; Region: PRK11191 331112013245 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 331112013246 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112013247 Coenzyme A binding pocket [chemical binding]; other site 331112013248 Predicted membrane protein [Function unknown]; Region: COG4269 331112013249 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 331112013250 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 331112013251 HIGH motif; other site 331112013252 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 331112013253 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 331112013254 active site 331112013255 KMSKS motif; other site 331112013256 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 331112013257 tRNA binding surface [nucleotide binding]; other site 331112013258 anticodon binding site; other site 331112013259 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 331112013260 DNA polymerase III subunit chi; Validated; Region: PRK05728 331112013261 multifunctional aminopeptidase A; Provisional; Region: PRK00913 331112013262 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 331112013263 interface (dimer of trimers) [polypeptide binding]; other site 331112013264 Substrate-binding/catalytic site; other site 331112013265 Zn-binding sites [ion binding]; other site 331112013266 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 331112013267 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 331112013268 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 331112013269 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 331112013270 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 331112013271 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 331112013272 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 331112013273 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 331112013274 DNA binding site [nucleotide binding] 331112013275 domain linker motif; other site 331112013276 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 331112013277 putative dimerization interface [polypeptide binding]; other site 331112013278 putative ligand binding site [chemical binding]; other site 331112013279 fructuronate transporter; Provisional; Region: PRK10034; cl15264 331112013280 gluconate transporter; Region: gntP; TIGR00791 331112013281 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 331112013282 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 331112013283 NADP binding site [chemical binding]; other site 331112013284 homodimer interface [polypeptide binding]; other site 331112013285 active site 331112013286 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 331112013287 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 331112013288 putative NAD(P) binding site [chemical binding]; other site 331112013289 catalytic Zn binding site [ion binding]; other site 331112013290 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 331112013291 ATP-binding site [chemical binding]; other site 331112013292 Gluconate-6-phosphate binding site [chemical binding]; other site 331112013293 Shikimate kinase; Region: SKI; pfam01202 331112013294 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 331112013295 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 331112013296 putative NAD(P) binding site [chemical binding]; other site 331112013297 putative substrate binding site [chemical binding]; other site 331112013298 catalytic Zn binding site [ion binding]; other site 331112013299 structural Zn binding site [ion binding]; other site 331112013300 dimer interface [polypeptide binding]; other site 331112013301 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 331112013302 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 331112013303 Int/Topo IB signature motif; other site 331112013304 HNH endonuclease; Region: HNH_5; pfam14279 331112013305 putative transposase OrfB; Reviewed; Region: PHA02517 331112013306 HTH-like domain; Region: HTH_21; pfam13276 331112013307 Integrase core domain; Region: rve; pfam00665 331112013308 Integrase core domain; Region: rve_2; pfam13333 331112013309 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 331112013310 Transposase; Region: HTH_Tnp_1; pfam01527 331112013311 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 331112013312 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 331112013313 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 331112013314 HNH endonuclease; Region: HNH_2; pfam13391 331112013315 Domain of unknown function (DUF303); Region: DUF303; pfam03629 331112013316 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 331112013317 Kelch motif; Region: Kelch_1; pfam01344 331112013318 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 331112013319 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 331112013320 Int/Topo IB signature motif; other site 331112013321 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 331112013322 Int/Topo IB signature motif; other site 331112013323 Fimbrial protein; Region: Fimbrial; cl01416 331112013324 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 331112013325 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 331112013326 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 331112013327 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 331112013328 outer membrane usher protein; Provisional; Region: PRK15193 331112013329 PapC N-terminal domain; Region: PapC_N; pfam13954 331112013330 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 331112013331 PapC C-terminal domain; Region: PapC_C; pfam13953 331112013332 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 331112013333 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 331112013334 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 331112013335 mannosyl binding site [chemical binding]; other site 331112013336 Fimbrial protein; Region: Fimbrial; pfam00419 331112013337 fructuronate transporter; Provisional; Region: PRK10034 331112013338 gluconate transporter; Region: gntP; TIGR00791 331112013339 mannonate dehydratase; Region: uxuA; TIGR00695 331112013340 mannonate dehydratase; Provisional; Region: PRK03906 331112013341 D-mannonate oxidoreductase; Provisional; Region: PRK15037 331112013342 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 331112013343 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 331112013344 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 331112013345 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112013346 DNA-binding site [nucleotide binding]; DNA binding site 331112013347 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 331112013348 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 331112013349 DNA replication/recombination/repair protein; Provisional; Region: iraD; PRK14128 331112013350 cell density-dependent motility repressor; Provisional; Region: PRK10082 331112013351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 331112013352 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 331112013353 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 331112013354 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 331112013355 dimer interface [polypeptide binding]; other site 331112013356 active site 331112013357 hypothetical protein; Provisional; Region: PRK10519 331112013358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 331112013359 Nucleoside recognition; Region: Gate; pfam07670 331112013360 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 331112013361 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 331112013362 Major Facilitator Superfamily; Region: MFS_1; pfam07690 331112013363 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112013364 putative substrate translocation pore; other site 331112013365 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3204 331112013366 SdiA-regulated; Region: SdiA-regulated; cd09971 331112013367 putative active site [active] 331112013368 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 331112013369 CoA-substrate-specific enzyme activase, putative; Region: CoA_E_activ; TIGR00241 331112013370 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 331112013371 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 331112013372 Predicted membrane protein [Function unknown]; Region: COG2733 331112013373 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 331112013374 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112013375 putative substrate translocation pore; other site 331112013376 putative transposase; Provisional; Region: PRK09857 331112013377 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 331112013378 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 331112013379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112013380 DNA-binding site [nucleotide binding]; DNA binding site 331112013381 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 331112013382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331112013383 homodimer interface [polypeptide binding]; other site 331112013384 catalytic residue [active] 331112013385 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 331112013386 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 331112013387 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 331112013388 P-loop, Walker A motif; other site 331112013389 Base recognition motif; other site 331112013390 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 331112013391 Uncharacterized small protein [Function unknown]; Region: COG2879 331112013392 carbon starvation protein A; Provisional; Region: PRK15015 331112013393 Carbon starvation protein CstA; Region: CstA; pfam02554 331112013394 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 331112013395 4-hydroxyphenylacetate 3-monooxygenase reductase subunit; Provisional; Region: hpaC; PRK15486 331112013396 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 331112013397 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 331112013398 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 331112013399 Cupin domain; Region: Cupin_2; pfam07883 331112013400 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112013401 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112013402 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 331112013403 putative substrate translocation pore; other site 331112013404 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 331112013405 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 331112013406 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 331112013407 putative substrate binding pocket [chemical binding]; other site 331112013408 trimer interface [polypeptide binding]; other site 331112013409 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 331112013410 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 331112013411 putative active site [active] 331112013412 putative metal binding site [ion binding]; other site 331112013413 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 331112013414 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 331112013415 NAD binding site [chemical binding]; other site 331112013416 catalytic residues [active] 331112013417 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase; Provisional; Region: PRK15203 331112013418 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit; Region: HpaG-N-term; TIGR02305 331112013419 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 331112013420 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 331112013421 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 331112013422 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 331112013423 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 331112013424 dimer interface [polypeptide binding]; other site 331112013425 ligand binding site [chemical binding]; other site 331112013426 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 331112013427 dimerization interface [polypeptide binding]; other site 331112013428 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 331112013429 dimer interface [polypeptide binding]; other site 331112013430 putative CheW interface [polypeptide binding]; other site 331112013431 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 331112013432 D-galactonate transporter; Region: 2A0114; TIGR00893 331112013433 putative substrate translocation pore; other site 331112013434 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 331112013435 DNA-binding site [nucleotide binding]; DNA binding site 331112013436 Transcriptional regulators [Transcription]; Region: GntR; COG1802 331112013437 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 331112013438 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 331112013439 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 331112013440 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 331112013441 putative NAD(P) binding site [chemical binding]; other site 331112013442 catalytic Zn binding site [ion binding]; other site 331112013443 structural Zn binding site [ion binding]; other site 331112013444 phosphoglycerol transferase I; Provisional; Region: PRK03776 331112013445 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 331112013446 hypothetical protein; Provisional; Region: PRK11667 331112013447 DNA replication protein DnaC; Validated; Region: PRK07952 331112013448 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 331112013449 Walker A motif; other site 331112013450 ATP binding site [chemical binding]; other site 331112013451 Walker B motif; other site 331112013452 primosomal protein DnaI; Provisional; Region: PRK02854 331112013453 hypothetical protein; Provisional; Region: PRK09917 331112013454 Uncharacterized conserved protein [Function unknown]; Region: COG2966 331112013455 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 331112013456 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 331112013457 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 331112013458 DNA binding residues [nucleotide binding] 331112013459 dimerization interface [polypeptide binding]; other site 331112013460 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 331112013461 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 331112013462 DNA binding residues [nucleotide binding] 331112013463 dimerization interface [polypeptide binding]; other site 331112013464 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 331112013465 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 331112013466 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 331112013467 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 331112013468 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 331112013469 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 331112013470 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 331112013471 S-adenosylmethionine binding site [chemical binding]; other site 331112013472 DNA polymerase III subunit psi; Validated; Region: PRK06856 331112013473 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 331112013474 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 331112013475 Coenzyme A binding pocket [chemical binding]; other site 331112013476 dUMP phosphatase; Provisional; Region: PRK09449 331112013477 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 331112013478 motif II; other site 331112013479 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 331112013480 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 331112013481 G1 box; other site 331112013482 putative GEF interaction site [polypeptide binding]; other site 331112013483 GTP/Mg2+ binding site [chemical binding]; other site 331112013484 Switch I region; other site 331112013485 G2 box; other site 331112013486 G3 box; other site 331112013487 Switch II region; other site 331112013488 G4 box; other site 331112013489 G5 box; other site 331112013490 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 331112013491 periplasmic protein; Provisional; Region: PRK10568 331112013492 BON domain; Region: BON; pfam04972 331112013493 BON domain; Region: BON; pfam04972 331112013494 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 331112013495 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 331112013496 active site 331112013497 nucleophile elbow; other site 331112013498 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 331112013499 active site 331112013500 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 331112013501 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 331112013502 FeS/SAM binding site; other site 331112013503 hypothetical protein; Provisional; Region: PRK10977 331112013504 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 331112013505 intersubunit interface [polypeptide binding]; other site 331112013506 active site 331112013507 catalytic residue [active] 331112013508 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 331112013509 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 331112013510 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 331112013511 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 331112013512 phosphopentomutase; Provisional; Region: PRK05362 331112013513 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 331112013514 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 331112013515 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 331112013516 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 331112013517 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 331112013518 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 331112013519 hypothetical protein; Provisional; Region: PRK11246 331112013520 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 331112013521 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 331112013522 motif II; other site 331112013523 DNA repair protein RadA; Region: sms; TIGR00416 331112013524 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 331112013525 Walker A motif/ATP binding site; other site 331112013526 ATP binding site [chemical binding]; other site 331112013527 Walker B motif; other site 331112013528 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 331112013529 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 331112013530 non-specific DNA binding site [nucleotide binding]; other site 331112013531 salt bridge; other site 331112013532 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 331112013533 sequence-specific DNA binding site [nucleotide binding]; other site 331112013534 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 331112013535 active site 331112013536 (T/H)XGH motif; other site 331112013537 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 331112013538 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 331112013539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 331112013540 Walker A/P-loop; other site 331112013541 ATP binding site [chemical binding]; other site 331112013542 Q-loop/lid; other site 331112013543 ABC transporter signature motif; other site 331112013544 Walker B; other site 331112013545 D-loop; other site 331112013546 H-loop/switch region; other site 331112013547 ABC transporter; Region: ABC_tran_2; pfam12848 331112013548 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 331112013549 lytic murein transglycosylase; Provisional; Region: PRK11619 331112013550 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 331112013551 N-acetyl-D-glucosamine binding site [chemical binding]; other site 331112013552 catalytic residue [active] 331112013553 Trp operon repressor; Provisional; Region: PRK01381 331112013554 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 331112013555 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 331112013556 catalytic core [active] 331112013557 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 331112013558 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 331112013559 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 331112013560 hypothetical protein; Provisional; Region: PRK10756 331112013561 CreA protein; Region: CreA; pfam05981 331112013562 DNA-binding response regulator CreB; Provisional; Region: PRK11083 331112013563 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 331112013564 active site 331112013565 phosphorylation site [posttranslational modification] 331112013566 intermolecular recognition site; other site 331112013567 dimerization interface [polypeptide binding]; other site 331112013568 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 331112013569 DNA binding site [nucleotide binding] 331112013570 sensory histidine kinase CreC; Provisional; Region: PRK11100 331112013571 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 331112013572 dimerization interface [polypeptide binding]; other site 331112013573 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 331112013574 dimer interface [polypeptide binding]; other site 331112013575 phosphorylation site [posttranslational modification] 331112013576 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 331112013577 ATP binding site [chemical binding]; other site 331112013578 Mg2+ binding site [ion binding]; other site 331112013579 G-X-G motif; other site 331112013580 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 331112013581 two-component response regulator; Provisional; Region: PRK11173 331112013582 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 331112013583 active site 331112013584 phosphorylation site [posttranslational modification] 331112013585 intermolecular recognition site; other site 331112013586 dimerization interface [polypeptide binding]; other site 331112013587 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 331112013588 DNA binding site [nucleotide binding] 331112013589 putative RNA methyltransferase; Provisional; Region: PRK10433 331112013590 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050