-- dump date 20140620_080516 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1163399000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1163399000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1163399000003 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 1163399000004 ATP binding site [chemical binding]; other site 1163399000005 Walker B motif; other site 1163399000006 arginine finger; other site 1163399000007 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 1163399000008 DnaA box-binding interface [nucleotide binding]; other site 1163399000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 1163399000010 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 1163399000011 putative DNA binding surface [nucleotide binding]; other site 1163399000012 dimer interface [polypeptide binding]; other site 1163399000013 beta-clamp/clamp loader binding surface; other site 1163399000014 beta-clamp/translesion DNA polymerase binding surface; other site 1163399000015 recombination protein F; Reviewed; Region: recF; PRK00064 1163399000016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399000017 Walker A/P-loop; other site 1163399000018 ATP binding site [chemical binding]; other site 1163399000019 Q-loop/lid; other site 1163399000020 ABC transporter signature motif; other site 1163399000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399000022 ABC transporter signature motif; other site 1163399000023 Walker B; other site 1163399000024 D-loop; other site 1163399000025 H-loop/switch region; other site 1163399000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1163399000027 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 1163399000028 Mg2+ binding site [ion binding]; other site 1163399000029 G-X-G motif; other site 1163399000030 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 1163399000031 anchoring element; other site 1163399000032 dimer interface [polypeptide binding]; other site 1163399000033 ATP binding site [chemical binding]; other site 1163399000034 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 1163399000035 active site 1163399000036 putative metal-binding site [ion binding]; other site 1163399000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1163399000038 CAAX protease self-immunity; Region: Abi; pfam02517 1163399000039 Peptidase family M48; Region: Peptidase_M48; pfam01435 1163399000040 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1163399000041 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163399000042 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163399000043 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1163399000044 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163399000045 TolR protein; Region: tolR; TIGR02801 1163399000046 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163399000047 TolR protein; Region: tolR; TIGR02801 1163399000048 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1163399000049 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1163399000050 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1163399000051 putative active site [active] 1163399000052 catalytic site [active] 1163399000053 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1163399000054 putative active site [active] 1163399000055 catalytic site [active] 1163399000056 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 1163399000057 active site 1163399000058 hydrophilic channel; other site 1163399000059 dimerization interface [polypeptide binding]; other site 1163399000060 catalytic residues [active] 1163399000061 active site lid [active] 1163399000062 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1163399000063 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 1163399000064 FeS/SAM binding site; other site 1163399000065 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 1163399000066 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1163399000067 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 1163399000068 AMP binding site [chemical binding]; other site 1163399000069 metal binding site [ion binding]; metal-binding site 1163399000070 active site 1163399000071 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1163399000072 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 1163399000073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399000074 homodimer interface [polypeptide binding]; other site 1163399000075 catalytic residue [active] 1163399000076 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399000077 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 1163399000078 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1163399000079 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1163399000080 putative DNA binding site [nucleotide binding]; other site 1163399000081 putative homodimer interface [polypeptide binding]; other site 1163399000082 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1163399000083 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1163399000084 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1163399000085 active site 1163399000086 DNA binding site [nucleotide binding] 1163399000087 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1163399000088 DNA binding site [nucleotide binding] 1163399000089 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1163399000090 nucleotide binding site [chemical binding]; other site 1163399000091 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1163399000092 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1163399000093 NAD binding site [chemical binding]; other site 1163399000094 substrate binding site [chemical binding]; other site 1163399000095 catalytic Zn binding site [ion binding]; other site 1163399000096 tetramer interface [polypeptide binding]; other site 1163399000097 structural Zn binding site [ion binding]; other site 1163399000098 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1163399000099 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1163399000100 active site 1163399000101 intersubunit interface [polypeptide binding]; other site 1163399000102 catalytic residue [active] 1163399000103 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 1163399000104 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1163399000105 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1163399000106 DNA binding site [nucleotide binding] 1163399000107 domain linker motif; other site 1163399000108 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 1163399000109 putative dimerization interface [polypeptide binding]; other site 1163399000110 putative ligand binding site [chemical binding]; other site 1163399000111 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 1163399000112 cofactor binding site; other site 1163399000113 metal binding site [ion binding]; metal-binding site 1163399000114 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1163399000115 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 1163399000116 dimerization interface [polypeptide binding]; other site 1163399000117 putative DNA binding site [nucleotide binding]; other site 1163399000118 putative Zn2+ binding site [ion binding]; other site 1163399000119 AsnC family; Region: AsnC_trans_reg; pfam01037 1163399000120 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1163399000121 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1163399000122 nucleophile elbow; other site 1163399000123 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1163399000124 Uncharacterized conserved protein [Function unknown]; Region: COG2013 1163399000125 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399000126 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 1163399000127 N-terminal plug; other site 1163399000128 ligand-binding site [chemical binding]; other site 1163399000129 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 1163399000130 active site 1163399000131 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1163399000132 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163399000133 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1163399000134 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399000135 Walker A/P-loop; other site 1163399000136 ATP binding site [chemical binding]; other site 1163399000137 Q-loop/lid; other site 1163399000138 ABC transporter signature motif; other site 1163399000139 Walker B; other site 1163399000140 D-loop; other site 1163399000141 H-loop/switch region; other site 1163399000142 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1163399000143 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1163399000144 Di-iron ligands [ion binding]; other site 1163399000145 EF-hand domain pair; Region: EF_hand_5; pfam13499 1163399000146 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1163399000147 Ca2+ binding site [ion binding]; other site 1163399000148 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 1163399000149 EF-hand domain pair; Region: EF_hand_5; pfam13499 1163399000150 Ca2+ binding site [ion binding]; other site 1163399000151 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1163399000152 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1163399000153 DNA binding site [nucleotide binding] 1163399000154 catalytic residue [active] 1163399000155 H2TH interface [polypeptide binding]; other site 1163399000156 putative catalytic residues [active] 1163399000157 turnover-facilitating residue; other site 1163399000158 intercalation triad [nucleotide binding]; other site 1163399000159 8OG recognition residue [nucleotide binding]; other site 1163399000160 putative reading head residues; other site 1163399000161 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1163399000162 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1163399000163 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 1163399000164 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1163399000165 thymidine kinase; Provisional; Region: PRK04296 1163399000166 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163399000167 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163399000168 Sel1 repeat; Region: Sel1; cl02723 1163399000169 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1163399000170 Part of AAA domain; Region: AAA_19; pfam13245 1163399000171 Family description; Region: UvrD_C_2; pfam13538 1163399000172 RHS Repeat; Region: RHS_repeat; cl11982 1163399000173 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1163399000174 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1163399000175 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1163399000176 Protein of unknown function, DUF480; Region: DUF480; cl01209 1163399000177 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 1163399000178 active site 1163399000179 motif I; other site 1163399000180 motif II; other site 1163399000181 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 1163399000182 active site 1163399000183 dimer interface [polypeptide binding]; other site 1163399000184 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 1163399000185 cleavage site 1163399000186 active site 1163399000187 substrate binding sites [chemical binding]; other site 1163399000188 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1163399000189 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1163399000190 putative acyl-acceptor binding pocket; other site 1163399000191 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1163399000192 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 1163399000193 Ligand Binding Site [chemical binding]; other site 1163399000194 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1163399000195 Protein of unknown function DUF45; Region: DUF45; pfam01863 1163399000196 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1163399000197 substrate binding site [chemical binding]; other site 1163399000198 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1163399000199 substrate binding site [chemical binding]; other site 1163399000200 PAS fold; Region: PAS_3; pfam08447 1163399000201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399000202 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 1163399000203 dimer interface [polypeptide binding]; other site 1163399000204 phosphorylation site [posttranslational modification] 1163399000205 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 1163399000206 ATP binding site [chemical binding]; other site 1163399000207 Mg2+ binding site [ion binding]; other site 1163399000208 G-X-G motif; other site 1163399000209 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 1163399000210 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399000211 active site 1163399000212 phosphorylation site [posttranslational modification] 1163399000213 intermolecular recognition site; other site 1163399000214 dimerization interface [polypeptide binding]; other site 1163399000215 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1163399000216 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163399000217 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163399000218 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1163399000219 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 1163399000220 active site 1163399000221 dimer interface [polypeptide binding]; other site 1163399000222 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1163399000223 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 1163399000224 active site 1163399000225 FMN binding site [chemical binding]; other site 1163399000226 substrate binding site [chemical binding]; other site 1163399000227 3Fe-4S cluster binding site [ion binding]; other site 1163399000228 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 1163399000229 domain interface; other site 1163399000230 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1163399000231 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1163399000232 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 1163399000233 active site 1163399000234 DNA binding site [nucleotide binding] 1163399000235 Int/Topo IB signature motif; other site 1163399000236 catalytic residues [active] 1163399000237 short chain dehydrogenase; Provisional; Region: PRK06701 1163399000238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399000239 NAD(P) binding site [chemical binding]; other site 1163399000240 active site 1163399000241 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163399000242 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163399000243 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1163399000245 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1163399000246 RNase_H superfamily; Region: RNase_H_2; pfam13482 1163399000247 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 1163399000248 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 1163399000249 ATP binding site [chemical binding]; other site 1163399000250 putative Mg++ binding site [ion binding]; other site 1163399000251 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 1163399000252 nucleotide binding region [chemical binding]; other site 1163399000253 ATP-binding site [chemical binding]; other site 1163399000254 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1163399000255 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1163399000256 Protein of unknown function DUF58; Region: DUF58; pfam01882 1163399000257 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 1163399000258 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1163399000259 Walker A motif; other site 1163399000260 ATP binding site [chemical binding]; other site 1163399000261 Walker B motif; other site 1163399000262 arginine finger; other site 1163399000263 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1163399000264 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1163399000265 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1163399000266 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1163399000267 Protein of unknown function (DUF938); Region: DUF938; pfam06080 1163399000268 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1163399000269 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 1163399000270 dimer interface [polypeptide binding]; other site 1163399000271 PYR/PP interface [polypeptide binding]; other site 1163399000272 TPP binding site [chemical binding]; other site 1163399000273 substrate binding site [chemical binding]; other site 1163399000274 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1163399000275 TPP-binding site; other site 1163399000276 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1163399000277 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 1163399000278 binding surface 1163399000279 TPR motif; other site 1163399000280 Ycf46; Provisional; Region: ycf46; CHL00195 1163399000281 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 1163399000282 Walker A motif; other site 1163399000283 ATP binding site [chemical binding]; other site 1163399000284 Walker B motif; other site 1163399000285 arginine finger; other site 1163399000286 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1163399000287 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1163399000288 P-loop; other site 1163399000289 Magnesium ion binding site [ion binding]; other site 1163399000290 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 1163399000291 catalytic core [active] 1163399000292 YceI-like domain; Region: YceI; pfam04264 1163399000293 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1163399000294 PLD-like domain; Region: PLDc_2; pfam13091 1163399000295 putative active site [active] 1163399000296 catalytic site [active] 1163399000297 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1163399000298 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1163399000299 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1163399000300 putative active site [active] 1163399000301 catalytic site [active] 1163399000302 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 1163399000303 CoenzymeA binding site [chemical binding]; other site 1163399000304 subunit interaction site [polypeptide binding]; other site 1163399000305 PHB binding site; other site 1163399000306 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163399000307 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1163399000308 putative acyl-acceptor binding pocket; other site 1163399000309 putative hydrolase; Provisional; Region: PRK10985 1163399000311 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1163399000312 substrate binding site [chemical binding]; other site 1163399000313 Predicted flavoprotein [General function prediction only]; Region: COG0431 1163399000314 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163399000315 META domain; Region: META; pfam03724 1163399000316 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 1163399000317 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1163399000318 glutamine synthetase; Provisional; Region: glnA; PRK09469 1163399000319 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1163399000320 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1163399000321 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1163399000322 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1163399000323 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1163399000325 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1163399000326 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 1163399000327 amidase catalytic site [active] 1163399000328 Zn binding residues [ion binding]; other site 1163399000329 substrate binding site [chemical binding]; other site 1163399000330 MltA specific insert domain; Region: MltA; smart00925 1163399000331 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1163399000332 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 1163399000333 Walker A motif; other site 1163399000334 ATP binding site [chemical binding]; other site 1163399000335 Walker B motif; other site 1163399000336 arginine finger; other site 1163399000337 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1163399000338 Helix-turn-helix domain; Region: HTH_38; pfam13936 1163399000339 Helix-turn-helix domain; Region: HTH_17; pfam12728 1163399000340 Integrase core domain; Region: rve; pfam00665 1163399000342 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1163399000343 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 1163399000344 ATP binding site [chemical binding]; other site 1163399000345 Mg2+ binding site [ion binding]; other site 1163399000346 G-X-G motif; other site 1163399000347 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1163399000348 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 1163399000349 active site 1163399000350 phosphorylation site [posttranslational modification] 1163399000351 intermolecular recognition site; other site 1163399000352 dimerization interface [polypeptide binding]; other site 1163399000353 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 1163399000354 Walker A motif; other site 1163399000355 ATP binding site [chemical binding]; other site 1163399000356 Walker B motif; other site 1163399000357 arginine finger; other site 1163399000358 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 1163399000359 active site 1163399000360 Cu2+ binding site [ion binding]; other site 1163399000361 E-class dimer interface [polypeptide binding]; other site 1163399000362 Zn2+ binding site [ion binding]; other site 1163399000363 P-class dimer interface [polypeptide binding]; other site 1163399000364 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 1163399000365 E-class dimer interface [polypeptide binding]; other site 1163399000366 P-class dimer interface [polypeptide binding]; other site 1163399000367 active site 1163399000368 Cu2+ binding site [ion binding]; other site 1163399000369 Zn2+ binding site [ion binding]; other site 1163399000371 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1163399000372 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 1163399000373 dimer interface [polypeptide binding]; other site 1163399000374 active site 1163399000375 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1163399000376 HemY protein N-terminus; Region: HemY_N; pfam07219 1163399000377 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 1163399000378 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 1163399000379 active site 1163399000380 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1163399000381 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 1163399000382 active site residue [active] 1163399000383 preprotein translocase subunit SecB; Validated; Region: PRK05751 1163399000384 SecA binding site; other site 1163399000385 Preprotein binding site; other site 1163399000386 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1163399000387 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1163399000388 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1163399000389 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1163399000390 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; cl07428 1163399000391 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1163399000392 Sodium Bile acid symporter family; Region: SBF; cl17470 1163399000393 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1163399000394 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1163399000395 active site 1163399000396 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 1163399000397 dimerization interface [polypeptide binding]; other site 1163399000398 putative DNA binding site [nucleotide binding]; other site 1163399000399 putative Zn2+ binding site [ion binding]; other site 1163399000400 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1163399000401 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163399000402 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 1163399000403 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1163399000404 HTH-like domain; Region: HTH_21; pfam13276 1163399000405 Integrase core domain; Region: rve; pfam00665 1163399000406 Integrase core domain; Region: rve_3; pfam13683 1163399000407 Transposase; Region: HTH_Tnp_1; pfam01527 1163399000409 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1163399000410 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399000411 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1163399000412 H+ Antiporter protein; Region: 2A0121; TIGR00900 1163399000413 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399000414 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1163399000415 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1163399000416 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 1163399000417 carboxyltransferase (CT) interaction site; other site 1163399000418 biotinylation site [posttranslational modification]; other site 1163399000419 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399000420 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1163399000421 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1163399000423 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399000424 AAA domain; Region: AAA_23; pfam13476 1163399000425 Walker A/P-loop; other site 1163399000426 ATP binding site [chemical binding]; other site 1163399000427 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 1163399000428 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163399000429 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399000430 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1163399000431 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1163399000432 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1163399000433 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1163399000434 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 1163399000435 N-terminal plug; other site 1163399000436 ligand-binding site [chemical binding]; other site 1163399000437 Phosphotransferase enzyme family; Region: APH; pfam01636 1163399000438 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 1163399000439 active site 1163399000440 ATP binding site [chemical binding]; other site 1163399000441 substrate binding site [chemical binding]; other site 1163399000442 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 1163399000443 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163399000444 catalytic residue [active] 1163399000445 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163399000446 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1163399000447 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1163399000448 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1163399000449 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399000450 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 1163399000451 active site 1163399000452 phosphorylation site [posttranslational modification] 1163399000453 intermolecular recognition site; other site 1163399000454 dimerization interface [polypeptide binding]; other site 1163399000455 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 1163399000456 DNA binding residues [nucleotide binding] 1163399000457 dimerization interface [polypeptide binding]; other site 1163399000458 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163399000459 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 1163399000460 substrate binding pocket [chemical binding]; other site 1163399000461 membrane-bound complex binding site; other site 1163399000462 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163399000463 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 1163399000464 substrate binding pocket [chemical binding]; other site 1163399000465 membrane-bound complex binding site; other site 1163399000466 hinge residues; other site 1163399000467 PAS fold; Region: PAS_3; pfam08447 1163399000468 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 1163399000469 dimer interface [polypeptide binding]; other site 1163399000470 phosphorylation site [posttranslational modification] 1163399000471 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 1163399000472 ATP binding site [chemical binding]; other site 1163399000473 Mg2+ binding site [ion binding]; other site 1163399000474 G-X-G motif; other site 1163399000475 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 1163399000476 active site 1163399000477 phosphorylation site [posttranslational modification] 1163399000478 intermolecular recognition site; other site 1163399000479 dimerization interface [polypeptide binding]; other site 1163399000480 Cytochrome c; Region: Cytochrom_C; cl11414 1163399000481 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1163399000482 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1163399000483 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1163399000484 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163399000485 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163399000486 active site 1163399000487 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1163399000488 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1163399000489 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1163399000490 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1163399000491 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1163399000492 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1163399000493 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 1163399000494 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 1163399000495 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 1163399000496 dimer interface [polypeptide binding]; other site 1163399000497 active site 1163399000498 CoA binding pocket [chemical binding]; other site 1163399000499 haloalkane dehalogenase; Provisional; Region: PRK00870 1163399000500 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1163399000501 peptide synthase; Provisional; Region: PRK09274 1163399000502 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 1163399000503 acyl-activating enzyme (AAE) consensus motif; other site 1163399000504 putative AMP binding site [chemical binding]; other site 1163399000505 putative active site [active] 1163399000506 putative CoA binding site [chemical binding]; other site 1163399000507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399000508 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 1163399000509 NAD(P) binding site [chemical binding]; other site 1163399000510 active site 1163399000511 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1163399000512 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1163399000513 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1163399000514 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1163399000515 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1163399000516 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1163399000517 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1163399000518 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 1163399000519 putative trimer interface [polypeptide binding]; other site 1163399000520 putative CoA binding site [chemical binding]; other site 1163399000521 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163399000522 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1163399000523 DXD motif; other site 1163399000524 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1163399000525 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1163399000526 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 1163399000527 S-adenosylmethionine binding site [chemical binding]; other site 1163399000528 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1163399000529 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163399000530 active site 1163399000531 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1163399000532 hypothetical protein; Provisional; Region: PRK09256 1163399000533 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1163399000534 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163399000535 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1163399000536 putative acyl-acceptor binding pocket; other site 1163399000537 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 1163399000538 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1163399000539 active site 1163399000540 Zn binding site [ion binding]; other site 1163399000541 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1163399000542 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 1163399000543 Catalytic site [active] 1163399000544 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 1163399000545 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399000546 putative substrate translocation pore; other site 1163399000547 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1163399000548 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1163399000549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399000550 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 1163399000551 dimerization interface [polypeptide binding]; other site 1163399000552 substrate binding pocket [chemical binding]; other site 1163399000553 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399000554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399000555 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 1163399000556 dimerization interface [polypeptide binding]; other site 1163399000557 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 1163399000558 malate synthase A; Region: malate_syn_A; TIGR01344 1163399000559 active site 1163399000560 isocitrate lyase; Provisional; Region: PRK15063 1163399000561 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 1163399000562 tetramer interface [polypeptide binding]; other site 1163399000563 active site 1163399000564 Mg2+/Mn2+ binding site [ion binding]; other site 1163399000565 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1163399000566 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 1163399000567 ligand binding site [chemical binding]; other site 1163399000568 flexible hinge region; other site 1163399000569 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399000570 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399000571 metal binding site [ion binding]; metal-binding site 1163399000572 active site 1163399000573 I-site; other site 1163399000574 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1163399000575 cyclase homology domain; Region: CHD; cd07302 1163399000576 nucleotidyl binding site; other site 1163399000577 metal binding site [ion binding]; metal-binding site 1163399000578 dimer interface [polypeptide binding]; other site 1163399000579 TPR repeat; Region: TPR_11; pfam13414 1163399000580 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 1163399000581 binding surface 1163399000582 TPR motif; other site 1163399000583 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1163399000584 putative FMN binding site [chemical binding]; other site 1163399000585 NADPH bind site [chemical binding]; other site 1163399000586 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1163399000587 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163399000588 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1163399000589 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1163399000590 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 1163399000591 carboxyltransferase (CT) interaction site; other site 1163399000592 biotinylation site [posttranslational modification]; other site 1163399000593 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1163399000594 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1163399000595 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163399000596 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163399000597 active site 1163399000598 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399000599 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399000600 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1163399000601 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1163399000602 putative active site [active] 1163399000603 putative catalytic site [active] 1163399000604 putative Mg binding site IVb [ion binding]; other site 1163399000605 putative phosphate binding site [ion binding]; other site 1163399000606 putative DNA binding site [nucleotide binding]; other site 1163399000607 putative Mg binding site IVa [ion binding]; other site 1163399000608 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1163399000609 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399000610 Predicted ATPase [General function prediction only]; Region: COG1485 1163399000611 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1163399000612 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 1163399000613 ATP cone domain; Region: ATP-cone; pfam03477 1163399000614 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1163399000615 active site 1163399000616 dimer interface [polypeptide binding]; other site 1163399000617 catalytic residues [active] 1163399000618 effector binding site; other site 1163399000619 R2 peptide binding site; other site 1163399000620 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1163399000621 dimer interface [polypeptide binding]; other site 1163399000622 putative radical transfer pathway; other site 1163399000623 diiron center [ion binding]; other site 1163399000624 tyrosyl radical; other site 1163399000625 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1163399000626 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 1163399000627 NAD-dependent deacetylase; Provisional; Region: PRK05333 1163399000628 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 1163399000629 NAD+ binding site [chemical binding]; other site 1163399000630 substrate binding site [chemical binding]; other site 1163399000631 Zn binding site [ion binding]; other site 1163399000632 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1163399000633 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1163399000634 active site 1163399000635 FMN binding site [chemical binding]; other site 1163399000636 substrate binding site [chemical binding]; other site 1163399000637 homotetramer interface [polypeptide binding]; other site 1163399000638 catalytic residue [active] 1163399000639 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399000640 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399000641 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 1163399000642 putative effector binding pocket; other site 1163399000643 dimerization interface [polypeptide binding]; other site 1163399000644 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1163399000645 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1163399000646 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1163399000647 putative active site [active] 1163399000648 putative substrate binding site [chemical binding]; other site 1163399000649 putative cosubstrate binding site; other site 1163399000650 catalytic site [active] 1163399000651 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 1163399000652 catalytic triad [active] 1163399000653 metal binding site [ion binding]; metal-binding site 1163399000654 conserved cis-peptide bond; other site 1163399000655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1163399000656 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1163399000657 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 1163399000658 active site 1163399000659 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 1163399000660 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163399000661 active site 1163399000662 nucleotide binding site [chemical binding]; other site 1163399000663 HIGH motif; other site 1163399000664 KMSKS motif; other site 1163399000665 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1163399000666 nudix motif; other site 1163399000667 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1163399000668 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 1163399000669 sequence-specific DNA binding site [nucleotide binding]; other site 1163399000670 salt bridge; other site 1163399000671 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1163399000672 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1163399000673 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1163399000674 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1163399000675 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1163399000676 tetrameric interface [polypeptide binding]; other site 1163399000677 NAD binding site [chemical binding]; other site 1163399000678 catalytic residues [active] 1163399000679 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163399000680 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163399000681 active site 1163399000682 enoyl-CoA hydratase; Provisional; Region: PRK09076 1163399000683 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 1163399000684 substrate binding site [chemical binding]; other site 1163399000685 oxyanion hole (OAH) forming residues; other site 1163399000686 trimer interface [polypeptide binding]; other site 1163399000687 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1163399000688 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 1163399000689 substrate binding site [chemical binding]; other site 1163399000690 oxyanion hole (OAH) forming residues; other site 1163399000691 trimer interface [polypeptide binding]; other site 1163399000692 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1163399000693 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1163399000694 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1163399000695 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1163399000696 Cation efflux family; Region: Cation_efflux; cl00316 1163399000697 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1163399000698 oligomerization interface [polypeptide binding]; other site 1163399000699 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1163399000700 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 1163399000701 Phage tail protein; Region: Phage_tail_3; pfam08813 1163399000702 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 1163399000703 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 1163399000704 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1163399000705 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1163399000706 Phage-related minor tail protein [Function unknown]; Region: COG5281 1163399000707 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1163399000708 Phage minor tail protein L; Region: Phage_tail_L; cl01908 1163399000709 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1163399000710 MPN+ (JAMM) motif; other site 1163399000711 Zinc-binding site [ion binding]; other site 1163399000712 NlpC/P60 family; Region: NLPC_P60; cl17555 1163399000713 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1163399000714 Phage-related protein, tail component [Function unknown]; Region: COG4723 1163399000715 Phage-related protein, tail component [Function unknown]; Region: COG4733 1163399000716 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1163399000717 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1163399000718 Interdomain contacts; other site 1163399000719 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1163399000720 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1163399000721 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1163399000722 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 1163399000723 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 1163399000724 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1163399000725 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163399000726 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163399000727 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1163399000728 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 1163399000729 FMN binding site [chemical binding]; other site 1163399000730 active site 1163399000731 catalytic residues [active] 1163399000732 substrate binding site [chemical binding]; other site 1163399000733 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399000734 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 1163399000735 active site 1163399000736 phosphorylation site [posttranslational modification] 1163399000737 intermolecular recognition site; other site 1163399000738 dimerization interface [polypeptide binding]; other site 1163399000739 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 1163399000740 DNA binding site [nucleotide binding] 1163399000741 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; cl00080 1163399000742 dimer interface [polypeptide binding]; other site 1163399000743 phosphorylation site [posttranslational modification] 1163399000744 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 1163399000745 ATP binding site [chemical binding]; other site 1163399000746 Mg2+ binding site [ion binding]; other site 1163399000747 G-X-G motif; other site 1163399000748 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1163399000749 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1163399000750 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1163399000751 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1163399000752 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1163399000753 pantothenate kinase; Reviewed; Region: PRK13327 1163399000754 Sporulation related domain; Region: SPOR; pfam05036 1163399000755 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1163399000756 HTH-like domain; Region: HTH_21; pfam13276 1163399000757 Integrase core domain; Region: rve; pfam00665 1163399000758 Integrase core domain; Region: rve_3; pfam13683 1163399000759 Transposase; Region: HTH_Tnp_1; pfam01527 1163399000760 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1163399000761 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 1163399000762 non-specific DNA binding site [nucleotide binding]; other site 1163399000763 salt bridge; other site 1163399000764 sequence-specific DNA binding site [nucleotide binding]; other site 1163399000765 Protein of unknown function (DUF3011); Region: DUF3011; pfam11218 1163399000766 Arginase family; Region: Arginase; cd09989 1163399000767 agmatinase; Region: agmatinase; TIGR01230 1163399000768 active site 1163399000769 Mn binding site [ion binding]; other site 1163399000770 oligomer interface [polypeptide binding]; other site 1163399000771 Predicted small secreted protein [Function unknown]; Region: COG5510 1163399000772 CsbD-like; Region: CsbD; cl17424 1163399000773 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1163399000774 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1163399000775 active site 1163399000776 HIGH motif; other site 1163399000777 dimer interface [polypeptide binding]; other site 1163399000778 KMSKS motif; other site 1163399000779 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1163399000780 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1163399000781 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1163399000782 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 1163399000783 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 1163399000784 PA/protease or protease-like domain interface [polypeptide binding]; other site 1163399000785 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 1163399000786 metal binding site [ion binding]; metal-binding site 1163399000787 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1163399000788 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399000789 putative substrate translocation pore; other site 1163399000790 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1163399000791 EamA-like transporter family; Region: EamA; pfam00892 1163399000792 EamA-like transporter family; Region: EamA; pfam00892 1163399000793 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1163399000794 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 1163399000795 N-terminal plug; other site 1163399000796 ligand-binding site [chemical binding]; other site 1163399000797 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163399000798 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1163399000799 FtsX-like permease family; Region: FtsX; pfam02687 1163399000800 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163399000801 FtsX-like permease family; Region: FtsX; pfam02687 1163399000802 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163399000803 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163399000804 Walker A/P-loop; other site 1163399000805 ATP binding site [chemical binding]; other site 1163399000806 Q-loop/lid; other site 1163399000807 ABC transporter signature motif; other site 1163399000808 Walker B; other site 1163399000809 D-loop; other site 1163399000810 H-loop/switch region; other site 1163399000811 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399000812 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399000813 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399000814 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1163399000815 Histidine kinase; Region: HisKA_3; pfam07730 1163399000816 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 1163399000817 ATP binding site [chemical binding]; other site 1163399000818 Mg2+ binding site [ion binding]; other site 1163399000819 G-X-G motif; other site 1163399000820 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399000821 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 1163399000822 active site 1163399000823 phosphorylation site [posttranslational modification] 1163399000824 intermolecular recognition site; other site 1163399000825 dimerization interface [polypeptide binding]; other site 1163399000826 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 1163399000827 DNA binding residues [nucleotide binding] 1163399000828 dimerization interface [polypeptide binding]; other site 1163399000829 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1163399000830 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1163399000831 putative heme binding pocket [chemical binding]; other site 1163399000832 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 1163399000833 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 1163399000834 interface (dimer of trimers) [polypeptide binding]; other site 1163399000835 Substrate-binding/catalytic site; other site 1163399000836 Zn-binding sites [ion binding]; other site 1163399000837 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1163399000838 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 1163399000839 motif II; other site 1163399000840 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1163399000841 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1163399000842 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1163399000843 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1163399000844 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 1163399000845 protein binding site [polypeptide binding]; other site 1163399000846 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 1163399000847 protein binding site [polypeptide binding]; other site 1163399000848 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 1163399000849 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1163399000850 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399000851 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399000852 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 1163399000853 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399000854 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 1163399000855 active site 1163399000856 phosphorylation site [posttranslational modification] 1163399000857 intermolecular recognition site; other site 1163399000858 dimerization interface [polypeptide binding]; other site 1163399000859 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 1163399000860 DNA binding residues [nucleotide binding] 1163399000861 dimerization interface [polypeptide binding]; other site 1163399000862 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1163399000863 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1163399000864 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399000865 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399000866 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399000867 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_3; cd08436 1163399000868 putative dimerization interface [polypeptide binding]; other site 1163399000869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1163399000870 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1163399000871 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1163399000872 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1163399000873 malonic semialdehyde reductase; Provisional; Region: PRK10538 1163399000874 putative NAD(P) binding site [chemical binding]; other site 1163399000875 homotetramer interface [polypeptide binding]; other site 1163399000876 homodimer interface [polypeptide binding]; other site 1163399000877 active site 1163399000878 Sporulation related domain; Region: SPOR; pfam05036 1163399000879 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1163399000880 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1163399000881 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1163399000882 active site 1163399000883 HIGH motif; other site 1163399000884 KMSK motif region; other site 1163399000885 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1163399000886 tRNA binding surface [nucleotide binding]; other site 1163399000887 anticodon binding site; other site 1163399000888 hypothetical protein; Reviewed; Region: PRK00024 1163399000889 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1163399000890 MPN+ (JAMM) motif; other site 1163399000891 Zinc-binding site [ion binding]; other site 1163399000892 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399000893 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 1163399000894 active site 1163399000895 phosphorylation site [posttranslational modification] 1163399000896 intermolecular recognition site; other site 1163399000897 dimerization interface [polypeptide binding]; other site 1163399000898 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 1163399000899 DNA binding residues [nucleotide binding] 1163399000900 dimerization interface [polypeptide binding]; other site 1163399000901 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1163399000902 Flavoprotein; Region: Flavoprotein; pfam02441 1163399000903 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1163399000904 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1163399000905 trimer interface [polypeptide binding]; other site 1163399000906 active site 1163399000907 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1163399000908 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 1163399000909 active site 1163399000910 substrate binding site [chemical binding]; other site 1163399000911 metal binding site [ion binding]; metal-binding site 1163399000912 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399000913 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 1163399000914 active site 1163399000915 phosphorylation site [posttranslational modification] 1163399000916 intermolecular recognition site; other site 1163399000917 dimerization interface [polypeptide binding]; other site 1163399000918 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 1163399000919 DNA binding site [nucleotide binding] 1163399000920 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1163399000921 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1163399000922 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 1163399000923 Ligand Binding Site [chemical binding]; other site 1163399000924 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 1163399000925 dimer interface [polypeptide binding]; other site 1163399000926 phosphorylation site [posttranslational modification] 1163399000927 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 1163399000928 ATP binding site [chemical binding]; other site 1163399000929 Mg2+ binding site [ion binding]; other site 1163399000930 G-X-G motif; other site 1163399000931 K+-transporting ATPase, c chain; Region: KdpC; cl00944 1163399000932 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1163399000933 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163399000934 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1163399000935 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1163399000936 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163399000937 active site 1163399000938 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1163399000939 putative active site [active] 1163399000940 putative DNA binding site [nucleotide binding]; other site 1163399000941 putative catalytic site [active] 1163399000942 putative AP binding site [nucleotide binding]; other site 1163399000943 putative phosphate binding site [ion binding]; other site 1163399000944 putative metal binding site B [ion binding]; other site 1163399000945 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1163399000946 muropeptide transporter; Validated; Region: ampG; cl17669 1163399000947 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1163399000948 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1163399000949 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163399000950 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163399000951 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1163399000952 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1163399000953 active site 1163399000954 HIGH motif; other site 1163399000955 dimer interface [polypeptide binding]; other site 1163399000956 KMSKS motif; other site 1163399000957 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 1163399000958 RNA binding surface [nucleotide binding]; other site 1163399000959 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1163399000960 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 1163399000961 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 1163399000962 PA/protease or protease-like domain interface [polypeptide binding]; other site 1163399000963 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 1163399000964 metal binding site [ion binding]; metal-binding site 1163399000965 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1163399000966 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1163399000967 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163399000968 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1163399000969 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1163399000970 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 1163399000971 protein binding site [polypeptide binding]; other site 1163399000972 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1163399000973 Catalytic dyad [active] 1163399000974 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1163399000975 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1163399000976 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1163399000977 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 1163399000978 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163399000979 active site 1163399000980 nucleotide binding site [chemical binding]; other site 1163399000981 HIGH motif; other site 1163399000982 KMSKS motif; other site 1163399000983 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1163399000984 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 1163399000985 Proline dehydrogenase; Region: Pro_dh; pfam01619 1163399000986 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1163399000987 Glutamate binding site [chemical binding]; other site 1163399000988 NAD binding site [chemical binding]; other site 1163399000989 catalytic residues [active] 1163399000990 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 1163399000991 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1163399000992 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1163399000993 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 1163399000994 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1163399000995 Subunit I/III interface [polypeptide binding]; other site 1163399000996 D-pathway; other site 1163399000997 Subunit I/VIIc interface [polypeptide binding]; other site 1163399000998 Subunit I/IV interface [polypeptide binding]; other site 1163399000999 Subunit I/II interface [polypeptide binding]; other site 1163399001000 Low-spin heme (heme a) binding site [chemical binding]; other site 1163399001001 Subunit I/VIIa interface [polypeptide binding]; other site 1163399001002 Subunit I/VIa interface [polypeptide binding]; other site 1163399001003 Dimer interface; other site 1163399001004 Putative water exit pathway; other site 1163399001005 Binuclear center (heme a3/CuB) [ion binding]; other site 1163399001006 K-pathway; other site 1163399001007 Subunit I/Vb interface [polypeptide binding]; other site 1163399001008 Putative proton exit pathway; other site 1163399001009 Subunit I/VIb interface; other site 1163399001010 Subunit I/VIc interface [polypeptide binding]; other site 1163399001011 Electron transfer pathway; other site 1163399001012 Subunit I/VIIIb interface [polypeptide binding]; other site 1163399001013 Subunit I/VIIb interface [polypeptide binding]; other site 1163399001014 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1163399001015 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1163399001016 Subunit III/VIIa interface [polypeptide binding]; other site 1163399001017 Phospholipid binding site [chemical binding]; other site 1163399001018 Subunit I/III interface [polypeptide binding]; other site 1163399001019 Subunit III/VIb interface [polypeptide binding]; other site 1163399001020 Subunit III/VIa interface; other site 1163399001021 Subunit III/Vb interface [polypeptide binding]; other site 1163399001022 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1163399001023 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1163399001024 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1163399001025 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1163399001026 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1163399001027 UbiA prenyltransferase family; Region: UbiA; pfam01040 1163399001028 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1163399001029 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1163399001030 Putative phosphatase (DUF442); Region: DUF442; cl17385 1163399001031 DNA primase; Validated; Region: dnaG; PRK05667 1163399001032 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1163399001033 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1163399001034 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 1163399001035 active site 1163399001036 metal binding site [ion binding]; metal-binding site 1163399001037 interdomain interaction site; other site 1163399001038 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1163399001039 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1163399001040 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1163399001041 Yqey-like protein; Region: YqeY; pfam09424 1163399001042 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1163399001043 UGMP family protein; Validated; Region: PRK09604 1163399001044 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1163399001045 Abi-like protein; Region: Abi_2; pfam07751 1163399001046 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 1163399001047 homooctamer interface [polypeptide binding]; other site 1163399001048 active site 1163399001049 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1163399001050 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163399001051 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1163399001052 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1163399001053 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1163399001054 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1163399001055 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1163399001056 Predicted membrane protein [Function unknown]; Region: COG4682 1163399001057 yiaA/B two helix domain; Region: YiaAB; pfam05360 1163399001058 amino acid transporter; Region: 2A0306; TIGR00909 1163399001059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1163399001060 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1163399001061 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1163399001062 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 1163399001063 putative active site [active] 1163399001064 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1163399001065 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 1163399001066 active site 1163399001067 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 1163399001068 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 1163399001069 NlpC/P60 family; Region: NLPC_P60; cl17555 1163399001070 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1163399001071 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1163399001072 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1163399001073 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399001074 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 1163399001075 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163399001076 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163399001077 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1163399001078 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 1163399001079 EF-hand domain pair; Region: EF_hand_5; pfam13499 1163399001080 Ca2+ binding site [ion binding]; other site 1163399001081 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1163399001082 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1163399001083 motif II; other site 1163399001084 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1163399001085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1163399001086 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1163399001087 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1163399001088 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1163399001089 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1163399001090 metal binding triad; other site 1163399001091 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1163399001092 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1163399001093 metal binding triad; other site 1163399001094 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1163399001095 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1163399001096 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 1163399001097 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1163399001098 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1163399001099 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 1163399001100 putative FMN binding site [chemical binding]; other site 1163399001101 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1163399001102 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1163399001103 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 1163399001104 FAD binding pocket [chemical binding]; other site 1163399001105 FAD binding motif [chemical binding]; other site 1163399001106 phosphate binding motif [ion binding]; other site 1163399001107 NAD binding pocket [chemical binding]; other site 1163399001108 Predicted transcriptional regulators [Transcription]; Region: COG1695 1163399001109 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1163399001110 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1163399001111 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 1163399001112 dimer interface [polypeptide binding]; other site 1163399001113 TPP-binding site [chemical binding]; other site 1163399001114 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1163399001115 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163399001116 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163399001117 TAP-like protein; Region: Abhydrolase_4; pfam08386 1163399001118 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1163399001119 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 1163399001120 NodB motif; other site 1163399001121 putative active site [active] 1163399001122 putative catalytic site [active] 1163399001123 putative Zn binding site [ion binding]; other site 1163399001124 Predicted archaeal methyltransferase [General function prediction only]; Region: COG2521 1163399001125 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 1163399001126 S-adenosylmethionine binding site [chemical binding]; other site 1163399001127 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1163399001128 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1163399001129 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1163399001130 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1163399001131 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1163399001132 MerC mercury resistance protein; Region: MerC; pfam03203 1163399001133 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1163399001134 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1163399001135 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1163399001136 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1163399001137 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1163399001138 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1163399001139 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1163399001140 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399001141 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1163399001142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399001143 Walker A/P-loop; other site 1163399001144 Walker A/P-loop; other site 1163399001145 ATP binding site [chemical binding]; other site 1163399001146 ATP binding site [chemical binding]; other site 1163399001147 Q-loop/lid; other site 1163399001148 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163399001149 ABC transporter signature motif; other site 1163399001150 Walker B; other site 1163399001151 D-loop; other site 1163399001152 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163399001153 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1163399001154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399001155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399001156 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_7; cd08476 1163399001157 putative effector binding pocket; other site 1163399001158 putative dimerization interface [polypeptide binding]; other site 1163399001159 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163399001160 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163399001161 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1163399001162 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399001163 putative substrate translocation pore; other site 1163399001164 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1163399001165 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1163399001166 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 1163399001167 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1163399001168 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1163399001169 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 1163399001170 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163399001171 catalytic residue [active] 1163399001172 NHL repeat; Region: NHL; pfam01436 1163399001173 NHL repeat; Region: NHL; pfam01436 1163399001174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1163399001175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1163399001176 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 1163399001177 dimer interface [polypeptide binding]; other site 1163399001178 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_24; cd09012 1163399001179 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 1163399001180 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1163399001181 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399001182 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 1163399001183 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1163399001184 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 1163399001185 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 1163399001186 PA/protease or protease-like domain interface [polypeptide binding]; other site 1163399001187 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 1163399001188 metal binding site [ion binding]; metal-binding site 1163399001189 Histidine kinase; Region: His_kinase; pfam06580 1163399001190 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 1163399001191 Mg2+ binding site [ion binding]; other site 1163399001192 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 1163399001193 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1163399001194 active site 1163399001195 phosphorylation site [posttranslational modification] 1163399001196 intermolecular recognition site; other site 1163399001197 dimerization interface [polypeptide binding]; other site 1163399001198 LytTr DNA-binding domain; Region: LytTR; smart00850 1163399001199 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 1163399001200 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399001201 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399001202 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1163399001203 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399001204 putative substrate translocation pore; other site 1163399001205 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1163399001206 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1163399001207 active site 1163399001208 Zn binding site [ion binding]; other site 1163399001209 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 1163399001210 PAS fold; Region: PAS_3; pfam08447 1163399001211 putative active site [active] 1163399001212 heme pocket [chemical binding]; other site 1163399001213 PAS domain S-box; Region: sensory_box; TIGR00229 1163399001214 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 1163399001215 putative active site [active] 1163399001216 heme pocket [chemical binding]; other site 1163399001217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399001218 metal binding site [ion binding]; metal-binding site 1163399001219 active site 1163399001220 I-site; other site 1163399001221 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 1163399001222 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399001223 LysR family transcriptional regulator; Provisional; Region: PRK14997 1163399001224 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 1163399001225 putative effector binding pocket; other site 1163399001226 dimerization interface [polypeptide binding]; other site 1163399001227 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 1163399001228 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1163399001229 putative active site [active] 1163399001230 metal binding site [ion binding]; metal-binding site 1163399001231 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1163399001232 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 1163399001233 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 1163399001234 flagellar motor protein MotB; Validated; Region: motB; PRK09041 1163399001235 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1163399001236 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163399001237 ligand binding site [chemical binding]; other site 1163399001238 flagellar motor protein MotA; Validated; Region: PRK09110 1163399001239 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1163399001240 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1163399001241 SelR domain; Region: SelR; pfam01641 1163399001242 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1163399001243 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 1163399001244 putative DNA binding site [nucleotide binding]; other site 1163399001245 putative Zn2+ binding site [ion binding]; other site 1163399001246 AsnC family; Region: AsnC_trans_reg; pfam01037 1163399001247 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1163399001248 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163399001249 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1163399001250 alanine racemase; Reviewed; Region: alr; PRK00053 1163399001251 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1163399001252 active site 1163399001253 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163399001254 substrate binding site [chemical binding]; other site 1163399001255 catalytic residues [active] 1163399001256 dimer interface [polypeptide binding]; other site 1163399001257 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 1163399001258 PAS domain; Region: PAS_9; pfam13426 1163399001259 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1163399001260 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 1163399001261 putative active site [active] 1163399001262 heme pocket [chemical binding]; other site 1163399001263 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 1163399001264 dimer interface [polypeptide binding]; other site 1163399001265 phosphorylation site [posttranslational modification] 1163399001266 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 1163399001267 ATP binding site [chemical binding]; other site 1163399001268 Mg2+ binding site [ion binding]; other site 1163399001269 G-X-G motif; other site 1163399001270 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399001271 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 1163399001272 active site 1163399001273 phosphorylation site [posttranslational modification] 1163399001274 intermolecular recognition site; other site 1163399001275 dimerization interface [polypeptide binding]; other site 1163399001276 Protein of unknown function (DUF3247); Region: DUF3247; pfam11607 1163399001277 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1163399001278 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 1163399001279 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1163399001280 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163399001281 active site 1163399001282 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1163399001283 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 1163399001284 motif II; other site 1163399001285 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1163399001286 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 1163399001287 dimer interface [polypeptide binding]; other site 1163399001288 active site 1163399001289 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 1163399001290 dimer interface [polypeptide binding]; other site 1163399001291 active site 1 [active] 1163399001292 active site 2 [active] 1163399001293 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1163399001294 active site 1163399001295 DNA polymerase IV; Validated; Region: PRK02406 1163399001296 DNA binding site [nucleotide binding] 1163399001297 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1163399001298 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1163399001299 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1163399001300 NAD binding site [chemical binding]; other site 1163399001301 substrate binding site [chemical binding]; other site 1163399001302 putative active site [active] 1163399001303 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399001304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399001305 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 1163399001306 putative effector binding pocket; other site 1163399001307 dimerization interface [polypeptide binding]; other site 1163399001308 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 1163399001309 S-adenosylmethionine binding site [chemical binding]; other site 1163399001310 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1163399001311 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1163399001312 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 1163399001313 motif II; other site 1163399001314 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 1163399001315 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 1163399001316 N-terminal plug; other site 1163399001317 ligand-binding site [chemical binding]; other site 1163399001318 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 1163399001319 catalytic core [active] 1163399001320 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1163399001321 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1163399001322 GAF domain; Region: GAF_2; pfam13185 1163399001323 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 1163399001324 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163399001325 DNA-binding site [nucleotide binding]; DNA binding site 1163399001326 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 1163399001327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399001328 homodimer interface [polypeptide binding]; other site 1163399001329 catalytic residue [active] 1163399001330 methionine sulfoxide reductase A; Provisional; Region: PRK13014 1163399001331 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1163399001332 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1163399001333 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 1163399001334 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163399001335 catalytic residues [active] 1163399001336 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1163399001337 SelR domain; Region: SelR; pfam01641 1163399001338 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399001339 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 1163399001340 active site 1163399001341 phosphorylation site [posttranslational modification] 1163399001342 intermolecular recognition site; other site 1163399001343 dimerization interface [polypeptide binding]; other site 1163399001344 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 1163399001345 DNA binding site [nucleotide binding] 1163399001346 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399001347 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 1163399001348 dimer interface [polypeptide binding]; other site 1163399001349 phosphorylation site [posttranslational modification] 1163399001350 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 1163399001351 ATP binding site [chemical binding]; other site 1163399001352 Mg2+ binding site [ion binding]; other site 1163399001353 G-X-G motif; other site 1163399001354 sensor protein RstB; Provisional; Region: PRK10604 1163399001355 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 1163399001356 dimerization interface [polypeptide binding]; other site 1163399001357 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 1163399001358 dimer interface [polypeptide binding]; other site 1163399001359 phosphorylation site [posttranslational modification] 1163399001360 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 1163399001361 ATP binding site [chemical binding]; other site 1163399001362 G-X-G motif; other site 1163399001363 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1163399001364 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 1163399001365 active site 1163399001366 phosphorylation site [posttranslational modification] 1163399001367 intermolecular recognition site; other site 1163399001368 dimerization interface [polypeptide binding]; other site 1163399001369 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 1163399001370 DNA binding site [nucleotide binding] 1163399001371 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1163399001372 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 1163399001373 active site 1163399001374 dimer interface [polypeptide binding]; other site 1163399001375 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 1163399001376 Ligand Binding Site [chemical binding]; other site 1163399001377 Molecular Tunnel; other site 1163399001378 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1163399001379 active site 1163399001380 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399001381 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1163399001382 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 1163399001383 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1163399001384 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 1163399001385 putative active site [active] 1163399001386 Zn binding site [ion binding]; other site 1163399001387 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1163399001388 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1163399001389 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 1163399001390 ATP binding site [chemical binding]; other site 1163399001391 Mg++ binding site [ion binding]; other site 1163399001392 motif III; other site 1163399001393 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 1163399001394 nucleotide binding region [chemical binding]; other site 1163399001395 ATP-binding site [chemical binding]; other site 1163399001396 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 1163399001397 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1163399001398 GST_N family, Class Zeta 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_Zeta; cd03042 1163399001399 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1163399001400 C-terminal domain interface [polypeptide binding]; other site 1163399001401 GSH binding site (G-site) [chemical binding]; other site 1163399001402 putative dimer interface [polypeptide binding]; other site 1163399001403 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1163399001404 dimer interface [polypeptide binding]; other site 1163399001405 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1163399001406 N-terminal domain interface [polypeptide binding]; other site 1163399001407 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1163399001408 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1163399001409 Fe-S cluster binding site [ion binding]; other site 1163399001410 active site 1163399001411 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 1163399001412 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1163399001413 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 1163399001414 ATP binding site [chemical binding]; other site 1163399001415 Walker B motif; other site 1163399001416 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1163399001417 Protein of unknown function (DUF465); Region: DUF465; pfam04325 1163399001418 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 1163399001419 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 1163399001420 dimer interface [polypeptide binding]; other site 1163399001421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399001422 catalytic residue [active] 1163399001423 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 1163399001424 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1163399001425 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 1163399001426 homodimer interface [polypeptide binding]; other site 1163399001427 substrate-cofactor binding pocket; other site 1163399001428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399001429 catalytic residue [active] 1163399001430 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1163399001431 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1163399001432 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1163399001433 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1163399001434 Walker A/P-loop; other site 1163399001435 ATP binding site [chemical binding]; other site 1163399001436 Q-loop/lid; other site 1163399001437 ABC transporter signature motif; other site 1163399001438 Walker B; other site 1163399001439 D-loop; other site 1163399001440 H-loop/switch region; other site 1163399001441 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1163399001442 putative carbohydrate binding site [chemical binding]; other site 1163399001443 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1163399001444 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 1163399001445 S-adenosylmethionine binding site [chemical binding]; other site 1163399001446 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 1163399001447 putative ligand binding site [chemical binding]; other site 1163399001448 putative catalytic site [active] 1163399001449 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 1163399001450 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 1163399001451 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163399001452 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 1163399001453 active site 1163399001454 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1163399001455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399001456 NAD(P) binding site [chemical binding]; other site 1163399001457 active site 1163399001458 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1163399001459 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1163399001461 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1163399001462 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 1163399001463 Walker A motif; other site 1163399001464 ATP binding site [chemical binding]; other site 1163399001465 Walker B motif; other site 1163399001466 arginine finger; other site 1163399001467 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1163399001468 Helix-turn-helix domain; Region: HTH_38; pfam13936 1163399001469 Helix-turn-helix domain; Region: HTH_17; pfam12728 1163399001470 Integrase core domain; Region: rve; pfam00665 1163399001472 Transposase; Region: HTH_Tnp_1; pfam01527 1163399001473 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1163399001474 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1163399001475 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_alpha; cd01715 1163399001476 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1163399001477 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 1163399001478 Ligand binding site [chemical binding]; other site 1163399001479 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1163399001480 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1163399001481 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1163399001482 NAD binding site [chemical binding]; other site 1163399001483 substrate binding site [chemical binding]; other site 1163399001484 homodimer interface [polypeptide binding]; other site 1163399001485 active site 1163399001486 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1163399001487 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1163399001488 substrate binding site; other site 1163399001489 tetramer interface; other site 1163399001490 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1163399001491 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1163399001492 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1163399001493 NADP binding site [chemical binding]; other site 1163399001494 active site 1163399001495 putative substrate binding site [chemical binding]; other site 1163399001496 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1163399001497 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1163399001498 Substrate binding site; other site 1163399001499 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1163399001500 phosphomannomutase CpsG; Provisional; Region: PRK15414 1163399001501 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 1163399001502 active site 1163399001503 substrate binding site [chemical binding]; other site 1163399001504 metal binding site [ion binding]; metal-binding site 1163399001505 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1163399001506 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1163399001507 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1163399001508 Protein of unknown function (DUF330); Region: DUF330; cl01135 1163399001509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1163399001510 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1163399001511 mce related protein; Region: MCE; pfam02470 1163399001512 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1163399001513 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399001514 Walker A/P-loop; other site 1163399001515 ATP binding site [chemical binding]; other site 1163399001516 Q-loop/lid; other site 1163399001517 ABC transporter signature motif; other site 1163399001518 Walker B; other site 1163399001519 D-loop; other site 1163399001520 H-loop/switch region; other site 1163399001521 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1163399001522 Permease; Region: Permease; pfam02405 1163399001523 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1163399001524 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1163399001525 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1163399001526 H-NS histone family; Region: Histone_HNS; pfam00816 1163399001527 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1163399001528 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1163399001529 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 1163399001530 dimer interface [polypeptide binding]; other site 1163399001531 motif 1; other site 1163399001532 active site 1163399001533 motif 2; other site 1163399001534 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 1163399001535 putative deacylase active site [active] 1163399001536 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 1163399001537 active site 1163399001538 motif 3; other site 1163399001539 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 1163399001540 anticodon binding site; other site 1163399001541 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1163399001542 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1163399001543 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1163399001544 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 1163399001545 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1163399001546 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1163399001547 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1163399001548 EamA-like transporter family; Region: EamA; pfam00892 1163399001549 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1163399001550 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163399001551 active site 1163399001552 HIGH motif; other site 1163399001553 nucleotide binding site [chemical binding]; other site 1163399001554 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1163399001555 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1163399001556 active site 1163399001557 KMSKS motif; other site 1163399001558 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1163399001559 tRNA binding surface [nucleotide binding]; other site 1163399001560 anticodon binding site; other site 1163399001561 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1163399001562 DNA polymerase III subunit chi; Validated; Region: PRK05728 1163399001563 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1163399001564 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 1163399001565 interface (dimer of trimers) [polypeptide binding]; other site 1163399001566 Substrate-binding/catalytic site; other site 1163399001567 Zn-binding sites [ion binding]; other site 1163399001568 Predicted permeases [General function prediction only]; Region: COG0795 1163399001569 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1163399001570 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1163399001571 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1163399001572 RDD family; Region: RDD; pfam06271 1163399001573 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1163399001574 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 1163399001575 active site 1163399001576 DNA binding site [nucleotide binding] 1163399001577 Int/Topo IB signature motif; other site 1163399001578 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 1163399001579 dimerization domain [polypeptide binding]; other site 1163399001580 dimer interface [polypeptide binding]; other site 1163399001581 catalytic residues [active] 1163399001582 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 1163399001583 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1163399001584 Interdomain contacts; other site 1163399001585 Glyco_18 domain; Region: Glyco_18; smart00636 1163399001586 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 1163399001587 active site 1163399001588 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1163399001589 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 1163399001590 dimerization interface [polypeptide binding]; other site 1163399001591 ATP binding site [chemical binding]; other site 1163399001592 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1163399001593 dimerization interface [polypeptide binding]; other site 1163399001594 ATP binding site [chemical binding]; other site 1163399001595 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1163399001596 putative active site [active] 1163399001597 catalytic triad [active] 1163399001598 Haemagglutinin; Region: HIM; pfam05662 1163399001599 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1163399001600 trimer interface [polypeptide binding]; other site 1163399001601 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1163399001602 trimer interface [polypeptide binding]; other site 1163399001603 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1163399001604 trimer interface [polypeptide binding]; other site 1163399001605 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1163399001606 trimer interface [polypeptide binding]; other site 1163399001607 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1163399001608 trimer interface [polypeptide binding]; other site 1163399001609 Haemagglutinin; Region: HIM; pfam05662 1163399001610 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1163399001611 active site 1163399001612 catalytic triad [active] 1163399001613 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1163399001614 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1163399001615 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1163399001616 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 1163399001617 Walker A motif; other site 1163399001618 ATP binding site [chemical binding]; other site 1163399001619 Walker B motif; other site 1163399001620 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1163399001621 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163399001622 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163399001623 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1163399001624 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1163399001625 general secretion pathway protein J; Validated; Region: PRK08808 1163399001626 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1163399001627 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1163399001628 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 1163399001629 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1163399001630 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163399001631 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163399001632 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163399001633 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1163399001634 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1163399001635 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1163399001636 Probable Catalytic site; other site 1163399001637 metal-binding site 1163399001638 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1163399001639 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 1163399001640 active site 1163399001641 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1163399001642 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1163399001643 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1163399001644 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1163399001645 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1163399001646 PapC N-terminal domain; Region: PapC_N; pfam13954 1163399001647 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1163399001648 PapC C-terminal domain; Region: PapC_C; pfam13953 1163399001649 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1163399001650 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1163399001651 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 1163399001652 active site 1163399001653 homodimer interface [polypeptide binding]; other site 1163399001654 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 1163399001655 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 1163399001656 active site 1163399001657 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1163399001658 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1163399001659 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 1163399001660 binding surface 1163399001661 TPR motif; other site 1163399001662 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 1163399001663 hypothetical protein; Provisional; Region: PRK09936 1163399001664 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1163399001665 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1163399001666 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163399001667 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163399001668 ABC transporter; Region: ABC_tran_2; pfam12848 1163399001669 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163399001670 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 1163399001671 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1163399001672 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 1163399001673 dimer interface [polypeptide binding]; other site 1163399001674 active site 1163399001675 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1163399001676 folate binding site [chemical binding]; other site 1163399001677 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1163399001678 ATP cone domain; Region: ATP-cone; pfam03477 1163399001679 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1163399001680 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 1163399001681 catalytic motif [active] 1163399001682 Zn binding site [ion binding]; other site 1163399001683 RibD C-terminal domain; Region: RibD_C; pfam01872 1163399001684 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 1163399001685 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1163399001686 Lumazine binding domain; Region: Lum_binding; pfam00677 1163399001687 Lumazine binding domain; Region: Lum_binding; pfam00677 1163399001688 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1163399001689 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1163399001690 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1163399001691 dimerization interface [polypeptide binding]; other site 1163399001692 active site 1163399001693 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 1163399001694 homopentamer interface [polypeptide binding]; other site 1163399001695 active site 1163399001696 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1163399001697 putative RNA binding site [nucleotide binding]; other site 1163399001698 thiamine monophosphate kinase; Provisional; Region: PRK05731 1163399001699 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 1163399001700 ATP binding site [chemical binding]; other site 1163399001701 dimerization interface [polypeptide binding]; other site 1163399001702 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1163399001703 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 1163399001704 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1163399001705 Autotransporter beta-domain; Region: Autotransporter; smart00869 1163399001706 Right handed beta helix region; Region: Beta_helix; pfam13229 1163399001707 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 1163399001708 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1163399001709 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163399001710 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1163399001711 FAD binding domain; Region: FAD_binding_4; pfam01565 1163399001712 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1163399001713 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1163399001714 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1163399001715 hypothetical protein; Reviewed; Region: PRK12497 1163399001716 LppC putative lipoprotein; Region: LppC; pfam04348 1163399001717 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1163399001718 putative ligand binding site [chemical binding]; other site 1163399001719 Predicted methyltransferases [General function prediction only]; Region: COG0313 1163399001720 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1163399001721 putative SAM binding site [chemical binding]; other site 1163399001722 putative homodimer interface [polypeptide binding]; other site 1163399001723 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1163399001724 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1163399001725 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1163399001726 Electron transfer DM13; Region: DM13; pfam10517 1163399001727 NRDE protein; Region: NRDE; pfam05742 1163399001728 cell division protein MraZ; Reviewed; Region: PRK00326 1163399001729 MraZ protein; Region: MraZ; pfam02381 1163399001730 MraW methylase family; Region: Methyltransf_5; cl17771 1163399001731 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1163399001732 Cell division protein FtsL; Region: FtsL; pfam04999 1163399001733 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1163399001734 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1163399001735 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1163399001736 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1163399001737 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1163399001738 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163399001739 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163399001740 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1163399001741 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1163399001742 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163399001743 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1163399001744 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 1163399001745 Mg++ binding site [ion binding]; other site 1163399001746 putative catalytic motif [active] 1163399001747 putative substrate binding site [chemical binding]; other site 1163399001748 cell division protein FtsW; Region: ftsW; TIGR02614 1163399001749 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1163399001750 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 1163399001751 active site 1163399001752 homodimer interface [polypeptide binding]; other site 1163399001753 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1163399001754 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1163399001755 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163399001756 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163399001757 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1163399001758 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1163399001759 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163399001760 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1163399001761 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1163399001762 Cell division protein FtsQ; Region: FtsQ; pfam03799 1163399001763 cell division protein FtsA; Region: ftsA; TIGR01174 1163399001764 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1163399001765 nucleotide binding site [chemical binding]; other site 1163399001766 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 1163399001767 Cell division protein FtsA; Region: FtsA; pfam14450 1163399001768 cell division protein FtsZ; Validated; Region: PRK09330 1163399001769 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 1163399001770 nucleotide binding site [chemical binding]; other site 1163399001771 SulA interaction site; other site 1163399001772 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1163399001773 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1163399001774 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163399001775 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163399001776 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1163399001777 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1163399001778 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1163399001779 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; cl17351 1163399001780 nucleotide binding region [chemical binding]; other site 1163399001781 ATP-binding site [chemical binding]; other site 1163399001782 SEC-C motif; Region: SEC-C; pfam02810 1163399001783 hypothetical protein; Provisional; Region: PRK08999 1163399001784 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 1163399001785 active site 1163399001786 8-oxo-dGMP binding site [chemical binding]; other site 1163399001787 nudix motif; other site 1163399001788 metal binding site [ion binding]; metal-binding site 1163399001789 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 1163399001790 thiamine phosphate binding site [chemical binding]; other site 1163399001791 active site 1163399001792 pyrophosphate binding site [ion binding]; other site 1163399001793 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1163399001794 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 1163399001795 FAD binding site [chemical binding]; other site 1163399001796 Histidine kinase; Region: His_kinase; pfam06580 1163399001797 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; cl00075 1163399001798 Mg2+ binding site [ion binding]; other site 1163399001799 G-X-G motif; other site 1163399001800 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1163399001801 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 1163399001802 active site 1163399001803 phosphorylation site [posttranslational modification] 1163399001804 intermolecular recognition site; other site 1163399001805 dimerization interface [polypeptide binding]; other site 1163399001806 LytTr DNA-binding domain; Region: LytTR; smart00850 1163399001807 Protein of unknown function (DUF3228); Region: DUF3228; pfam11539 1163399001808 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163399001809 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 1163399001810 putative deacylase active site [active] 1163399001811 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163399001812 Adenosylhomocysteinase; Provisional; Region: PTZ00075 1163399001813 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1163399001814 homotetramer interface [polypeptide binding]; other site 1163399001815 ligand binding site [chemical binding]; other site 1163399001816 catalytic site [active] 1163399001817 NAD binding site [chemical binding]; other site 1163399001818 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1163399001819 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399001820 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 1163399001821 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1163399001822 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 1163399001823 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1163399001824 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1163399001825 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1163399001826 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1163399001827 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1163399001828 putative acyl-acceptor binding pocket; other site 1163399001829 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1163399001830 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163399001831 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1163399001832 putative active site [active] 1163399001833 putative metal binding site [ion binding]; other site 1163399001834 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1163399001835 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 1163399001836 S-adenosylmethionine binding site [chemical binding]; other site 1163399001837 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1163399001838 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 1163399001839 FMN binding site [chemical binding]; other site 1163399001840 active site 1163399001841 catalytic residues [active] 1163399001842 substrate binding site [chemical binding]; other site 1163399001843 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 1163399001844 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1163399001845 substrate binding site [chemical binding]; other site 1163399001846 dimer interface [polypeptide binding]; other site 1163399001847 ATP binding site [chemical binding]; other site 1163399001848 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1163399001849 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1163399001850 Nucleoside recognition; Region: Gate; pfam07670 1163399001851 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1163399001852 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 1163399001853 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 1163399001854 active site 1163399001855 catalytic tetrad [active] 1163399001856 Hemin uptake protein hemP; Region: hemP; pfam10636 1163399001857 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1163399001858 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 1163399001859 N-terminal plug; other site 1163399001860 ligand-binding site [chemical binding]; other site 1163399001861 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1163399001862 FtsX-like permease family; Region: FtsX; pfam02687 1163399001863 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 1163399001864 active site 1163399001865 catalytic triad [active] 1163399001866 oxyanion hole [active] 1163399001867 switch loop; other site 1163399001868 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399001869 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 1163399001870 active site 1163399001871 phosphorylation site [posttranslational modification] 1163399001872 intermolecular recognition site; other site 1163399001873 dimerization interface [polypeptide binding]; other site 1163399001874 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 1163399001875 DNA binding site [nucleotide binding] 1163399001876 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399001877 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 1163399001878 dimer interface [polypeptide binding]; other site 1163399001879 phosphorylation site [posttranslational modification] 1163399001880 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 1163399001881 ATP binding site [chemical binding]; other site 1163399001882 Mg2+ binding site [ion binding]; other site 1163399001883 G-X-G motif; other site 1163399001884 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_7; cd04502 1163399001885 active site 1163399001886 catalytic triad [active] 1163399001887 oxyanion hole [active] 1163399001888 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1163399001889 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1163399001890 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1163399001891 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399001892 putative substrate translocation pore; other site 1163399001893 LemA family; Region: LemA; pfam04011 1163399001894 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1163399001895 Repair protein; Region: Repair_PSII; pfam04536 1163399001896 Repair protein; Region: Repair_PSII; pfam04536 1163399001897 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1163399001898 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1163399001899 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 1163399001900 dimerization interface [polypeptide binding]; other site 1163399001901 active site 1163399001902 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1163399001903 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 1163399001904 folate binding site [chemical binding]; other site 1163399001905 NADP+ binding site [chemical binding]; other site 1163399001906 Domain of unknown function (DUF1287); Region: DUF1287; pfam06940 1163399001907 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1163399001908 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1163399001909 active site 1163399001910 metal binding site [ion binding]; metal-binding site 1163399001911 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1163399001912 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1163399001913 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1163399001914 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 1163399001915 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1163399001916 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1163399001917 SurA N-terminal domain; Region: SurA_N; pfam09312 1163399001918 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1163399001919 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1163399001920 organic solvent tolerance protein; Provisional; Region: PRK04423 1163399001921 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1163399001922 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1163399001923 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1163399001924 putative active site [active] 1163399001925 Zn binding site [ion binding]; other site 1163399001926 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1163399001927 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1163399001928 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1163399001929 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Validated; Region: PRK08773 1163399001930 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1163399001931 EF hand; Region: EF_hand_3; pfam13202 1163399001932 EF-hand domain pair; Region: EF_hand_5; pfam13499 1163399001933 pseudo EF-hand loop; other site 1163399001934 peptide binding pocket; other site 1163399001935 Ca2+ binding site [ion binding]; other site 1163399001936 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1163399001937 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1163399001938 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 1163399001939 nucleoside/Zn binding site; other site 1163399001940 dimer interface [polypeptide binding]; other site 1163399001941 catalytic motif [active] 1163399001942 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 1163399001943 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1163399001944 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163399001945 active site 1163399001946 HIGH motif; other site 1163399001947 nucleotide binding site [chemical binding]; other site 1163399001948 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163399001949 active site 1163399001950 KMSKS motif; other site 1163399001951 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1163399001952 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1163399001953 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1163399001954 transaldolase-like protein; Provisional; Region: PTZ00411 1163399001955 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1163399001956 active site 1163399001957 dimer interface [polypeptide binding]; other site 1163399001958 catalytic residue [active] 1163399001959 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1163399001960 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1163399001961 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1163399001962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399001963 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 1163399001964 dimerization interface [polypeptide binding]; other site 1163399001965 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1163399001966 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 1163399001967 catalytic residue [active] 1163399001968 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 1163399001969 catalytic residues [active] 1163399001970 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163399001971 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163399001972 peroxiredoxin; Region: AhpC; TIGR03137 1163399001973 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 1163399001974 dimer interface [polypeptide binding]; other site 1163399001975 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1163399001976 catalytic triad [active] 1163399001977 peroxidatic and resolving cysteines [active] 1163399001978 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1163399001979 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 1163399001980 S-adenosylmethionine binding site [chemical binding]; other site 1163399001981 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1163399001984 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399001985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399001986 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 1163399001987 putative effector binding pocket; other site 1163399001988 dimerization interface [polypeptide binding]; other site 1163399001989 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163399001990 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399001991 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1163399001992 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 1163399001993 ADP-ribose binding site [chemical binding]; other site 1163399001994 dimer interface [polypeptide binding]; other site 1163399001995 active site 1163399001996 nudix motif; other site 1163399001997 metal binding site [ion binding]; metal-binding site 1163399001998 5'-3' exonuclease; Region: 53EXOc; smart00475 1163399001999 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1163399002000 active site 1163399002001 metal binding site 1 [ion binding]; metal-binding site 1163399002002 putative 5' ssDNA interaction site; other site 1163399002003 metal binding site 3; metal-binding site 1163399002004 metal binding site 2 [ion binding]; metal-binding site 1163399002005 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1163399002006 putative DNA binding site [nucleotide binding]; other site 1163399002007 putative metal binding site [ion binding]; other site 1163399002008 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 1163399002009 putative FMN binding site [chemical binding]; other site 1163399002010 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1163399002011 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1163399002012 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1163399002013 ligand binding site [chemical binding]; other site 1163399002014 homodimer interface [polypeptide binding]; other site 1163399002015 NAD(P) binding site [chemical binding]; other site 1163399002016 trimer interface B [polypeptide binding]; other site 1163399002017 trimer interface A [polypeptide binding]; other site 1163399002018 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 1163399002019 RNA polymerase factor sigma-70; Validated; Region: PRK09047 1163399002020 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 1163399002021 DNA binding residues [nucleotide binding] 1163399002022 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1163399002023 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1163399002024 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1163399002025 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 1163399002026 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1163399002027 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 1163399002028 homodimer interface [polypeptide binding]; other site 1163399002029 substrate-cofactor binding pocket; other site 1163399002030 catalytic residue [active] 1163399002031 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1163399002032 active site 1163399002033 catalytic triad [active] 1163399002034 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1163399002035 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1163399002036 active site 1163399002037 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1163399002038 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163399002039 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 1163399002040 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1163399002041 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1163399002042 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163399002043 catalytic residues [active] 1163399002044 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1163399002045 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 1163399002046 TPR motif; other site 1163399002047 binding surface 1163399002048 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1163399002049 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1163399002050 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1163399002051 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1163399002052 RF-1 domain; Region: RF-1; pfam00472 1163399002053 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1163399002054 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1163399002055 tRNA; other site 1163399002056 putative tRNA binding site [nucleotide binding]; other site 1163399002057 putative NADP binding site [chemical binding]; other site 1163399002058 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1163399002059 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 1163399002060 binding surface 1163399002061 TPR motif; other site 1163399002062 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 1163399002063 TPR motif; other site 1163399002064 binding surface 1163399002065 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1163399002066 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 1163399002067 binding surface 1163399002068 TPR motif; other site 1163399002069 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1163399002070 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1163399002071 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1163399002072 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK04923 1163399002073 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1163399002074 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163399002075 active site 1163399002076 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1163399002077 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1163399002078 5S rRNA interface [nucleotide binding]; other site 1163399002079 CTC domain interface [polypeptide binding]; other site 1163399002080 L16 interface [polypeptide binding]; other site 1163399002081 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 1163399002082 putative active site [active] 1163399002083 catalytic residue [active] 1163399002084 GTP-binding protein YchF; Reviewed; Region: PRK09601 1163399002085 YchF GTPase; Region: YchF; cd01900 1163399002086 G1 box; other site 1163399002087 GTP/Mg2+ binding site [chemical binding]; other site 1163399002088 Switch I region; other site 1163399002089 G2 box; other site 1163399002090 Switch II region; other site 1163399002091 G3 box; other site 1163399002092 G4 box; other site 1163399002093 G5 box; other site 1163399002094 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 1163399002095 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 1163399002096 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163399002097 transcriptional regulator RcsB; Provisional; Region: PRK10840 1163399002098 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 1163399002099 active site 1163399002100 phosphorylation site [posttranslational modification] 1163399002101 intermolecular recognition site; other site 1163399002102 dimerization interface [polypeptide binding]; other site 1163399002103 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 1163399002104 DNA binding residues [nucleotide binding] 1163399002105 dimerization interface [polypeptide binding]; other site 1163399002106 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 1163399002107 dimer interface [polypeptide binding]; other site 1163399002108 phosphorylation site [posttranslational modification] 1163399002109 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 1163399002110 ATP binding site [chemical binding]; other site 1163399002111 Mg2+ binding site [ion binding]; other site 1163399002112 G-X-G motif; other site 1163399002113 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399002114 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 1163399002115 active site 1163399002116 phosphorylation site [posttranslational modification] 1163399002117 intermolecular recognition site; other site 1163399002118 dimerization interface [polypeptide binding]; other site 1163399002119 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 1163399002120 putative binding surface; other site 1163399002121 active site 1163399002122 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399002123 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 1163399002124 active site 1163399002125 phosphorylation site [posttranslational modification] 1163399002126 intermolecular recognition site; other site 1163399002127 dimerization interface [polypeptide binding]; other site 1163399002128 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 1163399002129 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 1163399002130 dimer interface [polypeptide binding]; other site 1163399002131 phosphorylation site [posttranslational modification] 1163399002132 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 1163399002133 ATP binding site [chemical binding]; other site 1163399002134 Mg2+ binding site [ion binding]; other site 1163399002135 G-X-G motif; other site 1163399002136 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399002137 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 1163399002138 active site 1163399002139 phosphorylation site [posttranslational modification] 1163399002140 intermolecular recognition site; other site 1163399002141 dimerization interface [polypeptide binding]; other site 1163399002142 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1163399002143 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 1163399002144 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399002145 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1163399002146 proposed catalytic triad [active] 1163399002147 active site nucleophile [active] 1163399002148 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 1163399002149 catalytic nucleophile [active] 1163399002150 elongation factor Tu; Reviewed; Region: PRK00049 1163399002151 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1163399002152 G1 box; other site 1163399002153 GEF interaction site [polypeptide binding]; other site 1163399002154 GTP/Mg2+ binding site [chemical binding]; other site 1163399002155 Switch I region; other site 1163399002156 G2 box; other site 1163399002157 G3 box; other site 1163399002158 Switch II region; other site 1163399002159 G4 box; other site 1163399002160 G5 box; other site 1163399002161 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 1163399002162 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 1163399002163 Antibiotic Binding Site [chemical binding]; other site 1163399002164 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1163399002165 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1163399002166 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1163399002167 putative homodimer interface [polypeptide binding]; other site 1163399002168 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1163399002169 heterodimer interface [polypeptide binding]; other site 1163399002170 homodimer interface [polypeptide binding]; other site 1163399002171 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1163399002172 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 1163399002173 23S rRNA interface [nucleotide binding]; other site 1163399002174 L7/L12 interface [polypeptide binding]; other site 1163399002175 putative thiostrepton binding site; other site 1163399002176 L25 interface [polypeptide binding]; other site 1163399002177 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 1163399002178 mRNA/rRNA interface [nucleotide binding]; other site 1163399002179 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 1163399002180 23S rRNA interface [nucleotide binding]; other site 1163399002181 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1163399002182 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 1163399002183 core dimer interface [polypeptide binding]; other site 1163399002184 peripheral dimer interface [polypeptide binding]; other site 1163399002185 L10 interface [polypeptide binding]; other site 1163399002186 L11 interface [polypeptide binding]; other site 1163399002187 putative EF-Tu interaction site [polypeptide binding]; other site 1163399002188 putative EF-G interaction site [polypeptide binding]; other site 1163399002189 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1163399002190 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 1163399002191 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1163399002192 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1163399002193 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 1163399002194 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1163399002195 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 1163399002196 RPB3 interaction site [polypeptide binding]; other site 1163399002197 RPB1 interaction site [polypeptide binding]; other site 1163399002198 RPB11 interaction site [polypeptide binding]; other site 1163399002199 RPB10 interaction site [polypeptide binding]; other site 1163399002200 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1163399002201 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 1163399002202 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1163399002203 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1163399002204 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1163399002205 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1163399002206 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1163399002207 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1163399002208 DNA binding site [nucleotide binding] 1163399002209 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1163399002210 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 1163399002211 S17 interaction site [polypeptide binding]; other site 1163399002212 S8 interaction site; other site 1163399002213 16S rRNA interaction site [nucleotide binding]; other site 1163399002214 streptomycin interaction site [chemical binding]; other site 1163399002215 23S rRNA interaction site [nucleotide binding]; other site 1163399002216 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1163399002217 30S ribosomal protein S7; Validated; Region: PRK05302 1163399002218 elongation factor G; Reviewed; Region: PRK00007 1163399002219 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1163399002220 G1 box; other site 1163399002221 putative GEF interaction site [polypeptide binding]; other site 1163399002222 GTP/Mg2+ binding site [chemical binding]; other site 1163399002223 Switch I region; other site 1163399002224 G2 box; other site 1163399002225 G3 box; other site 1163399002226 Switch II region; other site 1163399002227 G4 box; other site 1163399002228 G5 box; other site 1163399002229 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 1163399002230 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 1163399002231 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 1163399002232 elongation factor Tu; Reviewed; Region: PRK00049 1163399002233 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1163399002234 G1 box; other site 1163399002235 GEF interaction site [polypeptide binding]; other site 1163399002236 GTP/Mg2+ binding site [chemical binding]; other site 1163399002237 Switch I region; other site 1163399002238 G2 box; other site 1163399002239 G3 box; other site 1163399002240 Switch II region; other site 1163399002241 G4 box; other site 1163399002242 G5 box; other site 1163399002243 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 1163399002244 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 1163399002245 Antibiotic Binding Site [chemical binding]; other site 1163399002246 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1163399002247 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1163399002248 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1163399002249 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1163399002250 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1163399002251 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1163399002252 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1163399002253 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1163399002254 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 1163399002255 putative translocon binding site; other site 1163399002256 protein-rRNA interface [nucleotide binding]; other site 1163399002257 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1163399002258 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 1163399002259 G-X-X-G motif; other site 1163399002260 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1163399002261 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 1163399002262 23S rRNA interface [nucleotide binding]; other site 1163399002263 5S rRNA interface [nucleotide binding]; other site 1163399002264 putative antibiotic binding site [chemical binding]; other site 1163399002265 L25 interface [polypeptide binding]; other site 1163399002266 L27 interface [polypeptide binding]; other site 1163399002267 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 1163399002268 putative translocon interaction site; other site 1163399002269 23S rRNA interface [nucleotide binding]; other site 1163399002270 signal recognition particle (SRP54) interaction site; other site 1163399002271 L23 interface [polypeptide binding]; other site 1163399002272 trigger factor interaction site; other site 1163399002273 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1163399002274 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1163399002275 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1163399002276 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1163399002277 RNA binding site [nucleotide binding]; other site 1163399002278 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1163399002279 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1163399002280 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1163399002281 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1163399002282 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1163399002283 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1163399002284 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1163399002285 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1163399002286 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 1163399002287 5S rRNA interface [nucleotide binding]; other site 1163399002288 23S rRNA interface [nucleotide binding]; other site 1163399002289 L5 interface [polypeptide binding]; other site 1163399002290 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1163399002291 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1163399002292 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1163399002293 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 1163399002294 23S rRNA binding site [nucleotide binding]; other site 1163399002295 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1163399002296 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1163399002297 SecY translocase; Region: SecY; pfam00344 1163399002298 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1163399002299 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1163399002300 30S ribosomal protein S11; Validated; Region: PRK05309 1163399002301 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1163399002302 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1163399002303 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 1163399002304 RNA binding surface [nucleotide binding]; other site 1163399002305 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1163399002306 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1163399002307 alphaNTD homodimer interface [polypeptide binding]; other site 1163399002308 alphaNTD - beta interaction site [polypeptide binding]; other site 1163399002309 alphaNTD - beta' interaction site [polypeptide binding]; other site 1163399002310 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1163399002311 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1163399002312 disulfide bond formation protein B; Provisional; Region: PRK04388 1163399002313 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399002314 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 1163399002315 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1163399002316 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1163399002317 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163399002318 amidase; Provisional; Region: PRK08137 1163399002319 Amidase; Region: Amidase; cl11426 1163399002320 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 1163399002321 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1163399002322 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1163399002323 G1 box; other site 1163399002324 putative GEF interaction site [polypeptide binding]; other site 1163399002325 GTP/Mg2+ binding site [chemical binding]; other site 1163399002326 Switch I region; other site 1163399002327 G2 box; other site 1163399002328 G3 box; other site 1163399002329 Switch II region; other site 1163399002330 G4 box; other site 1163399002331 G5 box; other site 1163399002332 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 1163399002333 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 1163399002334 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1163399002335 active site 1163399002336 malate dehydrogenase; Provisional; Region: PRK05442 1163399002337 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1163399002338 NAD(P) binding site [chemical binding]; other site 1163399002339 dimer interface [polypeptide binding]; other site 1163399002340 malate binding site [chemical binding]; other site 1163399002341 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1163399002342 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163399002343 active site 1163399002344 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1163399002345 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1163399002346 acyl-activating enzyme (AAE) consensus motif; other site 1163399002347 AMP binding site [chemical binding]; other site 1163399002348 active site 1163399002349 CoA binding site [chemical binding]; other site 1163399002350 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1163399002351 glutathionine S-transferase; Provisional; Region: PRK10542 1163399002352 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 1163399002353 C-terminal domain interface [polypeptide binding]; other site 1163399002354 GSH binding site (G-site) [chemical binding]; other site 1163399002355 dimer interface [polypeptide binding]; other site 1163399002356 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1163399002357 dimer interface [polypeptide binding]; other site 1163399002358 N-terminal domain interface [polypeptide binding]; other site 1163399002359 substrate binding pocket (H-site) [chemical binding]; other site 1163399002360 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1163399002361 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1163399002362 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 1163399002363 active site 1163399002364 FMN binding site [chemical binding]; other site 1163399002365 2,4-decadienoyl-CoA binding site; other site 1163399002366 catalytic residue [active] 1163399002367 4Fe-4S cluster binding site [ion binding]; other site 1163399002368 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1163399002369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163399002370 Predicted membrane protein [Function unknown]; Region: COG2364 1163399002371 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1163399002372 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1163399002373 putative NAD(P) binding site [chemical binding]; other site 1163399002374 dimer interface [polypeptide binding]; other site 1163399002375 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1163399002376 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1163399002377 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163399002378 ligand binding site [chemical binding]; other site 1163399002379 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 1163399002380 RNA binding surface [nucleotide binding]; other site 1163399002381 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1163399002382 pseudouridine synthase; Region: TIGR00093 1163399002383 active site 1163399002384 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1163399002385 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 1163399002386 substrate-cofactor binding pocket; other site 1163399002387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399002388 catalytic residue [active] 1163399002389 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1163399002390 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1163399002391 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1163399002392 NAD(P) binding site [chemical binding]; other site 1163399002393 Peptidase S46; Region: Peptidase_S46; pfam10459 1163399002394 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1163399002395 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 1163399002396 catalytic core [active] 1163399002397 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1163399002398 Sporulation related domain; Region: SPOR; pfam05036 1163399002399 Sporulation related domain; Region: SPOR; pfam05036 1163399002400 Colicin V production protein; Region: Colicin_V; pfam02674 1163399002401 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1163399002402 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 1163399002403 active site 1163399002404 tetramer interface [polypeptide binding]; other site 1163399002405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163399002406 active site 1163399002407 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1163399002408 dinuclear metal binding motif [ion binding]; other site 1163399002409 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1163399002410 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1163399002411 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1163399002412 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163399002413 putative active site [active] 1163399002414 putative metal binding site [ion binding]; other site 1163399002415 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1163399002416 active site 1163399002417 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163399002418 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_2; cd03814 1163399002419 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1163399002420 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1163399002421 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 1163399002422 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1163399002423 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1163399002424 polyphosphate kinase; Provisional; Region: PRK05443 1163399002425 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1163399002426 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1163399002427 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1163399002428 putative domain interface [polypeptide binding]; other site 1163399002429 putative active site [active] 1163399002430 catalytic site [active] 1163399002431 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1163399002432 putative domain interface [polypeptide binding]; other site 1163399002433 putative active site [active] 1163399002434 catalytic site [active] 1163399002435 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1163399002436 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1163399002437 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 1163399002438 dimer interface [polypeptide binding]; other site 1163399002439 phosphorylation site [posttranslational modification] 1163399002440 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 1163399002441 ATP binding site [chemical binding]; other site 1163399002442 Mg2+ binding site [ion binding]; other site 1163399002443 G-X-G motif; other site 1163399002444 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1163399002445 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 1163399002446 active site 1163399002447 phosphorylation site [posttranslational modification] 1163399002448 intermolecular recognition site; other site 1163399002449 dimerization interface [polypeptide binding]; other site 1163399002450 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 1163399002451 DNA binding site [nucleotide binding] 1163399002452 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1163399002453 Peptidase family M48; Region: Peptidase_M48; pfam01435 1163399002454 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 1163399002455 GSH binding site [chemical binding]; other site 1163399002456 catalytic residues [active] 1163399002457 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1163399002458 isocitrate dehydrogenase; Provisional; Region: PRK08997 1163399002459 tartrate dehydrogenase; Region: TTC; TIGR02089 1163399002460 Isochorismatase family; Region: Isochorismatase; pfam00857 1163399002461 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 1163399002462 catalytic triad [active] 1163399002463 conserved cis-peptide bond; other site 1163399002464 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399002465 LysR family transcriptional regulator; Provisional; Region: PRK14997 1163399002466 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 1163399002467 putative effector binding pocket; other site 1163399002468 dimerization interface [polypeptide binding]; other site 1163399002469 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1163399002470 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1163399002471 Bax inhibitor 1 like; Region: BaxI_1; cl17691 1163399002472 trigger factor; Provisional; Region: tig; PRK01490 1163399002473 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1163399002474 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1163399002475 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1163399002476 oligomer interface [polypeptide binding]; other site 1163399002477 active site residues [active] 1163399002478 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1163399002479 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1163399002480 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 1163399002481 Walker A motif; other site 1163399002482 ATP binding site [chemical binding]; other site 1163399002483 Walker B motif; other site 1163399002484 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1163399002485 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1163399002486 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1163399002487 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 1163399002488 Walker A motif; other site 1163399002489 ATP binding site [chemical binding]; other site 1163399002490 Walker B motif; other site 1163399002491 arginine finger; other site 1163399002492 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1163399002493 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 1163399002494 IHF dimer interface [polypeptide binding]; other site 1163399002495 IHF - DNA interface [nucleotide binding]; other site 1163399002496 periplasmic folding chaperone; Provisional; Region: PRK10788 1163399002497 SurA N-terminal domain; Region: SurA_N_3; cl07813 1163399002498 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1163399002499 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 1163399002500 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1163399002501 active site 1163399002502 Int/Topo IB signature motif; other site 1163399002503 DNA binding site [nucleotide binding] 1163399002504 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1163399002505 Helix-turn-helix domain; Region: HTH_37; pfam13744 1163399002506 Predicted ATPase [General function prediction only]; Region: COG5293 1163399002507 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 1163399002508 Domain of unknown function DUF87; Region: DUF87; pfam01935 1163399002509 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1163399002510 Zonular occludens toxin (Zot); Region: Zot; cl17485 1163399002511 SIR2-like domain; Region: SIR2_2; pfam13289 1163399002512 Domain of unknown function (DUF932); Region: DUF932; pfam06067 1163399002513 ParB-like nuclease domain; Region: ParBc; pfam02195 1163399002514 Uncharacterized conserved protein [Function unknown]; Region: COG5489 1163399002515 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1163399002516 sequence-specific DNA binding site [nucleotide binding]; other site 1163399002517 salt bridge; other site 1163399002518 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 1163399002519 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 1163399002520 Helix-turn-helix domain; Region: HTH_17; cl17695 1163399002521 Replication initiator protein A; Region: RPA; pfam10134 1163399002522 ParA-like protein; Provisional; Region: PHA02518 1163399002523 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1163399002524 P-loop; other site 1163399002525 Magnesium ion binding site [ion binding]; other site 1163399002526 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 1163399002527 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1163399002528 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1163399002529 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1163399002530 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1163399002531 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 1163399002532 dimer interface [polypeptide binding]; other site 1163399002533 phosphorylation site [posttranslational modification] 1163399002534 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1163399002535 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 1163399002536 ATP binding site [chemical binding]; other site 1163399002537 Mg2+ binding site [ion binding]; other site 1163399002538 G-X-G motif; other site 1163399002539 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399002540 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 1163399002541 active site 1163399002542 phosphorylation site [posttranslational modification] 1163399002543 intermolecular recognition site; other site 1163399002544 dimerization interface [polypeptide binding]; other site 1163399002545 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 1163399002546 DNA binding site [nucleotide binding] 1163399002547 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 1163399002548 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1163399002549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 1163399002550 Outer membrane efflux protein; Region: OEP; pfam02321 1163399002551 Outer membrane efflux protein; Region: OEP; pfam02321 1163399002552 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1163399002553 Protein export membrane protein; Region: SecD_SecF; cl14618 1163399002554 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1163399002555 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399002556 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399002557 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399002558 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399002559 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 1163399002560 active site 1163399002561 phosphorylation site [posttranslational modification] 1163399002562 intermolecular recognition site; other site 1163399002563 dimerization interface [polypeptide binding]; other site 1163399002564 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 1163399002565 DNA binding site [nucleotide binding] 1163399002566 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399002567 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 1163399002568 dimerization interface [polypeptide binding]; other site 1163399002569 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 1163399002570 dimer interface [polypeptide binding]; other site 1163399002571 phosphorylation site [posttranslational modification] 1163399002572 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 1163399002573 ATP binding site [chemical binding]; other site 1163399002574 Mg2+ binding site [ion binding]; other site 1163399002575 G-X-G motif; other site 1163399002576 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1163399002577 Ca2+ binding site [ion binding]; other site 1163399002578 MltA-interacting protein MipA; Region: MipA; cl01504 1163399002580 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399002581 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399002582 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 1163399002583 dimerization interface [polypeptide binding]; other site 1163399002584 substrate binding pocket [chemical binding]; other site 1163399002585 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1163399002586 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 1163399002587 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 1163399002588 Walker A motif; other site 1163399002589 ATP binding site [chemical binding]; other site 1163399002590 Walker B motif; other site 1163399002591 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1163399002592 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1163399002593 ATP binding site [chemical binding]; other site 1163399002594 Walker A motif; other site 1163399002595 hexamer interface [polypeptide binding]; other site 1163399002596 Walker B motif; other site 1163399002597 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1163399002598 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 1163399002599 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 1163399002600 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1163399002601 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1163399002602 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 1163399002603 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 1163399002604 conjugal transfer protein TrbL; Provisional; Region: PRK13875 1163399002605 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1163399002606 conjugal transfer protein TrbF; Provisional; Region: PRK13872 1163399002607 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1163399002608 VirB7 interaction site; other site 1163399002609 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1163399002610 Uncharacterized conserved small protein [Function unknown]; Region: COG5639 1163399002611 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 1163399002612 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163399002613 catalytic residue [active] 1163399002614 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1163399002615 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1163399002616 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1163399002617 RNA/DNA hybrid binding site [nucleotide binding]; other site 1163399002618 active site 1163399002619 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1163399002620 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 1163399002621 active site 1163399002622 catalytic site [active] 1163399002623 substrate binding site [chemical binding]; other site 1163399002624 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1163399002625 Protein phosphatase 2C; Region: PP2C; pfam00481 1163399002626 active site 1163399002627 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 1163399002628 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 1163399002629 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 1163399002630 putative active site [active] 1163399002631 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1163399002632 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 1163399002633 active site 1163399002634 ATP binding site [chemical binding]; other site 1163399002635 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1163399002636 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 1163399002637 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1163399002638 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1163399002639 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1163399002640 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1163399002641 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1163399002642 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163399002643 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 1163399002644 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1163399002645 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163399002646 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1163399002647 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163399002648 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1163399002649 phosphopeptide binding site; other site 1163399002650 Type II/IV secretion system protein; Region: T2SE; pfam00437 1163399002651 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1163399002652 ATP binding site [chemical binding]; other site 1163399002653 Walker A motif; other site 1163399002654 hexamer interface [polypeptide binding]; other site 1163399002655 Walker B motif; other site 1163399002656 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1163399002657 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1163399002658 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1163399002659 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1163399002660 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1163399002661 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163399002662 ligand binding site [chemical binding]; other site 1163399002663 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1163399002664 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 1163399002665 Walker A motif; other site 1163399002666 ATP binding site [chemical binding]; other site 1163399002667 Walker B motif; other site 1163399002668 arginine finger; other site 1163399002669 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1163399002670 hypothetical protein; Validated; Region: PRK00153 1163399002671 recombination protein RecR; Reviewed; Region: recR; PRK00076 1163399002672 RecR protein; Region: RecR; pfam02132 1163399002673 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 1163399002674 putative active site [active] 1163399002675 putative metal-binding site [ion binding]; other site 1163399002676 tetramer interface [polypeptide binding]; other site 1163399002677 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 1163399002678 nucleotide binding site/active site [active] 1163399002679 HIT family signature motif; other site 1163399002680 catalytic residue [active] 1163399002681 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 1163399002682 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1163399002683 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1163399002684 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1163399002685 Protein of unknown function DUF58; Region: DUF58; pfam01882 1163399002686 MoxR-like ATPases [General function prediction only]; Region: COG0714 1163399002687 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 1163399002688 Walker A motif; other site 1163399002689 ATP binding site [chemical binding]; other site 1163399002690 Walker B motif; other site 1163399002691 arginine finger; other site 1163399002692 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1163399002693 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1163399002694 Maf-like protein; Region: Maf; pfam02545 1163399002695 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 1163399002696 active site 1163399002697 dimer interface [polypeptide binding]; other site 1163399002698 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1163399002699 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1163399002700 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1163399002701 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 1163399002702 dimer interface [polypeptide binding]; other site 1163399002703 active site 1163399002704 CoA binding pocket [chemical binding]; other site 1163399002705 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1163399002706 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1163399002707 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1163399002708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399002709 NAD(P) binding site [chemical binding]; other site 1163399002710 active site 1163399002711 acyl carrier protein; Provisional; Region: acpP; PRK00982 1163399002712 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1163399002713 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 1163399002714 dimer interface [polypeptide binding]; other site 1163399002715 active site 1163399002716 hypothetical protein; Validated; Region: PRK09070 1163399002717 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1163399002718 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1163399002719 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1163399002720 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1163399002721 dimerization interface [polypeptide binding]; other site 1163399002722 thymidylate kinase; Validated; Region: tmk; PRK00698 1163399002723 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 1163399002724 TMP-binding site; other site 1163399002725 ATP-binding site [chemical binding]; other site 1163399002726 DNA polymerase III subunit delta'; Validated; Region: PRK08769 1163399002727 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_HprK; cl00270 1163399002728 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1163399002729 PilZ domain; Region: PilZ; cl01260 1163399002730 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1163399002731 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1163399002732 dimer interface [polypeptide binding]; other site 1163399002733 hexamer interface [polypeptide binding]; other site 1163399002734 active site 2 [active] 1163399002735 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1163399002736 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 1163399002737 N-terminal plug; other site 1163399002738 ligand-binding site [chemical binding]; other site 1163399002739 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1163399002740 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1163399002741 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399002742 putative substrate translocation pore; other site 1163399002743 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1163399002744 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1163399002745 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1163399002746 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1163399002747 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1163399002748 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1163399002749 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 1163399002750 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 1163399002751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163399002752 DNA-binding site [nucleotide binding]; DNA binding site 1163399002753 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 1163399002754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399002755 homodimer interface [polypeptide binding]; other site 1163399002756 catalytic residue [active] 1163399002757 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399002758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399002759 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_7; cd08476 1163399002760 putative effector binding pocket; other site 1163399002761 putative dimerization interface [polypeptide binding]; other site 1163399002762 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399002763 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1163399002764 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1163399002765 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1163399002766 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399002767 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1163399002768 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1163399002769 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1163399002770 DNA binding residues [nucleotide binding] 1163399002771 dimer interface [polypeptide binding]; other site 1163399002772 [2Fe-2S] cluster binding site [ion binding]; other site 1163399002773 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 1163399002774 putative NAD(P) binding site [chemical binding]; other site 1163399002775 homodimer interface [polypeptide binding]; other site 1163399002776 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399002777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399002778 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_8; cd08477 1163399002779 putative effector binding pocket; other site 1163399002780 putative dimerization interface [polypeptide binding]; other site 1163399002781 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1163399002782 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1163399002783 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1163399002784 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163399002785 catalytic residue [active] 1163399002786 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1163399002787 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 1163399002788 Walker A motif; other site 1163399002789 ATP binding site [chemical binding]; other site 1163399002790 Walker B motif; other site 1163399002791 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1163399002792 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 1163399002793 Walker A motif; other site 1163399002794 ATP binding site [chemical binding]; other site 1163399002795 Walker B motif; other site 1163399002796 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 1163399002797 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1163399002798 active site 1163399002799 catalytic tetrad [active] 1163399002800 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399002801 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399002802 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 1163399002803 putative effector binding pocket; other site 1163399002804 putative dimerization interface [polypeptide binding]; other site 1163399002805 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 1163399002806 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1163399002807 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1163399002808 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1163399002809 hypothetical protein; Validated; Region: PRK00228 1163399002810 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1163399002811 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1163399002812 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1163399002813 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1163399002814 Transposase IS200 like; Region: Y1_Tnp; cl00848 1163399002815 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1163399002816 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1163399002817 MgtE intracellular N domain; Region: MgtE_N; smart00924 1163399002818 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1163399002819 Divalent cation transporter; Region: MgtE; pfam01769 1163399002820 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1163399002821 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1163399002822 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1163399002823 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1163399002824 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 1163399002825 dimerization domain swap beta strand [polypeptide binding]; other site 1163399002826 regulatory protein interface [polypeptide binding]; other site 1163399002827 active site 1163399002828 regulatory phosphorylation site [posttranslational modification]; other site 1163399002829 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; cl00025 1163399002830 active site 1163399002831 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1163399002832 AAA domain; Region: AAA_33; pfam13671 1163399002833 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1163399002834 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1163399002835 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1163399002836 Hpr binding site; other site 1163399002837 active site 1163399002838 homohexamer subunit interaction site [polypeptide binding]; other site 1163399002839 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 1163399002840 active site 1163399002841 phosphorylation site [posttranslational modification] 1163399002842 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 1163399002843 30S subunit binding site; other site 1163399002844 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1163399002845 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1163399002846 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1163399002847 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1163399002848 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1163399002849 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1163399002850 Walker A/P-loop; other site 1163399002851 ATP binding site [chemical binding]; other site 1163399002852 Q-loop/lid; other site 1163399002853 ABC transporter signature motif; other site 1163399002854 Walker B; other site 1163399002855 D-loop; other site 1163399002856 H-loop/switch region; other site 1163399002857 OstA-like protein; Region: OstA; cl00844 1163399002858 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1163399002859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1163399002860 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1163399002861 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1163399002862 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1163399002863 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 1163399002864 putative active site [active] 1163399002865 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 1163399002866 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1163399002867 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1163399002868 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 1163399002869 hinge; other site 1163399002870 active site 1163399002871 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1163399002872 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1163399002873 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1163399002874 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1163399002875 active site 1163399002876 substrate binding site [chemical binding]; other site 1163399002877 cosubstrate binding site; other site 1163399002878 catalytic site [active] 1163399002879 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 1163399002880 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1163399002881 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 1163399002882 dimerization interface [polypeptide binding]; other site 1163399002883 putative ATP binding site [chemical binding]; other site 1163399002884 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1163399002885 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1163399002886 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1163399002887 hypothetical protein; Validated; Region: PRK08727 1163399002888 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1163399002889 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1163399002890 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1163399002891 Substrate binding site; other site 1163399002892 metal-binding site 1163399002893 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1163399002894 Phosphotransferase enzyme family; Region: APH; pfam01636 1163399002895 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 1163399002896 hypothetical protein; Provisional; Region: PRK08201 1163399002897 metal binding site [ion binding]; metal-binding site 1163399002898 putative dimer interface [polypeptide binding]; other site 1163399002899 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1163399002900 hypothetical protein; Provisional; Region: PRK06132 1163399002901 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1163399002902 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1163399002903 HutD; Region: HutD; pfam05962 1163399002904 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1163399002905 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_like1; cd06200 1163399002906 FAD binding pocket [chemical binding]; other site 1163399002907 FAD binding motif [chemical binding]; other site 1163399002908 catalytic residues [active] 1163399002909 NAD binding pocket [chemical binding]; other site 1163399002910 phosphate binding motif [ion binding]; other site 1163399002911 beta-alpha-beta structure motif; other site 1163399002912 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1163399002913 ApbE family; Region: ApbE; pfam02424 1163399002914 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1163399002915 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl17856 1163399002916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1163399002917 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1163399002918 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1163399002919 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 1163399002920 N-terminal plug; other site 1163399002921 ligand-binding site [chemical binding]; other site 1163399002922 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1163399002923 Sel1 repeat; Region: Sel1; cl02723 1163399002924 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163399002925 Sel1 repeat; Region: Sel1; cl02723 1163399002926 Sel1-like repeats; Region: SEL1; smart00671 1163399002927 Sel1-like repeats; Region: SEL1; smart00671 1163399002928 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1163399002929 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 1163399002930 N-terminal plug; other site 1163399002931 ligand-binding site [chemical binding]; other site 1163399002932 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 1163399002933 [2Fe-2S] cluster binding site [ion binding]; other site 1163399002934 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1163399002935 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399002936 Coenzyme A binding pocket [chemical binding]; other site 1163399002937 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163399002938 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1163399002939 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1163399002940 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 1163399002941 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163399002942 catalytic residue [active] 1163399002943 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1163399002944 FeS assembly protein SufD; Region: sufD; TIGR01981 1163399002945 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1163399002946 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1163399002947 Walker A/P-loop; other site 1163399002948 ATP binding site [chemical binding]; other site 1163399002949 Q-loop/lid; other site 1163399002950 ABC transporter signature motif; other site 1163399002951 Walker B; other site 1163399002952 D-loop; other site 1163399002953 H-loop/switch region; other site 1163399002954 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1163399002955 putative ABC transporter; Region: ycf24; CHL00085 1163399002956 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 1163399002957 Transcriptional regulator; Region: Rrf2; pfam02082 1163399002958 Transcriptional regulator; Region: Rrf2; cl17282 1163399002959 Proteins containing SET domain [General function prediction only]; Region: COG2940 1163399002960 SET domain; Region: SET; pfam00856 1163399002961 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1163399002962 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1163399002963 proposed catalytic triad [active] 1163399002964 conserved cys residue [active] 1163399002965 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; cl00257 1163399002966 IHF dimer interface [polypeptide binding]; other site 1163399002967 IHF - DNA interface [nucleotide binding]; other site 1163399002968 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1163399002969 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1163399002970 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1163399002971 bifunctional aspartate kinase/diaminopimelate decarboxylase protein; Provisional; Region: PRK08961 1163399002972 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 1163399002973 nucleotide binding site [chemical binding]; other site 1163399002974 substrate binding site [chemical binding]; other site 1163399002975 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein; Region: ACT_AKiii-DAPDC_1; cd04935 1163399002976 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1163399002977 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1163399002978 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163399002979 catalytic residue [active] 1163399002980 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04690 1163399002981 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 1163399002982 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163399002983 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1163399002984 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1163399002985 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1163399002986 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1163399002987 substrate binding pocket [chemical binding]; other site 1163399002988 chain length determination region; other site 1163399002989 substrate-Mg2+ binding site; other site 1163399002990 catalytic residues [active] 1163399002991 aspartate-rich region 1; other site 1163399002992 active site lid residues [active] 1163399002993 aspartate-rich region 2; other site 1163399002994 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 1163399002995 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1163399002996 active site 1163399002997 catalytic site [active] 1163399002998 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1163399002999 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1163399003000 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 1163399003001 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 1163399003002 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 1163399003003 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 1163399003004 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399003005 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399003006 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1163399003007 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1163399003008 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 1163399003009 active site 1163399003010 catalytic site [active] 1163399003011 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1163399003012 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1163399003013 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1163399003014 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1163399003015 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1163399003016 Zn binding site [ion binding]; other site 1163399003017 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1163399003018 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 1163399003019 Walker A/P-loop; other site 1163399003020 ATP binding site [chemical binding]; other site 1163399003021 Q-loop/lid; other site 1163399003022 ABC transporter signature motif; other site 1163399003023 Walker B; other site 1163399003024 D-loop; other site 1163399003025 H-loop/switch region; other site 1163399003026 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1163399003027 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1163399003028 DNA binding site [nucleotide binding] 1163399003029 domain linker motif; other site 1163399003030 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 1163399003031 putative dimerization interface [polypeptide binding]; other site 1163399003032 putative ligand binding site [chemical binding]; other site 1163399003033 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1163399003034 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 1163399003035 dimer interface [polypeptide binding]; other site 1163399003036 ssDNA binding site [nucleotide binding]; other site 1163399003037 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1163399003038 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1163399003039 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1163399003040 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1163399003041 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1163399003042 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1163399003043 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1163399003044 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1163399003045 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1163399003046 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1163399003047 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1163399003048 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1163399003049 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1163399003050 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 1163399003051 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1163399003052 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 1163399003053 Metal-binding active site; metal-binding site 1163399003054 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1163399003055 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1163399003056 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1163399003057 DNA binding site [nucleotide binding] 1163399003058 domain linker motif; other site 1163399003059 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1163399003060 dimerization interface [polypeptide binding]; other site 1163399003061 ligand binding site [chemical binding]; other site 1163399003062 MASE2 domain; Region: MASE2; pfam05230 1163399003063 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399003064 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399003065 metal binding site [ion binding]; metal-binding site 1163399003066 active site 1163399003067 I-site; other site 1163399003068 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1163399003069 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399003070 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399003071 metal binding site [ion binding]; metal-binding site 1163399003072 active site 1163399003073 I-site; other site 1163399003074 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 1163399003075 CoenzymeA binding site [chemical binding]; other site 1163399003076 subunit interaction site [polypeptide binding]; other site 1163399003077 PHB binding site; other site 1163399003078 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1163399003079 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1163399003080 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1163399003081 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 1163399003082 dimerization interface [polypeptide binding]; other site 1163399003083 putative DNA binding site [nucleotide binding]; other site 1163399003084 putative Zn2+ binding site [ion binding]; other site 1163399003085 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1163399003086 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 1163399003087 non-specific DNA binding site [nucleotide binding]; other site 1163399003088 salt bridge; other site 1163399003089 sequence-specific DNA binding site [nucleotide binding]; other site 1163399003090 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1163399003091 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1163399003092 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 1163399003093 Transporter associated domain; Region: CorC_HlyC; smart01091 1163399003094 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1163399003095 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163399003096 putative active site [active] 1163399003097 putative metal binding site [ion binding]; other site 1163399003098 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1163399003099 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1163399003100 hypothetical protein; Provisional; Region: PRK05409 1163399003101 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1163399003102 EF-hand domain pair; Region: EF_hand_5; pfam13499 1163399003103 Ca2+ binding site [ion binding]; other site 1163399003104 DoxX; Region: DoxX; pfam07681 1163399003105 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399003106 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 1163399003107 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163399003108 catalytic residues [active] 1163399003109 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399003110 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 1163399003111 active site 1163399003112 phosphorylation site [posttranslational modification] 1163399003113 intermolecular recognition site; other site 1163399003114 dimerization interface [polypeptide binding]; other site 1163399003115 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 1163399003116 DNA binding site [nucleotide binding] 1163399003117 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1163399003118 dimer interface [polypeptide binding]; other site 1163399003119 phosphorylation site [posttranslational modification] 1163399003120 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 1163399003121 ATP binding site [chemical binding]; other site 1163399003122 Mg2+ binding site [ion binding]; other site 1163399003123 G-X-G motif; other site 1163399003124 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399003125 metabolite-proton symporter; Region: 2A0106; TIGR00883 1163399003126 putative substrate translocation pore; other site 1163399003127 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 1163399003128 active site 1163399003129 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1163399003130 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163399003131 DNA-binding site [nucleotide binding]; DNA binding site 1163399003132 FCD domain; Region: FCD; pfam07729 1163399003133 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1163399003134 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1163399003135 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1163399003136 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1163399003137 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 1163399003138 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK02098 1163399003139 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1163399003140 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 1163399003141 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1163399003142 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 1163399003143 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1163399003144 Coenzyme A transferase; Region: CoA_trans; cl17247 1163399003145 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 1163399003146 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 1163399003147 N-terminal plug; other site 1163399003148 ligand-binding site [chemical binding]; other site 1163399003149 malate:quinone oxidoreductase; Validated; Region: PRK05257 1163399003150 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1163399003151 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1163399003152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399003153 Coenzyme A binding pocket [chemical binding]; other site 1163399003154 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1163399003155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399003156 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 1163399003157 dimerization interface [polypeptide binding]; other site 1163399003158 LysE type translocator; Region: LysE; cl00565 1163399003159 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1163399003160 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399003161 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1163399003162 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399003163 POT family; Region: PTR2; cl17359 1163399003164 Predicted membrane protein [Function unknown]; Region: COG3503 1163399003165 Predicted membrane protein [Function unknown]; Region: COG1297 1163399003166 putative oligopeptide transporter, OPT family; Region: TIGR00733 1163399003167 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1163399003168 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163399003169 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399003170 Protein of unknown function (DUF819); Region: DUF819; pfam05684 1163399003171 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1163399003172 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1163399003173 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 1163399003174 Switch I; other site 1163399003175 Switch II; other site 1163399003176 septum formation inhibitor; Reviewed; Region: minC; PRK04596 1163399003177 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1163399003178 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1163399003179 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163399003180 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1163399003181 Histidine kinase; Region: HisKA_3; pfam07730 1163399003182 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 1163399003183 ATP binding site [chemical binding]; other site 1163399003184 Mg2+ binding site [ion binding]; other site 1163399003185 G-X-G motif; other site 1163399003186 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399003187 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 1163399003188 active site 1163399003189 phosphorylation site [posttranslational modification] 1163399003190 intermolecular recognition site; other site 1163399003191 dimerization interface [polypeptide binding]; other site 1163399003192 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 1163399003193 DNA binding residues [nucleotide binding] 1163399003194 dimerization interface [polypeptide binding]; other site 1163399003195 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 1163399003196 putative hydrophobic ligand binding site [chemical binding]; other site 1163399003197 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1163399003198 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 1163399003199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 1163399003200 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 1163399003201 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1163399003202 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1163399003203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399003204 ATP-grasp domain; Region: ATP-grasp; pfam02222 1163399003205 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1163399003206 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1163399003207 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1163399003208 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1163399003209 Ca2+ binding site [ion binding]; other site 1163399003210 EF-hand domain pair; Region: EF_hand_5; pfam13499 1163399003211 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1163399003212 EF-hand domain pair; Region: EF_hand_5; pfam13499 1163399003213 Ca2+ binding site [ion binding]; other site 1163399003214 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1163399003215 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399003216 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 1163399003217 DNA binding residues [nucleotide binding] 1163399003218 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1163399003219 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 1163399003220 active site 1163399003221 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 1163399003222 catalytic triad [active] 1163399003223 dimer interface [polypeptide binding]; other site 1163399003224 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1163399003225 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 1163399003226 substrate binding site [chemical binding]; other site 1163399003227 oxyanion hole (OAH) forming residues; other site 1163399003228 trimer interface [polypeptide binding]; other site 1163399003229 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1163399003230 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 1163399003231 active site 1163399003232 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1163399003233 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1163399003234 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1163399003235 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1163399003236 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1163399003237 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1163399003238 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1163399003239 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1163399003240 GTP1/OBG; Region: GTP1_OBG; pfam01018 1163399003241 Obg GTPase; Region: Obg; cd01898 1163399003242 G1 box; other site 1163399003243 GTP/Mg2+ binding site [chemical binding]; other site 1163399003244 Switch I region; other site 1163399003245 G2 box; other site 1163399003246 G3 box; other site 1163399003247 Switch II region; other site 1163399003248 G4 box; other site 1163399003249 G5 box; other site 1163399003250 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1163399003251 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1163399003252 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1163399003253 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1163399003254 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1163399003255 active site 1163399003256 Riboflavin kinase; Region: Flavokinase; pfam01687 1163399003257 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1163399003258 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163399003259 active site 1163399003260 HIGH motif; other site 1163399003261 nucleotide binding site [chemical binding]; other site 1163399003262 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1163399003263 active site 1163399003264 KMSKS motif; other site 1163399003265 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1163399003266 tRNA binding surface [nucleotide binding]; other site 1163399003267 anticodon binding site; other site 1163399003268 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1163399003269 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1163399003270 lipoprotein signal peptidase; Provisional; Region: PRK14787 1163399003271 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1163399003272 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1163399003273 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1163399003274 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1163399003275 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1163399003276 YhhN-like protein; Region: YhhN; pfam07947 1163399003277 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399003278 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 1163399003279 N-terminal plug; other site 1163399003280 ligand-binding site [chemical binding]; other site 1163399003281 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1163399003282 FecR protein; Region: FecR; pfam04773 1163399003283 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1163399003284 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399003285 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 1163399003286 DNA binding residues [nucleotide binding] 1163399003287 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163399003288 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1163399003289 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1163399003290 putative ligand binding site [chemical binding]; other site 1163399003291 putative NAD binding site [chemical binding]; other site 1163399003292 catalytic site [active] 1163399003293 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1163399003294 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1163399003295 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1163399003296 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1163399003297 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1163399003298 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1163399003299 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 1163399003300 D-pathway; other site 1163399003301 Putative ubiquinol binding site [chemical binding]; other site 1163399003302 Low-spin heme (heme b) binding site [chemical binding]; other site 1163399003303 Putative water exit pathway; other site 1163399003304 Binuclear center (heme o3/CuB) [ion binding]; other site 1163399003305 K-pathway; other site 1163399003306 Putative proton exit pathway; other site 1163399003307 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 1163399003308 Subunit I/III interface [polypeptide binding]; other site 1163399003309 Subunit III/IV interface [polypeptide binding]; other site 1163399003310 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1163399003311 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1163399003312 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1163399003313 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1163399003314 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399003315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399003316 metal binding site [ion binding]; metal-binding site 1163399003317 active site 1163399003318 I-site; other site 1163399003319 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 1163399003320 DNA repair protein RadA; Provisional; Region: PRK11823 1163399003321 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 1163399003322 Walker A motif/ATP binding site; other site 1163399003323 ATP binding site [chemical binding]; other site 1163399003324 Walker B motif; other site 1163399003325 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1163399003326 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 1163399003327 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 1163399003328 ATP binding site [chemical binding]; other site 1163399003329 Mg2+ binding site [ion binding]; other site 1163399003330 G-X-G motif; other site 1163399003331 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1163399003332 signal recognition particle protein; Provisional; Region: PRK10867 1163399003333 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1163399003334 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 1163399003335 P loop; other site 1163399003336 GTP binding site [chemical binding]; other site 1163399003337 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1163399003338 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1163399003339 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1163399003340 FMN binding site [chemical binding]; other site 1163399003341 substrate binding site [chemical binding]; other site 1163399003342 putative catalytic residue [active] 1163399003343 hypothetical protein; Provisional; Region: PRK09266 1163399003344 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1163399003345 homodimer interface [polypeptide binding]; other site 1163399003346 substrate-cofactor binding pocket; other site 1163399003347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399003348 catalytic residue [active] 1163399003349 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1163399003350 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1163399003351 RimM N-terminal domain; Region: RimM; pfam01782 1163399003352 PRC-barrel domain; Region: PRC; pfam05239 1163399003353 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1163399003354 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1163399003355 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1163399003356 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1163399003357 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1163399003358 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1163399003359 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 1163399003360 RNA binding surface [nucleotide binding]; other site 1163399003361 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 1163399003362 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1163399003363 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1163399003364 tetramer interface [polypeptide binding]; other site 1163399003365 heme binding pocket [chemical binding]; other site 1163399003366 NADPH binding site [chemical binding]; other site 1163399003367 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1163399003368 MutS domain I; Region: MutS_I; pfam01624 1163399003369 MutS domain II; Region: MutS_II; pfam05188 1163399003370 MutS domain III; Region: MutS_III; pfam05192 1163399003371 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1163399003372 Walker A/P-loop; other site 1163399003373 ATP binding site [chemical binding]; other site 1163399003374 Q-loop/lid; other site 1163399003375 ABC transporter signature motif; other site 1163399003376 Walker B; other site 1163399003377 D-loop; other site 1163399003378 H-loop/switch region; other site 1163399003379 Barstar_SaI14_like contains sequences that are similar to SaI14, an RNAase inhibitor, which are members of the Barstar family. Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds...; Region: Barstar_SaI14_like; cd05143 1163399003380 putative RNAase interaction site [polypeptide binding]; other site 1163399003381 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1163399003382 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 1163399003383 dimerization interface [polypeptide binding]; other site 1163399003384 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1163399003385 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399003386 dimer interface [polypeptide binding]; other site 1163399003387 putative CheW interface [polypeptide binding]; other site 1163399003388 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1163399003389 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1163399003390 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1163399003391 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399003392 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399003393 Outer membrane efflux protein; Region: OEP; pfam02321 1163399003394 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1163399003395 Switch II region; other site 1163399003396 G3 box; other site 1163399003397 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1163399003398 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399003399 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 1163399003400 dimerization interface [polypeptide binding]; other site 1163399003401 LysE type translocator; Region: LysE; cl00565 1163399003402 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 1163399003403 active site 1163399003404 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1163399003405 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 1163399003406 dimer interface [polypeptide binding]; other site 1163399003407 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399003408 ligand binding site [chemical binding]; other site 1163399003409 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 1163399003410 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1163399003411 inhibitor-cofactor binding pocket; inhibition site 1163399003412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399003413 catalytic residue [active] 1163399003414 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1163399003415 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1163399003416 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 1163399003417 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163399003418 catalytic residue [active] 1163399003419 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1163399003420 EamA-like transporter family; Region: EamA; pfam00892 1163399003421 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399003422 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1163399003423 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399003424 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 1163399003425 dimer interface [polypeptide binding]; other site 1163399003426 phosphorylation site [posttranslational modification] 1163399003427 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 1163399003428 ATP binding site [chemical binding]; other site 1163399003429 Mg2+ binding site [ion binding]; other site 1163399003430 G-X-G motif; other site 1163399003431 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399003432 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 1163399003433 active site 1163399003434 phosphorylation site [posttranslational modification] 1163399003435 intermolecular recognition site; other site 1163399003436 dimerization interface [polypeptide binding]; other site 1163399003437 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 1163399003438 DNA binding site [nucleotide binding] 1163399003439 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163399003440 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 1163399003441 active site 1163399003442 metal binding site [ion binding]; metal-binding site 1163399003443 Predicted transcriptional regulators [Transcription]; Region: COG1733 1163399003444 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1163399003445 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1163399003446 heme-binding site [chemical binding]; other site 1163399003447 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399003448 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399003449 metal binding site [ion binding]; metal-binding site 1163399003450 active site 1163399003451 I-site; other site 1163399003452 outer membrane receptor FepA; Provisional; Region: PRK13524 1163399003453 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 1163399003454 N-terminal plug; other site 1163399003455 ligand-binding site [chemical binding]; other site 1163399003456 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1163399003457 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1163399003458 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1163399003459 Active_site [active] 1163399003460 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 1163399003461 catalytic core [active] 1163399003462 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 1163399003463 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1163399003464 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1163399003465 active site 1163399003466 Zn binding site [ion binding]; other site 1163399003467 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1163399003468 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163399003469 Zn2+ binding site [ion binding]; other site 1163399003470 Mg2+ binding site [ion binding]; other site 1163399003471 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1163399003472 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1163399003473 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 1163399003474 ATP binding site [chemical binding]; other site 1163399003475 putative Mg++ binding site [ion binding]; other site 1163399003476 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 1163399003477 nucleotide binding region [chemical binding]; other site 1163399003478 ATP-binding site [chemical binding]; other site 1163399003479 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1163399003480 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1163399003481 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1163399003482 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1163399003483 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1163399003484 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 1163399003485 active site 1163399003486 phosphorylation site [posttranslational modification] 1163399003487 intermolecular recognition site; other site 1163399003488 dimerization interface [polypeptide binding]; other site 1163399003489 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 1163399003490 DNA binding site [nucleotide binding] 1163399003491 sensory histidine kinase CreC; Provisional; Region: PRK11100 1163399003492 HAMP domain; Region: HAMP; pfam00672 1163399003493 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 1163399003494 dimer interface [polypeptide binding]; other site 1163399003495 phosphorylation site [posttranslational modification] 1163399003496 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 1163399003497 ATP binding site [chemical binding]; other site 1163399003498 Mg2+ binding site [ion binding]; other site 1163399003499 G-X-G motif; other site 1163399003500 inner membrane protein; Provisional; Region: PRK11715 1163399003501 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1163399003502 M28 Zn-Peptidases; Region: M28_like_4; cd08015 1163399003503 Peptidase family M28; Region: Peptidase_M28; pfam04389 1163399003504 metal binding site [ion binding]; metal-binding site 1163399003505 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1163399003506 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1163399003507 active site 1163399003508 HIGH motif; other site 1163399003509 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1163399003510 active site 1163399003511 KMSKS motif; other site 1163399003512 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1163399003513 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1163399003514 metal binding site 2 [ion binding]; metal-binding site 1163399003515 putative DNA binding helix; other site 1163399003516 metal binding site 1 [ion binding]; metal-binding site 1163399003517 dimer interface [polypeptide binding]; other site 1163399003518 structural Zn2+ binding site [ion binding]; other site 1163399003519 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1163399003520 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399003521 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399003522 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399003523 putative substrate translocation pore; other site 1163399003524 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1163399003525 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399003526 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399003527 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 1163399003528 N-terminal plug; other site 1163399003529 ligand-binding site [chemical binding]; other site 1163399003530 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399003531 MerC mercury resistance protein; Region: MerC; pfam03203 1163399003532 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1163399003533 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1163399003534 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1163399003535 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1163399003536 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 1163399003537 DNA binding site [nucleotide binding] 1163399003538 active site 1163399003539 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1163399003540 Helix-turn-helix domain; Region: HTH_18; pfam12833 1163399003541 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1163399003542 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1163399003543 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1163399003544 helix-hairpin-helix signature motif; other site 1163399003545 substrate binding pocket [chemical binding]; other site 1163399003546 active site 1163399003547 Predicted periplasmic protein [Function unknown]; Region: COG3904 1163399003548 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 1163399003549 MAPEG family; Region: MAPEG; cl09190 1163399003550 hypothetical protein; Provisional; Region: PRK09126 1163399003551 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1163399003552 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 1163399003553 RNA binding surface [nucleotide binding]; other site 1163399003554 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 1163399003555 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 1163399003556 ATP binding site [chemical binding]; other site 1163399003557 Mg++ binding site [ion binding]; other site 1163399003558 motif III; other site 1163399003559 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 1163399003560 nucleotide binding region [chemical binding]; other site 1163399003561 ATP-binding site [chemical binding]; other site 1163399003562 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1163399003563 putative RNA binding site [nucleotide binding]; other site 1163399003564 PAS domain S-box; Region: sensory_box; TIGR00229 1163399003565 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 1163399003566 putative active site [active] 1163399003567 heme pocket [chemical binding]; other site 1163399003568 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399003569 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399003570 metal binding site [ion binding]; metal-binding site 1163399003571 active site 1163399003572 I-site; other site 1163399003573 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 1163399003574 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399003575 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399003576 metal binding site [ion binding]; metal-binding site 1163399003577 active site 1163399003578 I-site; other site 1163399003579 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1163399003580 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 1163399003581 RNA binding surface [nucleotide binding]; other site 1163399003582 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 1163399003583 probable active site [active] 1163399003584 GAF domain; Region: GAF; pfam01590 1163399003585 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1163399003586 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399003587 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399003588 metal binding site [ion binding]; metal-binding site 1163399003589 active site 1163399003590 I-site; other site 1163399003591 Predicted ATPase [General function prediction only]; Region: COG4637 1163399003592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399003593 Walker A/P-loop; other site 1163399003594 ATP binding site [chemical binding]; other site 1163399003595 Q-loop/lid; other site 1163399003596 ABC transporter signature motif; other site 1163399003597 D-loop; other site 1163399003598 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399003599 ABC transporter signature motif; other site 1163399003600 Walker B; other site 1163399003601 D-loop; other site 1163399003602 H-loop/switch region; other site 1163399003603 EamA-like transporter family; Region: EamA; pfam00892 1163399003604 Protein of unknown function DUF72; Region: DUF72; pfam01904 1163399003605 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_14; cd08355 1163399003606 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399003607 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163399003608 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163399003609 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1163399003610 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1163399003611 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163399003612 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399003613 Walker A/P-loop; other site 1163399003614 ATP binding site [chemical binding]; other site 1163399003615 Q-loop/lid; other site 1163399003616 ABC transporter signature motif; other site 1163399003617 Walker B; other site 1163399003618 D-loop; other site 1163399003619 H-loop/switch region; other site 1163399003620 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1163399003621 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 1163399003622 catalytic core [active] 1163399003623 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 1163399003624 poly(beta-D-mannuronate) lyase; Provisional; Region: algL; PRK00325 1163399003625 active site 1163399003626 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1163399003627 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1163399003628 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 1163399003629 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1163399003630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399003631 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 1163399003632 dimerization interface [polypeptide binding]; other site 1163399003633 substrate binding pocket [chemical binding]; other site 1163399003634 EamA-like transporter family; Region: EamA; pfam00892 1163399003635 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1163399003636 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1163399003637 active site 1163399003638 Predicted transcriptional regulators [Transcription]; Region: COG1695 1163399003639 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1163399003640 Predicted membrane protein [Function unknown]; Region: COG4709 1163399003641 Putative sensor; Region: Sensor; pfam13796 1163399003642 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 1163399003643 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1163399003644 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1163399003645 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 1163399003646 S-adenosylmethionine binding site [chemical binding]; other site 1163399003647 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1163399003648 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1163399003649 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1163399003650 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1163399003651 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1163399003652 putative active site [active] 1163399003653 putative PHP Thumb interface [polypeptide binding]; other site 1163399003654 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 1163399003655 generic binding surface II; other site 1163399003656 generic binding surface I; other site 1163399003657 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1163399003658 RNA/DNA hybrid binding site [nucleotide binding]; other site 1163399003659 active site 1163399003660 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1163399003661 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1163399003662 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1163399003663 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 1163399003664 active site 1163399003665 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 1163399003666 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1163399003667 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1163399003668 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 1163399003669 trimer interface [polypeptide binding]; other site 1163399003670 active site 1163399003671 UDP-GlcNAc binding site [chemical binding]; other site 1163399003672 lipid binding site [chemical binding]; lipid-binding site 1163399003673 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1163399003674 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163399003675 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163399003676 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163399003677 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163399003678 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163399003679 Surface antigen; Region: Bac_surface_Ag; pfam01103 1163399003680 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1163399003681 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 1163399003682 active site 1163399003683 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 1163399003684 protein binding site [polypeptide binding]; other site 1163399003685 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1163399003686 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1163399003687 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1163399003688 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1163399003689 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1163399003690 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1163399003691 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1163399003692 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 1163399003693 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1163399003694 catalytic residue [active] 1163399003695 putative FPP diphosphate binding site; other site 1163399003696 putative FPP binding hydrophobic cleft; other site 1163399003697 dimer interface [polypeptide binding]; other site 1163399003698 putative IPP diphosphate binding site; other site 1163399003699 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1163399003700 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 1163399003701 hinge region; other site 1163399003702 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 1163399003703 putative nucleotide binding site [chemical binding]; other site 1163399003704 uridine monophosphate binding site [chemical binding]; other site 1163399003705 homohexameric interface [polypeptide binding]; other site 1163399003706 HDOD domain; Region: HDOD; pfam08668 1163399003707 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399003708 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399003709 metal binding site [ion binding]; metal-binding site 1163399003710 active site 1163399003711 I-site; other site 1163399003712 elongation factor Ts; Provisional; Region: tsf; PRK09377 1163399003713 UBA/TS-N domain; Region: UBA; pfam00627 1163399003714 Elongation factor TS; Region: EF_TS; pfam00889 1163399003715 Elongation factor TS; Region: EF_TS; pfam00889 1163399003716 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 1163399003717 rRNA interaction site [nucleotide binding]; other site 1163399003718 S8 interaction site; other site 1163399003719 putative laminin-1 binding site; other site 1163399003720 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1163399003721 Spore Coat Protein U domain; Region: SCPU; cl02253 1163399003722 Spore Coat Protein U domain; Region: SCPU; pfam05229 1163399003723 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1163399003724 PapC N-terminal domain; Region: PapC_N; pfam13954 1163399003725 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1163399003726 PapC C-terminal domain; Region: PapC_C; pfam13953 1163399003727 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1163399003728 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1163399003729 Spore Coat Protein U domain; Region: SCPU; pfam05229 1163399003730 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 1163399003731 active site 1163399003732 PII uridylyl-transferase; Provisional; Region: PRK04374 1163399003733 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1163399003734 metal binding triad; other site 1163399003735 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1163399003736 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163399003737 Zn2+ binding site [ion binding]; other site 1163399003738 Mg2+ binding site [ion binding]; other site 1163399003739 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 1163399003740 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 1163399003741 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1163399003742 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 1163399003743 trimer interface [polypeptide binding]; other site 1163399003744 active site 1163399003745 substrate binding site [chemical binding]; other site 1163399003746 CoA binding site [chemical binding]; other site 1163399003747 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 1163399003748 ArsC family; Region: ArsC; pfam03960 1163399003749 putative catalytic residues [active] 1163399003750 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1163399003751 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1163399003752 metal binding site [ion binding]; metal-binding site 1163399003753 dimer interface [polypeptide binding]; other site 1163399003754 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163399003755 Sel1-like repeats; Region: SEL1; smart00671 1163399003756 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1163399003757 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 1163399003758 active site 1163399003759 dimer interface [polypeptide binding]; other site 1163399003760 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 1163399003761 Ligand Binding Site [chemical binding]; other site 1163399003762 Molecular Tunnel; other site 1163399003763 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1163399003764 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1163399003765 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1163399003766 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1163399003767 active site 1163399003768 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1163399003769 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1163399003770 heme binding site [chemical binding]; other site 1163399003771 ferroxidase pore; other site 1163399003772 ferroxidase diiron center [ion binding]; other site 1163399003773 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1163399003774 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 1163399003775 CAP-like domain; other site 1163399003776 active site 1163399003777 primary dimer interface [polypeptide binding]; other site 1163399003778 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1163399003779 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399003780 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1163399003781 MarR family; Region: MarR_2; pfam12802 1163399003782 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1163399003783 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1163399003784 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399003785 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399003786 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1163399003787 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399003788 putative substrate translocation pore; other site 1163399003789 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399003790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399003791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399003792 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1163399003793 putative dimerization interface [polypeptide binding]; other site 1163399003794 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1163399003795 ribonuclease R; Region: RNase_R; TIGR02063 1163399003796 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; cl17220 1163399003797 putative DNA binding site [nucleotide binding]; other site 1163399003798 putative Zn2+ binding site [ion binding]; other site 1163399003799 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1163399003800 RNB domain; Region: RNB; pfam00773 1163399003801 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 1163399003802 RNA binding site [nucleotide binding]; other site 1163399003803 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1163399003804 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1163399003805 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1163399003806 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1163399003807 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1163399003808 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1163399003809 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163399003810 Walker A/P-loop; other site 1163399003811 ATP binding site [chemical binding]; other site 1163399003812 Q-loop/lid; other site 1163399003813 ABC transporter signature motif; other site 1163399003814 Walker B; other site 1163399003815 D-loop; other site 1163399003816 H-loop/switch region; other site 1163399003817 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163399003818 FtsX-like permease family; Region: FtsX; pfam02687 1163399003819 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399003820 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399003821 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399003822 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399003823 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 1163399003824 active site 1163399003825 phosphorylation site [posttranslational modification] 1163399003826 intermolecular recognition site; other site 1163399003827 dimerization interface [polypeptide binding]; other site 1163399003828 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 1163399003829 DNA binding site [nucleotide binding] 1163399003830 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 1163399003831 ATP binding site [chemical binding]; other site 1163399003832 Mg2+ binding site [ion binding]; other site 1163399003833 G-X-G motif; other site 1163399003834 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1163399003835 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1163399003836 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399003837 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399003838 metal binding site [ion binding]; metal-binding site 1163399003839 active site 1163399003840 I-site; other site 1163399003841 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1163399003842 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1163399003843 dimer interface [polypeptide binding]; other site 1163399003844 catalytic site [active] 1163399003845 putative active site [active] 1163399003846 putative substrate binding site [chemical binding]; other site 1163399003847 Predicted membrane protein [Function unknown]; Region: COG2259 1163399003848 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1163399003849 hypothetical protein; Provisional; Region: PRK05409 1163399003850 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1163399003851 PhoU domain; Region: PhoU; pfam01895 1163399003852 PhoU domain; Region: PhoU; pfam01895 1163399003853 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1163399003854 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1163399003855 Walker A/P-loop; other site 1163399003856 ATP binding site [chemical binding]; other site 1163399003857 Q-loop/lid; other site 1163399003858 ABC transporter signature motif; other site 1163399003859 Walker B; other site 1163399003860 D-loop; other site 1163399003861 H-loop/switch region; other site 1163399003862 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1163399003863 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 1163399003864 dimer interface [polypeptide binding]; other site 1163399003865 conserved gate region; other site 1163399003866 putative PBP binding loops; other site 1163399003867 ABC-ATPase subunit interface; other site 1163399003868 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1163399003869 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 1163399003870 dimer interface [polypeptide binding]; other site 1163399003871 conserved gate region; other site 1163399003872 putative PBP binding loops; other site 1163399003873 ABC-ATPase subunit interface; other site 1163399003874 PBP superfamily domain; Region: PBP_like_2; cl17296 1163399003875 PBP superfamily domain; Region: PBP_like_2; cl17296 1163399003876 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1163399003877 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1163399003878 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1163399003879 minor groove reading motif; other site 1163399003880 helix-hairpin-helix signature motif; other site 1163399003881 substrate binding pocket [chemical binding]; other site 1163399003882 active site 1163399003883 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1163399003884 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 1163399003885 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 1163399003886 substrate binding site [chemical binding]; other site 1163399003887 oxyanion hole (OAH) forming residues; other site 1163399003888 trimer interface [polypeptide binding]; other site 1163399003889 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1163399003890 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1163399003891 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163399003892 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1163399003893 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 1163399003894 putative active site [active] 1163399003895 putative CoA binding site [chemical binding]; other site 1163399003896 nudix motif; other site 1163399003897 metal binding site [ion binding]; metal-binding site 1163399003898 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1163399003899 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 1163399003900 active site residue [active] 1163399003901 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 1163399003902 active site residue [active] 1163399003903 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 1163399003904 amidase catalytic site [active] 1163399003905 Zn binding residues [ion binding]; other site 1163399003906 substrate binding site [chemical binding]; other site 1163399003907 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1163399003908 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1163399003909 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1163399003910 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 1163399003911 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 1163399003912 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1163399003913 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1163399003914 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1163399003915 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1163399003916 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1163399003917 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 1163399003918 inhibitor-cofactor binding pocket; inhibition site 1163399003919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399003920 catalytic residue [active] 1163399003921 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1163399003922 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1163399003923 NAD(P) binding site [chemical binding]; other site 1163399003924 catalytic residues [active] 1163399003925 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399003926 metabolite-proton symporter; Region: 2A0106; TIGR00883 1163399003927 putative substrate translocation pore; other site 1163399003928 Hemerythrin; Region: Hemerythrin; cd12107 1163399003929 Fe binding site [ion binding]; other site 1163399003930 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163399003931 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; cl17736 1163399003932 active site 1163399003933 phosphorylation site [posttranslational modification] 1163399003934 intermolecular recognition site; other site 1163399003935 dimerization interface [polypeptide binding]; other site 1163399003936 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 1163399003937 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399003938 active site 1163399003939 phosphorylation site [posttranslational modification] 1163399003940 intermolecular recognition site; other site 1163399003941 dimerization interface [polypeptide binding]; other site 1163399003942 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399003943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399003944 metal binding site [ion binding]; metal-binding site 1163399003945 active site 1163399003946 I-site; other site 1163399003947 MASE1; Region: MASE1; cl17823 1163399003948 MASE1; Region: MASE1; cl17823 1163399003949 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1163399003950 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1163399003951 Peptidase C26; Region: Peptidase_C26; pfam07722 1163399003952 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1163399003953 catalytic triad [active] 1163399003954 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1163399003955 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1163399003956 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1163399003957 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1163399003958 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1163399003959 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1163399003960 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399003961 Walker A/P-loop; other site 1163399003962 ATP binding site [chemical binding]; other site 1163399003963 Q-loop/lid; other site 1163399003964 ABC transporter signature motif; other site 1163399003965 Walker B; other site 1163399003966 D-loop; other site 1163399003967 H-loop/switch region; other site 1163399003968 TOBE domain; Region: TOBE_2; pfam08402 1163399003969 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1163399003970 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 1163399003971 dimer interface [polypeptide binding]; other site 1163399003972 conserved gate region; other site 1163399003973 putative PBP binding loops; other site 1163399003974 ABC-ATPase subunit interface; other site 1163399003975 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1163399003976 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 1163399003977 dimer interface [polypeptide binding]; other site 1163399003978 conserved gate region; other site 1163399003979 putative PBP binding loops; other site 1163399003980 ABC-ATPase subunit interface; other site 1163399003981 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 1163399003982 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1163399003983 NAD(P) binding site [chemical binding]; other site 1163399003984 catalytic residues [active] 1163399003985 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1163399003986 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1163399003987 oligomer interface [polypeptide binding]; other site 1163399003988 metal binding site [ion binding]; metal-binding site 1163399003989 metal binding site [ion binding]; metal-binding site 1163399003990 putative Cl binding site [ion binding]; other site 1163399003991 basic sphincter; other site 1163399003992 hydrophobic gate; other site 1163399003993 periplasmic entrance; other site 1163399003994 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1163399003995 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1163399003996 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 1163399003997 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 1163399003998 Transporter associated domain; Region: CorC_HlyC; smart01091 1163399003999 metal-binding heat shock protein; Provisional; Region: PRK00016 1163399004000 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1163399004001 PhoH-like protein; Region: PhoH; pfam02562 1163399004002 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399004003 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399004004 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1163399004005 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1163399004006 Walker A/P-loop; other site 1163399004007 ATP binding site [chemical binding]; other site 1163399004008 Q-loop/lid; other site 1163399004009 ABC transporter signature motif; other site 1163399004010 Walker B; other site 1163399004011 D-loop; other site 1163399004012 H-loop/switch region; other site 1163399004013 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1163399004014 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1163399004015 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1163399004016 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1163399004017 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 1163399004018 FeS/SAM binding site; other site 1163399004019 TRAM domain; Region: TRAM; pfam01938 1163399004020 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163399004021 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1163399004022 putative C-terminal domain interface [polypeptide binding]; other site 1163399004023 putative GSH binding site (G-site) [chemical binding]; other site 1163399004024 putative dimer interface [polypeptide binding]; other site 1163399004025 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1163399004026 dimer interface [polypeptide binding]; other site 1163399004027 N-terminal domain interface [polypeptide binding]; other site 1163399004028 putative substrate binding pocket (H-site) [chemical binding]; other site 1163399004029 HTH domain; Region: HTH_11; pfam08279 1163399004030 WYL domain; Region: WYL; pfam13280 1163399004031 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1163399004032 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 1163399004033 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163399004034 catalytic residue [active] 1163399004035 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1163399004036 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1163399004037 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1163399004038 [2Fe-2S] cluster binding site [ion binding]; other site 1163399004039 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1163399004040 Qi binding site; other site 1163399004041 intrachain domain interface; other site 1163399004042 interchain domain interface [polypeptide binding]; other site 1163399004043 cytochrome b; Provisional; Region: CYTB; MTH00156 1163399004044 heme bH binding site [chemical binding]; other site 1163399004045 heme bL binding site [chemical binding]; other site 1163399004046 Qo binding site; other site 1163399004047 interchain domain interface [polypeptide binding]; other site 1163399004048 intrachain domain interface; other site 1163399004049 Qi binding site; other site 1163399004050 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1163399004051 Qo binding site; other site 1163399004052 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1163399004053 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1163399004054 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 1163399004055 C-terminal domain interface [polypeptide binding]; other site 1163399004056 putative GSH binding site (G-site) [chemical binding]; other site 1163399004057 dimer interface [polypeptide binding]; other site 1163399004058 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1163399004059 dimer interface [polypeptide binding]; other site 1163399004060 N-terminal domain interface [polypeptide binding]; other site 1163399004061 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1163399004062 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1163399004063 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; pfam10030 1163399004064 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 1163399004065 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 1163399004066 dimerization interface [polypeptide binding]; other site 1163399004067 active site 1163399004068 Trm112p-like protein; Region: Trm112p; cl01066 1163399004069 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1163399004070 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1163399004071 ATP-grasp domain; Region: ATP-grasp; pfam02222 1163399004072 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1163399004073 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1163399004074 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1163399004075 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1163399004076 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 1163399004077 putative GSH binding site [chemical binding]; other site 1163399004078 catalytic residues [active] 1163399004079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399004080 NAD(P) binding site [chemical binding]; other site 1163399004081 active site 1163399004082 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1163399004083 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 1163399004084 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1163399004085 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1163399004086 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1163399004087 Type II transport protein GspH; Region: GspH; pfam12019 1163399004088 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1163399004089 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1163399004090 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1163399004091 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1163399004092 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1163399004093 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1163399004094 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1163399004095 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1163399004096 Type II transport protein GspH; Region: GspH; pfam12019 1163399004097 excinuclease ABC subunit B; Provisional; Region: PRK05298 1163399004098 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 1163399004099 ATP binding site [chemical binding]; other site 1163399004100 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 1163399004101 nucleotide binding region [chemical binding]; other site 1163399004102 ATP-binding site [chemical binding]; other site 1163399004103 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1163399004104 UvrB/uvrC motif; Region: UVR; pfam02151 1163399004105 MltA-interacting protein MipA; Region: MipA; cl01504 1163399004106 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399004107 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 1163399004108 active site 1163399004109 phosphorylation site [posttranslational modification] 1163399004110 intermolecular recognition site; other site 1163399004111 dimerization interface [polypeptide binding]; other site 1163399004112 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 1163399004113 DNA binding site [nucleotide binding] 1163399004114 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399004115 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 1163399004116 dimer interface [polypeptide binding]; other site 1163399004117 phosphorylation site [posttranslational modification] 1163399004118 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 1163399004119 Mg2+ binding site [ion binding]; other site 1163399004120 G-X-G motif; other site 1163399004121 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1163399004122 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1163399004123 Competence protein; Region: Competence; pfam03772 1163399004124 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1163399004125 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1163399004126 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1163399004127 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163399004128 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1163399004129 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163399004130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399004131 Walker A/P-loop; other site 1163399004132 ATP binding site [chemical binding]; other site 1163399004133 Q-loop/lid; other site 1163399004134 ABC transporter signature motif; other site 1163399004135 Walker B; other site 1163399004136 D-loop; other site 1163399004137 H-loop/switch region; other site 1163399004138 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1163399004139 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1163399004140 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1163399004141 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1163399004142 Ligand binding site; other site 1163399004143 oligomer interface; other site 1163399004144 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1163399004145 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1163399004146 active site 1163399004147 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163399004148 NHL repeat; Region: NHL; pfam01436 1163399004149 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1163399004150 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1163399004151 GIY-YIG motif/motif A; other site 1163399004152 active site 1163399004153 catalytic site [active] 1163399004154 putative DNA binding site [nucleotide binding]; other site 1163399004155 metal binding site [ion binding]; metal-binding site 1163399004156 UvrB/uvrC motif; Region: UVR; pfam02151 1163399004157 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1163399004158 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1163399004159 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1163399004160 Helix-turn-helix domain; Region: HTH_38; pfam13936 1163399004161 Helix-turn-helix domain; Region: HTH_17; pfam12728 1163399004162 Integrase core domain; Region: rve; pfam00665 1163399004163 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1163399004164 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 1163399004165 Walker A motif; other site 1163399004166 ATP binding site [chemical binding]; other site 1163399004167 Walker B motif; other site 1163399004168 arginine finger; other site 1163399004169 Outer membrane efflux protein; Region: OEP; pfam02321 1163399004170 Outer membrane efflux protein; Region: OEP; pfam02321 1163399004171 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1163399004172 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1163399004173 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1163399004174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1163399004175 HTH-like domain; Region: HTH_21; pfam13276 1163399004176 Integrase core domain; Region: rve; pfam00665 1163399004177 Integrase core domain; Region: rve_3; pfam13683 1163399004178 Transposase; Region: HTH_Tnp_1; pfam01527 1163399004179 putative transposase OrfB; Reviewed; Region: PHA02517 1163399004180 HTH-like domain; Region: HTH_21; pfam13276 1163399004181 Integrase core domain; Region: rve; pfam00665 1163399004182 Integrase core domain; Region: rve_3; pfam13683 1163399004183 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399004184 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 1163399004185 Copper resistance protein K; Region: CopK; pfam11525 1163399004186 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 1163399004187 CopC domain; Region: CopC; pfam04234 1163399004188 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 1163399004189 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1163399004190 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163399004191 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 1163399004192 motif II; other site 1163399004193 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 1163399004194 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1163399004195 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1163399004196 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1163399004197 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1163399004198 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1163399004200 sensor kinase CusS; Provisional; Region: PRK09835 1163399004201 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 1163399004202 dimerization interface [polypeptide binding]; other site 1163399004203 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 1163399004204 dimer interface [polypeptide binding]; other site 1163399004205 phosphorylation site [posttranslational modification] 1163399004206 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 1163399004207 ATP binding site [chemical binding]; other site 1163399004208 Mg2+ binding site [ion binding]; other site 1163399004209 G-X-G motif; other site 1163399004210 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 1163399004211 putative DNA binding site [nucleotide binding]; other site 1163399004212 putative Zn2+ binding site [ion binding]; other site 1163399004213 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_20; cd07254 1163399004214 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399004215 putative metal binding site [ion binding]; other site 1163399004216 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1163399004217 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1163399004218 active site 1163399004219 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1163399004220 arsenical-resistance protein; Region: acr3; TIGR00832 1163399004221 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 1163399004222 ArsC family; Region: ArsC; pfam03960 1163399004223 catalytic residues [active] 1163399004224 Predicted transcriptional regulators [Transcription]; Region: COG1695 1163399004225 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1163399004226 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1163399004227 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1163399004228 Chromate transporter; Region: Chromate_transp; pfam02417 1163399004229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399004230 Coenzyme A binding pocket [chemical binding]; other site 1163399004232 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399004233 HlyD family secretion protein; Region: HlyD; pfam00529 1163399004234 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399004235 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1163399004236 Putative helicase; Region: TraI_2; pfam07514 1163399004237 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1163399004238 RES domain; Region: RES; smart00953 1163399004239 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1163399004240 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1163399004241 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1163399004242 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 1163399004243 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1163399004244 MPN+ (JAMM) motif; other site 1163399004245 Zinc-binding site [ion binding]; other site 1163399004246 Thioredoxin; Region: Thioredoxin_4; cl17273 1163399004247 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1163399004248 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1163399004249 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1163399004250 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1163399004251 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1163399004252 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1163399004253 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1163399004254 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 1163399004255 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1163399004256 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1163399004257 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 1163399004258 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 1163399004259 DNA binding domain, excisionase family; Region: excise; TIGR01764 1163399004260 PIN domain; Region: PIN_3; pfam13470 1163399004261 AAA domain; Region: AAA_25; pfam13481 1163399004262 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1163399004263 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 1163399004264 Walker A motif; other site 1163399004265 ATP binding site [chemical binding]; other site 1163399004266 Walker B motif; other site 1163399004267 arginine finger; other site 1163399004268 HORMA domain; Region: HORMA; pfam02301 1163399004269 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 1163399004270 active site 1163399004271 NTP binding site [chemical binding]; other site 1163399004272 metal binding triad [ion binding]; metal-binding site 1163399004273 AAA domain; Region: AAA_23; pfam13476 1163399004274 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1163399004275 AAA domain; Region: AAA_21; pfam13304 1163399004276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399004277 ABC transporter signature motif; other site 1163399004278 Walker B; other site 1163399004279 D-loop; other site 1163399004280 H-loop/switch region; other site 1163399004281 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1163399004282 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1163399004283 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1163399004284 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1163399004285 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 1163399004286 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163399004287 catalytic residue [active] 1163399004288 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1163399004289 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1163399004290 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1163399004291 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1163399004292 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 1163399004293 nucleotide binding region [chemical binding]; other site 1163399004294 ATP-binding site [chemical binding]; other site 1163399004295 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163399004296 S-adenosylmethionine binding site [chemical binding]; other site 1163399004297 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 1163399004298 Domain of unknown function (DUF932); Region: DUF932; pfam06067 1163399004299 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1163399004300 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1163399004301 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 1163399004303 putative mercuric reductase; Provisional; Region: PRK13748 1163399004304 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 1163399004305 metal-binding site [ion binding] 1163399004306 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163399004307 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163399004308 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1163399004309 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 1163399004310 metal-binding site [ion binding] 1163399004311 putative mercuric transport protein; Provisional; Region: PRK13751 1163399004312 putative transcriptional regulator MerR; Provisional; Region: PRK13752 1163399004313 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1163399004314 DNA binding residues [nucleotide binding] 1163399004315 dimer interface [polypeptide binding]; other site 1163399004316 mercury binding site [ion binding]; other site 1163399004317 Herpesvirus UL36 tegument protein; Region: Herpes_UL36; pfam03586 1163399004318 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 1163399004319 metal-binding site [ion binding] 1163399004320 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 1163399004321 metal-binding site [ion binding] 1163399004322 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; cl00207 1163399004323 metal-binding site [ion binding] 1163399004324 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1163399004325 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 1163399004326 metal-binding site [ion binding] 1163399004327 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163399004328 Cation efflux family; Region: Cation_efflux; cl00316 1163399004329 DNA topoisomerase III; Provisional; Region: PRK07726 1163399004330 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 1163399004331 active site 1163399004332 putative interdomain interaction site [polypeptide binding]; other site 1163399004333 putative metal-binding site [ion binding]; other site 1163399004334 putative nucleotide binding site [chemical binding]; other site 1163399004335 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 1163399004336 domain I; other site 1163399004337 DNA binding groove [nucleotide binding] 1163399004338 phosphate binding site [ion binding]; other site 1163399004339 domain II; other site 1163399004340 domain III; other site 1163399004341 nucleotide binding site [chemical binding]; other site 1163399004342 catalytic site [active] 1163399004343 domain IV; other site 1163399004344 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163399004345 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1163399004346 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 1163399004347 dimer interface [polypeptide binding]; other site 1163399004348 ssDNA binding site [nucleotide binding]; other site 1163399004349 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1163399004350 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1163399004351 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1163399004352 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1163399004353 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1163399004354 ParB-like nuclease domain; Region: ParBc; pfam02195 1163399004355 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1163399004356 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1163399004357 Magnesium ion binding site [ion binding]; other site 1163399004358 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1163399004359 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1163399004360 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 1163399004361 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1163399004362 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1163399004363 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1163399004364 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1163399004365 FtsX-like permease family; Region: FtsX; pfam02687 1163399004366 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163399004367 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163399004368 Walker A/P-loop; other site 1163399004369 ATP binding site [chemical binding]; other site 1163399004370 Q-loop/lid; other site 1163399004371 ABC transporter signature motif; other site 1163399004372 Walker B; other site 1163399004373 D-loop; other site 1163399004374 H-loop/switch region; other site 1163399004375 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399004376 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399004377 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163399004378 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 1163399004379 cofactor binding site; other site 1163399004380 DNA binding site [nucleotide binding] 1163399004381 substrate interaction site [chemical binding]; other site 1163399004382 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163399004383 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 1163399004384 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 1163399004385 RNA helicase; Region: RNA_helicase; pfam00910 1163399004386 Phage associated DNA primase [General function prediction only]; Region: COG3378 1163399004387 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1163399004388 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 1163399004389 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1163399004390 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 1163399004391 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 1163399004392 virion protein; Provisional; Region: V; PHA02564 1163399004393 phage lambda Rz-like lysis protein; Region: PHA00276 1163399004394 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1163399004395 Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ProS; COG0442 1163399004396 AAA domain; Region: AAA_33; pfam13671 1163399004397 AAA domain; Region: AAA_17; pfam13207 1163399004398 Cupin; Region: Cupin_6; pfam12852 1163399004399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399004400 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163399004401 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399004402 camphor resistance protein CrcB; Provisional; Region: PRK14198 1163399004403 sequence-specific DNA binding site [nucleotide binding]; other site 1163399004404 Helix-turn-helix domain; Region: HTH_19; pfam12844 1163399004405 salt bridge; other site 1163399004406 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 1163399004407 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1163399004408 apolar tunnel; other site 1163399004409 heme binding site [chemical binding]; other site 1163399004410 dimerization interface [polypeptide binding]; other site 1163399004411 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1163399004412 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 1163399004413 FeS/SAM binding site; other site 1163399004414 HemN C-terminal domain; Region: HemN_C; pfam06969 1163399004415 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1163399004416 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1163399004417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399004418 NAD(P) binding site [chemical binding]; other site 1163399004419 active site 1163399004420 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1163399004421 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1163399004422 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1163399004423 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 1163399004424 active site 1163399004425 FMN binding site [chemical binding]; other site 1163399004426 substrate binding site [chemical binding]; other site 1163399004427 3Fe-4S cluster binding site [ion binding]; other site 1163399004428 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1163399004429 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399004430 Coenzyme A binding pocket [chemical binding]; other site 1163399004431 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163399004432 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163399004433 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1163399004434 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163399004435 rhodanese superfamily protein; Provisional; Region: PRK05320 1163399004436 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1163399004437 active site residue [active] 1163399004438 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1163399004439 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1163399004440 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1163399004441 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1163399004442 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1163399004443 Domain of unknown function DUF21; Region: DUF21; pfam01595 1163399004444 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 1163399004445 Transporter associated domain; Region: CorC_HlyC; smart01091 1163399004446 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1163399004447 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1163399004448 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1163399004449 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1163399004450 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1163399004451 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163399004452 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1163399004453 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 1163399004454 Mg2+ binding site [ion binding]; other site 1163399004455 G-X-G motif; other site 1163399004456 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 1163399004457 anchoring element; other site 1163399004458 dimer interface [polypeptide binding]; other site 1163399004459 ATP binding site [chemical binding]; other site 1163399004460 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 1163399004461 active site 1163399004462 metal binding site [ion binding]; metal-binding site 1163399004463 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1163399004464 CTP synthetase; Validated; Region: pyrG; PRK05380 1163399004465 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 1163399004466 Catalytic site [active] 1163399004467 active site 1163399004468 UTP binding site [chemical binding]; other site 1163399004469 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1163399004470 active site 1163399004471 putative oxyanion hole; other site 1163399004472 catalytic triad [active] 1163399004473 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1163399004474 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1163399004475 enolase; Provisional; Region: eno; PRK00077 1163399004476 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 1163399004477 dimer interface [polypeptide binding]; other site 1163399004478 metal binding site [ion binding]; metal-binding site 1163399004479 substrate binding pocket [chemical binding]; other site 1163399004480 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1163399004481 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1163399004482 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1163399004483 substrate binding site; other site 1163399004484 dimer interface; other site 1163399004485 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 1163399004486 homotrimer interaction site [polypeptide binding]; other site 1163399004487 zinc binding site [ion binding]; other site 1163399004488 CDP-binding sites; other site 1163399004489 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1163399004490 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1163399004491 Permutation of conserved domain; other site 1163399004492 active site 1163399004493 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163399004494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1163399004495 Smr domain; Region: Smr; pfam01713 1163399004496 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1163399004497 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1163399004498 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 1163399004499 S-adenosylmethionine binding site [chemical binding]; other site 1163399004500 Predicted membrane protein [Function unknown]; Region: COG1238 1163399004501 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1163399004502 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163399004503 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163399004504 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 1163399004505 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1163399004506 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1163399004507 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 1163399004508 S-adenosylmethionine binding site [chemical binding]; other site 1163399004509 FtsH Extracellular; Region: FtsH_ext; pfam06480 1163399004510 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1163399004511 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 1163399004512 Walker A motif; other site 1163399004513 ATP binding site [chemical binding]; other site 1163399004514 Walker B motif; other site 1163399004515 arginine finger; other site 1163399004516 Peptidase family M41; Region: Peptidase_M41; pfam01434 1163399004517 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 1163399004518 dihydropteroate synthase; Region: DHPS; TIGR01496 1163399004519 substrate binding pocket [chemical binding]; other site 1163399004520 dimer interface [polypeptide binding]; other site 1163399004521 inhibitor binding site; inhibition site 1163399004522 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1163399004523 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; cd02019 1163399004524 active site 1163399004525 bacterial Hfq-like; Region: Hfq; cd01716 1163399004526 hexamer interface [polypeptide binding]; other site 1163399004527 Sm1 motif; other site 1163399004528 RNA binding site [nucleotide binding]; other site 1163399004529 Sm2 motif; other site 1163399004530 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1163399004531 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1163399004532 HflX GTPase family; Region: HflX; cd01878 1163399004533 G1 box; other site 1163399004534 GTP/Mg2+ binding site [chemical binding]; other site 1163399004535 Switch I region; other site 1163399004536 G2 box; other site 1163399004537 G3 box; other site 1163399004538 Switch II region; other site 1163399004539 G4 box; other site 1163399004540 G5 box; other site 1163399004541 Competence-damaged protein; Region: CinA; pfam02464 1163399004542 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1163399004543 ABC1 family; Region: ABC1; cl17513 1163399004544 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1163399004545 LexA repressor; Validated; Region: PRK00215 1163399004546 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 1163399004547 Catalytic site [active] 1163399004548 recombinase A; Provisional; Region: recA; PRK09354 1163399004549 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 1163399004550 hexamer interface [polypeptide binding]; other site 1163399004551 Walker A motif; other site 1163399004552 ATP binding site [chemical binding]; other site 1163399004553 Walker B motif; other site 1163399004554 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1163399004555 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1163399004556 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 1163399004557 motif 1; other site 1163399004558 active site 1163399004559 motif 2; other site 1163399004560 motif 3; other site 1163399004561 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1163399004562 DHHA1 domain; Region: DHHA1; pfam02272 1163399004563 carbon storage regulator; Provisional; Region: PRK01712 1163399004564 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399004565 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1163399004566 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 1163399004567 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1163399004568 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 1163399004569 dimer interface [polypeptide binding]; other site 1163399004570 TPP-binding site [chemical binding]; other site 1163399004571 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1163399004572 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399004573 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1163399004574 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1163399004575 FecR protein; Region: FecR; pfam04773 1163399004576 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1163399004577 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 1163399004578 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 1163399004579 PhoD-like phosphatase; Region: PhoD; pfam09423 1163399004580 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1163399004581 putative active site [active] 1163399004582 putative metal binding site [ion binding]; other site 1163399004583 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163399004584 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1163399004585 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1163399004586 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1163399004587 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1163399004588 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399004589 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 1163399004590 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 1163399004591 Cytochrome c [Energy production and conversion]; Region: COG3258 1163399004592 Cytochrome c; Region: Cytochrom_C; pfam00034 1163399004593 Cytochrome c; Region: Cytochrom_C; pfam00034 1163399004594 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1163399004595 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1163399004596 Cytochrome c; Region: Cytochrom_C; pfam00034 1163399004597 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163399004598 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399004599 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399004600 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163399004601 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1163399004602 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399004603 Pirin-related protein [General function prediction only]; Region: COG1741 1163399004604 Pirin; Region: Pirin; pfam02678 1163399004605 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1163399004606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399004607 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 1163399004608 dimerization interface [polypeptide binding]; other site 1163399004609 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1163399004610 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 1163399004611 dimer interface [polypeptide binding]; other site 1163399004612 substrate binding site [chemical binding]; other site 1163399004613 ATP binding site [chemical binding]; other site 1163399004614 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1163399004615 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1163399004616 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1163399004617 putative active site [active] 1163399004618 PhoH-like protein; Region: PhoH; pfam02562 1163399004619 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 1163399004620 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1163399004621 catalytic triad [active] 1163399004622 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1163399004623 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1163399004624 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1163399004625 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1163399004626 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1163399004627 dimer interface [polypeptide binding]; other site 1163399004628 active site 1163399004629 catalytic residue [active] 1163399004630 Ferredoxin [Energy production and conversion]; Region: COG1146 1163399004631 4Fe-4S binding domain; Region: Fer4; pfam00037 1163399004632 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1163399004633 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1163399004634 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399004635 putative substrate translocation pore; other site 1163399004636 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399004637 poly(A) polymerase; Region: pcnB; TIGR01942 1163399004638 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1163399004639 active site 1163399004640 NTP binding site [chemical binding]; other site 1163399004641 metal binding triad [ion binding]; metal-binding site 1163399004642 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1163399004643 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1163399004644 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 1163399004645 catalytic center binding site [active] 1163399004646 ATP binding site [chemical binding]; other site 1163399004647 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 1163399004648 oligomerization interface [polypeptide binding]; other site 1163399004649 active site 1163399004650 metal binding site [ion binding]; metal-binding site 1163399004651 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1163399004652 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1163399004653 active site 1163399004654 ATP-binding site [chemical binding]; other site 1163399004655 pantoate-binding site; other site 1163399004656 HXXH motif; other site 1163399004657 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1163399004658 tetramerization interface [polypeptide binding]; other site 1163399004659 active site 1163399004660 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1163399004661 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 1163399004662 active site 1163399004663 dimer interface [polypeptide binding]; other site 1163399004664 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 1163399004665 dimer interface [polypeptide binding]; other site 1163399004666 active site 1163399004667 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1163399004668 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 1163399004669 active site 1163399004670 phosphorylation site [posttranslational modification] 1163399004671 intermolecular recognition site; other site 1163399004672 dimerization interface [polypeptide binding]; other site 1163399004673 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163399004674 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399004675 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; cl00080 1163399004676 dimer interface [polypeptide binding]; other site 1163399004677 phosphorylation site [posttranslational modification] 1163399004678 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 1163399004679 ATP binding site [chemical binding]; other site 1163399004680 Mg2+ binding site [ion binding]; other site 1163399004681 G-X-G motif; other site 1163399004682 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1163399004683 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1163399004684 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1163399004685 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1163399004686 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1163399004687 active site 1163399004688 response regulator; Provisional; Region: PRK09483 1163399004689 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 1163399004690 active site 1163399004691 phosphorylation site [posttranslational modification] 1163399004692 intermolecular recognition site; other site 1163399004693 dimerization interface [polypeptide binding]; other site 1163399004694 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 1163399004695 DNA binding residues [nucleotide binding] 1163399004696 dimerization interface [polypeptide binding]; other site 1163399004697 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1163399004698 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1163399004699 active site 1163399004700 intersubunit interface [polypeptide binding]; other site 1163399004701 catalytic residue [active] 1163399004702 phosphogluconate dehydratase; Validated; Region: PRK09054 1163399004703 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1163399004704 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1163399004705 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1163399004706 putative active site [active] 1163399004707 glucokinase, proteobacterial type; Region: glk; TIGR00749 1163399004708 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1163399004709 nucleotide binding site [chemical binding]; other site 1163399004710 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1163399004711 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1163399004712 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1163399004713 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1163399004714 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1163399004715 Walker A/P-loop; other site 1163399004716 ATP binding site [chemical binding]; other site 1163399004717 Q-loop/lid; other site 1163399004718 ABC transporter signature motif; other site 1163399004719 Walker B; other site 1163399004720 D-loop; other site 1163399004721 H-loop/switch region; other site 1163399004722 TOBE domain; Region: TOBE_2; pfam08402 1163399004723 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1163399004724 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1163399004725 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 1163399004726 proximal quinone binding site [chemical binding]; other site 1163399004727 SdhD (CybS) interface [polypeptide binding]; other site 1163399004728 proximal heme binding site [chemical binding]; other site 1163399004729 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 1163399004730 putative SdhC subunit interface [polypeptide binding]; other site 1163399004731 putative proximal heme binding site [chemical binding]; other site 1163399004732 putative Iron-sulfur protein interface [polypeptide binding]; other site 1163399004733 putative proximal quinone binding site; other site 1163399004734 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1163399004735 L-aspartate oxidase; Provisional; Region: PRK06175 1163399004736 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1163399004737 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1163399004738 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 1163399004739 catalytic loop [active] 1163399004740 iron binding site [ion binding]; other site 1163399004741 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1163399004742 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1163399004743 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163399004744 FtsX-like permease family; Region: FtsX; pfam02687 1163399004745 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1163399004746 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163399004747 Walker A/P-loop; other site 1163399004748 ATP binding site [chemical binding]; other site 1163399004749 Q-loop/lid; other site 1163399004750 ABC transporter signature motif; other site 1163399004751 Walker B; other site 1163399004752 D-loop; other site 1163399004753 H-loop/switch region; other site 1163399004754 oxidative damage protection protein; Provisional; Region: PRK05408 1163399004755 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1163399004756 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1163399004757 minor groove reading motif; other site 1163399004758 helix-hairpin-helix signature motif; other site 1163399004759 substrate binding pocket [chemical binding]; other site 1163399004760 active site 1163399004761 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 1163399004762 DNA binding and oxoG recognition site [nucleotide binding] 1163399004763 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1163399004764 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1163399004765 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 1163399004766 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 1163399004767 heat shock protein 90; Provisional; Region: PRK05218 1163399004768 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 1163399004769 ATP binding site [chemical binding]; other site 1163399004770 Mg2+ binding site [ion binding]; other site 1163399004771 G-X-G motif; other site 1163399004772 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1163399004773 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 1163399004774 S-adenosylmethionine binding site [chemical binding]; other site 1163399004775 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1163399004776 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1163399004777 active site 1163399004778 (T/H)XGH motif; other site 1163399004779 ferredoxin; Validated; Region: PRK07118 1163399004780 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1163399004781 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1163399004782 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1163399004783 psiF repeat; Region: PsiF_repeat; pfam07769 1163399004784 psiF repeat; Region: PsiF_repeat; pfam07769 1163399004785 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 1163399004786 dimerization interface [polypeptide binding]; other site 1163399004787 putative DNA binding site [nucleotide binding]; other site 1163399004788 putative Zn2+ binding site [ion binding]; other site 1163399004789 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 1163399004790 putative hydrophobic ligand binding site [chemical binding]; other site 1163399004791 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163399004792 active site 1163399004793 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1163399004794 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 1163399004795 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 1163399004796 NHL repeat; Region: NHL; pfam01436 1163399004797 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163399004798 active site 1163399004799 metal binding site [ion binding]; metal-binding site 1163399004800 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163399004801 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 1163399004802 dimer interface [polypeptide binding]; other site 1163399004803 substrate binding site [chemical binding]; other site 1163399004804 metal binding sites [ion binding]; metal-binding site 1163399004805 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1163399004806 DNA photolyase; Region: DNA_photolyase; pfam00875 1163399004807 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1163399004808 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163399004809 ligand binding site [chemical binding]; other site 1163399004810 LysR family transcriptional regulator; Provisional; Region: PRK14997 1163399004811 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399004812 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 1163399004813 putative effector binding pocket; other site 1163399004814 dimerization interface [polypeptide binding]; other site 1163399004815 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1163399004816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399004817 NAD(P) binding site [chemical binding]; other site 1163399004818 active site 1163399004819 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399004820 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399004821 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399004822 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163399004823 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 1163399004824 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1163399004825 NADP binding site [chemical binding]; other site 1163399004826 substrate binding site [chemical binding]; other site 1163399004827 active site 1163399004828 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1163399004829 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 1163399004830 putative catalytic site [active] 1163399004831 putative metal binding site [ion binding]; other site 1163399004832 putative phosphate binding site [ion binding]; other site 1163399004833 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1163399004834 Cytochrome P450; Region: p450; cl12078 1163399004835 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 1163399004836 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1163399004837 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 1163399004838 DNA binding residues [nucleotide binding] 1163399004839 dimerization interface [polypeptide binding]; other site 1163399004840 chaperone protein HchA; Provisional; Region: PRK04155 1163399004841 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1163399004842 conserved cys residue [active] 1163399004843 Cytochrome P450; Region: p450; cl12078 1163399004844 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1163399004845 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163399004846 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1163399004847 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1163399004848 putative internal virion protein; Provisional; Region: PHA03415 1163399004849 Transposase; Region: HTH_Tnp_1; pfam01527 1163399004850 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1163399004851 HTH-like domain; Region: HTH_21; pfam13276 1163399004852 Integrase core domain; Region: rve; pfam00665 1163399004853 Integrase core domain; Region: rve_3; pfam13683 1163399004854 integrase; Provisional; Region: PRK09692 1163399004855 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 1163399004856 active site 1163399004857 Int/Topo IB signature motif; other site 1163399004858 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1163399004859 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 1163399004860 SmpB-tmRNA interface; other site 1163399004861 hypothetical protein; Validated; Region: PRK01777 1163399004862 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1163399004863 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1163399004864 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1163399004865 metal binding site 2 [ion binding]; metal-binding site 1163399004866 putative DNA binding helix; other site 1163399004867 metal binding site 1 [ion binding]; metal-binding site 1163399004868 dimer interface [polypeptide binding]; other site 1163399004869 structural Zn2+ binding site [ion binding]; other site 1163399004870 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 1163399004871 active site 1163399004872 catalytic triad [active] 1163399004873 oxyanion hole [active] 1163399004874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399004875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399004876 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 1163399004877 dimerization interface [polypeptide binding]; other site 1163399004878 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1163399004879 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1163399004880 Walker A/P-loop; other site 1163399004881 ATP binding site [chemical binding]; other site 1163399004882 Q-loop/lid; other site 1163399004883 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1163399004884 ABC transporter signature motif; other site 1163399004885 Walker B; other site 1163399004886 D-loop; other site 1163399004887 H-loop/switch region; other site 1163399004888 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1163399004889 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1163399004890 GrpE; Region: GrpE; pfam01025 1163399004891 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 1163399004892 dimer interface [polypeptide binding]; other site 1163399004893 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1163399004894 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1163399004895 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1163399004896 nucleotide binding site [chemical binding]; other site 1163399004897 chaperone protein DnaJ; Provisional; Region: PRK10767 1163399004898 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 1163399004899 HSP70 interaction site [polypeptide binding]; other site 1163399004900 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1163399004901 substrate binding site [polypeptide binding]; other site 1163399004902 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1163399004903 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1163399004904 dimer interface [polypeptide binding]; other site 1163399004905 Cupin domain; Region: Cupin_2; pfam07883 1163399004906 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1163399004907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399004908 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399004909 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163399004910 putative substrate translocation pore; other site 1163399004911 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 1163399004912 dimer interface [polypeptide binding]; other site 1163399004913 pyridoxamine kinase; Validated; Region: PRK05756 1163399004914 pyridoxal binding site [chemical binding]; other site 1163399004915 ATP binding site [chemical binding]; other site 1163399004916 prephenate dehydrogenase; Provisional; Region: PRK08818 1163399004917 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 1163399004918 prephenate dehydrogenase; Validated; Region: PRK08507 1163399004919 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1163399004920 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1163399004921 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163399004922 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399004923 Walker A/P-loop; other site 1163399004924 ATP binding site [chemical binding]; other site 1163399004925 Q-loop/lid; other site 1163399004926 ABC transporter signature motif; other site 1163399004927 Walker B; other site 1163399004928 D-loop; other site 1163399004929 H-loop/switch region; other site 1163399004930 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1163399004931 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1163399004932 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1163399004933 RNA polymerase sigma factor; Provisional; Region: PRK12513 1163399004934 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399004935 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 1163399004936 DNA binding residues [nucleotide binding] 1163399004937 GAF domain; Region: GAF; cl17456 1163399004938 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1163399004939 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1163399004940 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399004941 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399004942 metal binding site [ion binding]; metal-binding site 1163399004943 active site 1163399004944 I-site; other site 1163399004945 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 1163399004946 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1163399004947 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 1163399004948 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 1163399004949 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163399004950 catalytic residue [active] 1163399004951 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1163399004952 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1163399004953 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1163399004954 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1163399004955 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1163399004956 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1163399004957 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1163399004958 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1163399004959 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1163399004960 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1163399004961 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1163399004962 Protein export membrane protein; Region: SecD_SecF; cl14618 1163399004963 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1163399004964 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1163399004965 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1163399004966 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1163399004967 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399004968 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 1163399004969 active site 1163399004970 phosphorylation site [posttranslational modification] 1163399004971 dimerization interface [polypeptide binding]; other site 1163399004972 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 1163399004973 putative active site [active] 1163399004974 heme pocket [chemical binding]; other site 1163399004975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399004976 metal binding site [ion binding]; metal-binding site 1163399004977 active site 1163399004978 I-site; other site 1163399004979 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 1163399004980 HI0933-like protein; Region: HI0933_like; pfam03486 1163399004981 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163399004982 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 1163399004983 YaeQ protein; Region: YaeQ; pfam07152 1163399004984 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1163399004985 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1163399004986 probable active site [active] 1163399004987 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1163399004988 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 1163399004989 DNA-binding site [nucleotide binding]; DNA binding site 1163399004990 RNA-binding motif; other site 1163399004991 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163399004992 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1163399004993 putative C-terminal domain interface [polypeptide binding]; other site 1163399004994 putative GSH binding site (G-site) [chemical binding]; other site 1163399004995 putative dimer interface [polypeptide binding]; other site 1163399004996 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 1163399004997 putative N-terminal domain interface [polypeptide binding]; other site 1163399004998 putative dimer interface [polypeptide binding]; other site 1163399004999 putative substrate binding pocket (H-site) [chemical binding]; other site 1163399005000 hypothetical protein; Validated; Region: PRK00029 1163399005001 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1163399005002 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163399005003 active site 1163399005004 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1163399005005 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 1163399005006 ATP binding site [chemical binding]; other site 1163399005007 Mg++ binding site [ion binding]; other site 1163399005008 motif III; other site 1163399005009 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 1163399005010 nucleotide binding region [chemical binding]; other site 1163399005011 ATP-binding site [chemical binding]; other site 1163399005012 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1163399005013 putative RNA binding site [nucleotide binding]; other site 1163399005014 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 1163399005015 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1163399005016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399005017 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 1163399005018 putative dimerization interface [polypeptide binding]; other site 1163399005019 ABC transporter ATPase component; Reviewed; Region: PRK11147 1163399005020 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1163399005021 Walker A/P-loop; other site 1163399005022 ATP binding site [chemical binding]; other site 1163399005023 Q-loop/lid; other site 1163399005024 ABC transporter signature motif; other site 1163399005025 Walker B; other site 1163399005026 D-loop; other site 1163399005027 H-loop/switch region; other site 1163399005028 ABC transporter; Region: ABC_tran_2; pfam12848 1163399005029 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163399005030 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1163399005031 Cytochrome c; Region: Cytochrom_C; cl11414 1163399005032 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399005033 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399005034 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399005035 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163399005036 Protein export membrane protein; Region: SecD_SecF; cl14618 1163399005037 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163399005038 Protein export membrane protein; Region: SecD_SecF; cl14618 1163399005039 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 1163399005040 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1163399005041 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399005042 Coenzyme A binding pocket [chemical binding]; other site 1163399005043 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1163399005044 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1163399005045 putative active site; other site 1163399005046 catalytic triad [active] 1163399005047 putative dimer interface [polypeptide binding]; other site 1163399005048 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1163399005049 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1163399005050 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1163399005051 cytidylate kinase; Provisional; Region: cmk; PRK00023 1163399005052 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 1163399005053 CMP-binding site; other site 1163399005054 The sites determining sugar specificity; other site 1163399005055 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1163399005056 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1163399005057 RNA binding site [nucleotide binding]; other site 1163399005058 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 1163399005059 RNA binding site [nucleotide binding]; other site 1163399005060 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 1163399005061 RNA binding site [nucleotide binding]; other site 1163399005062 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 1163399005063 RNA binding site [nucleotide binding]; other site 1163399005064 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 1163399005065 RNA binding site [nucleotide binding]; other site 1163399005066 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 1163399005067 RNA binding site [nucleotide binding]; other site 1163399005068 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 1163399005069 IHF dimer interface [polypeptide binding]; other site 1163399005070 IHF - DNA interface [nucleotide binding]; other site 1163399005071 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1163399005072 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 1163399005073 binding surface 1163399005074 TPR motif; other site 1163399005075 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1163399005076 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1163399005077 Mg++ binding site [ion binding]; other site 1163399005078 putative catalytic motif [active] 1163399005079 putative substrate binding site [chemical binding]; other site 1163399005080 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1163399005081 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1163399005082 NAD(P) binding site [chemical binding]; other site 1163399005083 homodimer interface [polypeptide binding]; other site 1163399005084 substrate binding site [chemical binding]; other site 1163399005085 active site 1163399005086 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1163399005087 tetramer interface; other site 1163399005088 active site 1163399005089 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 1163399005090 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 1163399005091 dimer interface [polypeptide binding]; other site 1163399005092 active site 1163399005093 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1163399005094 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1163399005095 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1163399005096 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399005097 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399005098 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 1163399005099 active site 1163399005100 multimer interface [polypeptide binding]; other site 1163399005101 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1163399005102 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 1163399005103 FeS/SAM binding site; other site 1163399005104 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1163399005105 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 1163399005106 binding surface 1163399005107 TPR motif; other site 1163399005108 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1163399005109 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 1163399005110 non-specific DNA binding site [nucleotide binding]; other site 1163399005111 salt bridge; other site 1163399005112 sequence-specific DNA binding site [nucleotide binding]; other site 1163399005113 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1163399005114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1163399005115 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1163399005116 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1163399005117 Trp docking motif [polypeptide binding]; other site 1163399005118 GTP-binding protein Der; Reviewed; Region: PRK00093 1163399005119 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1163399005120 G1 box; other site 1163399005121 GTP/Mg2+ binding site [chemical binding]; other site 1163399005122 Switch I region; other site 1163399005123 G2 box; other site 1163399005124 Switch II region; other site 1163399005125 G3 box; other site 1163399005126 G4 box; other site 1163399005127 G5 box; other site 1163399005128 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1163399005129 G1 box; other site 1163399005130 GTP/Mg2+ binding site [chemical binding]; other site 1163399005131 Switch I region; other site 1163399005132 G2 box; other site 1163399005133 G3 box; other site 1163399005134 Switch II region; other site 1163399005135 G4 box; other site 1163399005136 G5 box; other site 1163399005137 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK08762 1163399005138 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 1163399005139 active site residue [active] 1163399005140 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 1163399005141 ATP binding site [chemical binding]; other site 1163399005142 substrate interface [chemical binding]; other site 1163399005143 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1163399005144 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1163399005145 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1163399005146 TrkA-N domain; Region: TrkA_N; pfam02254 1163399005147 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1163399005148 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1163399005149 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1163399005150 homodimer interface [polypeptide binding]; other site 1163399005151 NADP binding site [chemical binding]; other site 1163399005152 substrate binding site [chemical binding]; other site 1163399005153 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1163399005154 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 1163399005155 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 1163399005156 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 1163399005157 active site 1163399005158 GMP synthase; Reviewed; Region: guaA; PRK00074 1163399005159 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1163399005160 AMP/PPi binding site [chemical binding]; other site 1163399005161 candidate oxyanion hole; other site 1163399005162 catalytic triad [active] 1163399005163 potential glutamine specificity residues [chemical binding]; other site 1163399005164 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 1163399005165 ATP Binding subdomain [chemical binding]; other site 1163399005166 Ligand Binding sites [chemical binding]; other site 1163399005167 Dimerization subdomain; other site 1163399005168 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1163399005169 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1163399005170 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 1163399005171 ATP binding site [chemical binding]; other site 1163399005172 putative Mg++ binding site [ion binding]; other site 1163399005173 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1163399005174 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1163399005175 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163399005176 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1163399005177 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163399005178 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163399005179 AAA domain; Region: AAA_21; pfam13304 1163399005180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399005181 Walker A/P-loop; other site 1163399005182 ATP binding site [chemical binding]; other site 1163399005183 AAA domain; Region: AAA_21; pfam13304 1163399005184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399005185 ABC transporter signature motif; other site 1163399005186 Walker B; other site 1163399005187 D-loop; other site 1163399005188 H-loop/switch region; other site 1163399005189 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399005190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399005191 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 1163399005192 putative effector binding pocket; other site 1163399005193 dimerization interface [polypeptide binding]; other site 1163399005194 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1163399005195 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1163399005196 potential catalytic triad [active] 1163399005197 conserved cys residue [active] 1163399005198 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 1163399005199 Tmonovalent cation:proton antiporter; Region: 2a6301s01; TIGR00940 1163399005200 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1163399005201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399005202 NAD(P) binding site [chemical binding]; other site 1163399005203 active site 1163399005204 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 1163399005205 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1163399005206 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1163399005207 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1163399005208 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1163399005209 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 1163399005210 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399005211 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1163399005212 catalytic site [active] 1163399005213 Helix-turn-helix domain; Region: HTH_17; pfam12728 1163399005214 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 1163399005215 putative hydrophobic ligand binding site [chemical binding]; other site 1163399005216 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 1163399005217 dimerization interface [polypeptide binding]; other site 1163399005218 putative DNA binding site [nucleotide binding]; other site 1163399005219 putative Zn2+ binding site [ion binding]; other site 1163399005220 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1163399005221 putative hydrophobic ligand binding site [chemical binding]; other site 1163399005222 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1163399005223 MarR family; Region: MarR_2; pfam12802 1163399005224 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1163399005225 hypothetical protein; Provisional; Region: PRK07236 1163399005226 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1163399005227 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399005228 Coenzyme A binding pocket [chemical binding]; other site 1163399005229 myosin-cross-reactive antigen; Provisional; Region: PRK13977 1163399005230 short chain dehydrogenase; Provisional; Region: PRK06180 1163399005231 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1163399005232 NADP binding site [chemical binding]; other site 1163399005233 active site 1163399005234 steroid binding site; other site 1163399005235 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1163399005236 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1163399005237 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399005238 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399005239 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399005240 CheW-like domain; Region: CheW; pfam01584 1163399005241 Sensors of blue-light using FAD; Region: BLUF; cl04855 1163399005242 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1163399005243 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1163399005244 conserved cys residue [active] 1163399005245 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399005246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399005247 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399005248 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 1163399005249 N-terminal plug; other site 1163399005250 ligand-binding site [chemical binding]; other site 1163399005251 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163399005252 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1163399005253 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 1163399005254 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1163399005255 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1163399005256 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1163399005257 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1163399005258 active site 1163399005259 non-prolyl cis peptide bond; other site 1163399005260 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1163399005261 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1163399005262 metal binding site [ion binding]; metal-binding site 1163399005263 putative dimer interface [polypeptide binding]; other site 1163399005264 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399005265 Coenzyme A binding pocket [chemical binding]; other site 1163399005266 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 1163399005267 dimer interface [polypeptide binding]; other site 1163399005268 conserved gate region; other site 1163399005269 putative PBP binding loops; other site 1163399005270 ABC-ATPase subunit interface; other site 1163399005271 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1163399005272 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1163399005273 Walker A/P-loop; other site 1163399005274 ATP binding site [chemical binding]; other site 1163399005275 Q-loop/lid; other site 1163399005276 ABC transporter signature motif; other site 1163399005277 Walker B; other site 1163399005278 D-loop; other site 1163399005279 H-loop/switch region; other site 1163399005280 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 1163399005281 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163399005282 substrate binding pocket [chemical binding]; other site 1163399005283 membrane-bound complex binding site; other site 1163399005284 hinge residues; other site 1163399005285 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1163399005286 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1163399005287 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1163399005288 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399005289 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399005290 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1163399005291 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399005292 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 1163399005293 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1163399005294 classical (c) SDRs; Region: SDR_c; cd05233 1163399005295 NAD(P) binding site [chemical binding]; other site 1163399005296 active site 1163399005297 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399005298 Coenzyme A binding pocket [chemical binding]; other site 1163399005299 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 1163399005300 dimerization interface [polypeptide binding]; other site 1163399005301 putative DNA binding site [nucleotide binding]; other site 1163399005302 putative Zn2+ binding site [ion binding]; other site 1163399005303 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 1163399005304 active site residue [active] 1163399005305 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1163399005306 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 1163399005307 active site 1163399005308 ATP binding site [chemical binding]; other site 1163399005309 Phosphotransferase enzyme family; Region: APH; pfam01636 1163399005310 antibiotic binding site [chemical binding]; other site 1163399005311 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399005312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 1163399005313 Phosphotransferase enzyme family; Region: APH; pfam01636 1163399005314 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 1163399005315 EamA-like transporter family; Region: EamA; cl17759 1163399005316 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1163399005317 FAD binding domain; Region: FAD_binding_4; pfam01565 1163399005318 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1163399005319 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1163399005320 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 1163399005321 quinone interaction residues [chemical binding]; other site 1163399005322 active site 1163399005323 catalytic residues [active] 1163399005324 FMN binding site [chemical binding]; other site 1163399005325 substrate binding site [chemical binding]; other site 1163399005326 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 1163399005327 S-adenosylmethionine binding site [chemical binding]; other site 1163399005328 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 1163399005329 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1163399005330 classical (c) SDRs; Region: SDR_c; cd05233 1163399005331 NAD(P) binding site [chemical binding]; other site 1163399005332 active site 1163399005333 aldehyde dehydrogenase family 7 member; Region: PLN02315 1163399005334 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1163399005335 tetrameric interface [polypeptide binding]; other site 1163399005336 NAD binding site [chemical binding]; other site 1163399005337 catalytic residues [active] 1163399005338 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1163399005339 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399005340 Coenzyme A binding pocket [chemical binding]; other site 1163399005341 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1163399005342 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1163399005343 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163399005344 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399005345 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399005346 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 1163399005347 active site 1163399005348 phosphorylation site [posttranslational modification] 1163399005349 intermolecular recognition site; other site 1163399005350 dimerization interface [polypeptide binding]; other site 1163399005351 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 1163399005352 PAS domain; Region: PAS_9; pfam13426 1163399005353 putative active site [active] 1163399005354 heme pocket [chemical binding]; other site 1163399005355 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 1163399005356 ATP binding site [chemical binding]; other site 1163399005357 G-X-G motif; other site 1163399005358 GAF domain; Region: GAF_3; pfam13492 1163399005359 GAF domain; Region: GAF_2; pfam13185 1163399005360 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 1163399005361 dimer interface [polypeptide binding]; other site 1163399005362 phosphorylation site [posttranslational modification] 1163399005363 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 1163399005364 ATP binding site [chemical binding]; other site 1163399005365 Mg2+ binding site [ion binding]; other site 1163399005366 G-X-G motif; other site 1163399005367 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399005368 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 1163399005369 active site 1163399005370 phosphorylation site [posttranslational modification] 1163399005371 intermolecular recognition site; other site 1163399005372 dimerization interface [polypeptide binding]; other site 1163399005373 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163399005374 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 1163399005375 active site 1163399005376 phosphorylation site [posttranslational modification] 1163399005377 intermolecular recognition site; other site 1163399005378 dimerization interface [polypeptide binding]; other site 1163399005379 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399005380 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 1163399005381 active site 1163399005382 phosphorylation site [posttranslational modification] 1163399005383 intermolecular recognition site; other site 1163399005384 dimerization interface [polypeptide binding]; other site 1163399005385 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1163399005386 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1163399005387 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1163399005388 CheB methylesterase; Region: CheB_methylest; pfam01339 1163399005389 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399005390 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 1163399005391 active site 1163399005392 phosphorylation site [posttranslational modification] 1163399005393 intermolecular recognition site; other site 1163399005394 dimerization interface [polypeptide binding]; other site 1163399005395 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399005396 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 1163399005397 dimer interface [polypeptide binding]; other site 1163399005398 phosphorylation site [posttranslational modification] 1163399005399 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 1163399005400 ATP binding site [chemical binding]; other site 1163399005401 Mg2+ binding site [ion binding]; other site 1163399005402 G-X-G motif; other site 1163399005403 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1163399005404 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 1163399005405 dimerization interface [polypeptide binding]; other site 1163399005406 putative DNA binding site [nucleotide binding]; other site 1163399005407 putative Zn2+ binding site [ion binding]; other site 1163399005408 Sulphur transport; Region: Sulf_transp; pfam04143 1163399005409 Predicted transporter component [General function prediction only]; Region: COG2391 1163399005410 Predicted transporter component [General function prediction only]; Region: COG2391 1163399005411 Sulphur transport; Region: Sulf_transp; pfam04143 1163399005412 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 1163399005413 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1163399005414 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399005415 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163399005416 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399005417 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1163399005418 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 1163399005419 putative catalytic residues [active] 1163399005420 putative nucleotide binding site [chemical binding]; other site 1163399005421 putative aspartate binding site [chemical binding]; other site 1163399005422 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1163399005423 dimer interface [polypeptide binding]; other site 1163399005424 putative threonine allosteric regulatory site; other site 1163399005425 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1163399005426 putative threonine allosteric regulatory site; other site 1163399005427 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1163399005428 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1163399005429 homoserine kinase; Provisional; Region: PRK01212 1163399005430 threonine synthase; Validated; Region: PRK09225 1163399005431 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1163399005432 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163399005433 catalytic residue [active] 1163399005434 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 1163399005435 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1163399005436 ligand binding site [chemical binding]; other site 1163399005437 flexible hinge region; other site 1163399005438 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 1163399005439 putative switch regulator; other site 1163399005440 non-specific DNA interactions [nucleotide binding]; other site 1163399005441 DNA binding site [nucleotide binding] 1163399005442 sequence specific DNA binding site [nucleotide binding]; other site 1163399005443 putative cAMP binding site [chemical binding]; other site 1163399005444 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 1163399005445 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 1163399005446 dimer interface [polypeptide binding]; other site 1163399005447 motif 1; other site 1163399005448 active site 1163399005449 motif 2; other site 1163399005450 motif 3; other site 1163399005451 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 1163399005452 anticodon binding site; other site 1163399005453 Trp repressor protein; Region: Trp_repressor; cl17266 1163399005454 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1163399005455 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1163399005456 HisG, C-terminal domain; Region: HisG_C; cl06867 1163399005457 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 1163399005458 histidinol dehydrogenase; Region: hisD; TIGR00069 1163399005459 NAD binding site [chemical binding]; other site 1163399005460 dimerization interface [polypeptide binding]; other site 1163399005461 product binding site; other site 1163399005462 substrate binding site [chemical binding]; other site 1163399005463 zinc binding site [ion binding]; other site 1163399005464 catalytic residues [active] 1163399005465 histidinol-phosphate aminotransferase; Provisional; Region: PRK04781 1163399005466 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 1163399005467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399005468 homodimer interface [polypeptide binding]; other site 1163399005469 catalytic residue [active] 1163399005470 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1163399005471 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 1163399005472 active site 1163399005473 motif I; other site 1163399005474 motif II; other site 1163399005475 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1163399005476 putative active site pocket [active] 1163399005477 4-fold oligomerization interface [polypeptide binding]; other site 1163399005478 metal binding residues [ion binding]; metal-binding site 1163399005479 3-fold/trimer interface [polypeptide binding]; other site 1163399005480 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1163399005481 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1163399005482 putative active site [active] 1163399005483 oxyanion strand; other site 1163399005484 catalytic triad [active] 1163399005485 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 1163399005486 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1163399005487 catalytic residues [active] 1163399005488 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 1163399005489 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1163399005490 substrate binding site [chemical binding]; other site 1163399005491 glutamase interaction surface [polypeptide binding]; other site 1163399005492 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1163399005493 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1163399005494 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 1163399005495 metal binding site [ion binding]; metal-binding site 1163399005496 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1163399005497 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163399005498 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163399005499 active site 1163399005500 metal binding site [ion binding]; metal-binding site 1163399005501 Glucokinase; Region: Glucokinase; cl17310 1163399005502 glucokinase, proteobacterial type; Region: glk; TIGR00749 1163399005503 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 1163399005504 active site 1163399005505 dimer interface [polypeptide binding]; other site 1163399005506 catalytic nucleophile [active] 1163399005507 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1163399005508 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 1163399005509 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 1163399005510 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 1163399005511 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1163399005512 metal-binding site [ion binding] 1163399005513 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1163399005514 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 1163399005515 metal-binding site [ion binding] 1163399005516 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163399005517 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 1163399005518 motif II; other site 1163399005519 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1163399005520 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1163399005521 DNA binding residues [nucleotide binding] 1163399005522 dimer interface [polypeptide binding]; other site 1163399005523 copper binding site [ion binding]; other site 1163399005524 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 1163399005525 metal-binding site [ion binding] 1163399005526 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1163399005527 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 1163399005528 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 1163399005529 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1163399005530 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1163399005531 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1163399005532 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1163399005533 DNA binding site [nucleotide binding] 1163399005534 domain linker motif; other site 1163399005535 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 1163399005536 putative ligand binding site [chemical binding]; other site 1163399005537 putative dimerization interface [polypeptide binding]; other site 1163399005538 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1163399005539 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1163399005540 putative substrate translocation pore; other site 1163399005541 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399005542 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1163399005543 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1163399005544 putative substrate binding site [chemical binding]; other site 1163399005545 putative ATP binding site [chemical binding]; other site 1163399005546 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 1163399005547 dimerization interface [polypeptide binding]; other site 1163399005548 putative active cleft [active] 1163399005549 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 1163399005550 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1163399005551 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1163399005552 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 1163399005553 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 1163399005554 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1163399005555 Cupin domain; Region: Cupin_2; cl17218 1163399005556 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 1163399005557 intersubunit interface [polypeptide binding]; other site 1163399005558 active site 1163399005559 Zn2+ binding site [ion binding]; other site 1163399005560 amino acid transporter; Region: 2A0306; TIGR00909 1163399005561 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1163399005562 amino acid transporter; Region: 2A0306; TIGR00909 1163399005563 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 1163399005564 nudix motif; other site 1163399005565 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1163399005566 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1163399005567 ligand binding site [chemical binding]; other site 1163399005568 NAD binding site [chemical binding]; other site 1163399005569 tetramer interface [polypeptide binding]; other site 1163399005570 catalytic site [active] 1163399005571 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1163399005572 L-serine binding site [chemical binding]; other site 1163399005573 ACT domain interface; other site 1163399005574 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1163399005575 FAD binding domain; Region: FAD_binding_4; pfam01565 1163399005576 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 1163399005577 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1163399005578 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399005579 HAMP domain; Region: HAMP; pfam00672 1163399005580 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 1163399005581 dimer interface [polypeptide binding]; other site 1163399005582 phosphorylation site [posttranslational modification] 1163399005583 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 1163399005584 ATP binding site [chemical binding]; other site 1163399005585 Mg2+ binding site [ion binding]; other site 1163399005586 G-X-G motif; other site 1163399005587 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399005588 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 1163399005589 active site 1163399005590 phosphorylation site [posttranslational modification] 1163399005591 intermolecular recognition site; other site 1163399005592 dimerization interface [polypeptide binding]; other site 1163399005593 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 1163399005594 DNA binding site [nucleotide binding] 1163399005595 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1163399005596 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399005597 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399005598 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1163399005599 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1163399005600 Predicted membrane protein [Function unknown]; Region: COG3650 1163399005601 elongation factor P; Provisional; Region: PRK04542 1163399005602 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1163399005603 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 1163399005604 RNA binding site [nucleotide binding]; other site 1163399005605 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 1163399005606 RNA binding site [nucleotide binding]; other site 1163399005607 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1163399005608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399005609 NAD(P) binding site [chemical binding]; other site 1163399005610 active site 1163399005611 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1163399005612 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1163399005613 active site 1163399005614 catalytic residues [active] 1163399005615 metal binding site [ion binding]; metal-binding site 1163399005616 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_19; cd07262 1163399005617 enoyl-CoA hydratase; Provisional; Region: PRK05995 1163399005618 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 1163399005619 substrate binding site [chemical binding]; other site 1163399005620 oxyanion hole (OAH) forming residues; other site 1163399005621 trimer interface [polypeptide binding]; other site 1163399005622 FeoA domain; Region: FeoA; pfam04023 1163399005623 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1163399005624 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1163399005625 G1 box; other site 1163399005626 GTP/Mg2+ binding site [chemical binding]; other site 1163399005627 Switch I region; other site 1163399005628 G2 box; other site 1163399005629 G3 box; other site 1163399005630 Switch II region; other site 1163399005631 G4 box; other site 1163399005632 G5 box; other site 1163399005633 Nucleoside recognition; Region: Gate; pfam07670 1163399005634 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1163399005635 Nucleoside recognition; Region: Gate; pfam07670 1163399005636 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 1163399005637 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1163399005638 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163399005639 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1163399005640 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1163399005641 DNA binding residues [nucleotide binding] 1163399005642 dimer interface [polypeptide binding]; other site 1163399005643 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 1163399005644 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399005645 NAD(P) binding site [chemical binding]; other site 1163399005646 active site 1163399005647 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1163399005648 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1163399005649 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1163399005650 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1163399005651 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1163399005652 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1163399005653 catalytic site [active] 1163399005654 subunit interface [polypeptide binding]; other site 1163399005655 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1163399005656 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163399005657 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1163399005658 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1163399005659 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163399005660 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163399005661 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 1163399005662 IMP binding site; other site 1163399005663 dimer interface [polypeptide binding]; other site 1163399005664 interdomain contacts; other site 1163399005665 partial ornithine binding site; other site 1163399005666 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1163399005667 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1163399005668 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1163399005669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 1163399005670 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1163399005671 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1163399005672 DHH family; Region: DHH; pfam01368 1163399005673 DHHA1 domain; Region: DHHA1; pfam02272 1163399005674 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 1163399005675 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 1163399005676 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 1163399005677 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1163399005678 LytTr DNA-binding domain; Region: LytTR; smart00850 1163399005679 peptide chain release factor 2; Provisional; Region: PRK08787 1163399005680 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1163399005681 RF-1 domain; Region: RF-1; pfam00472 1163399005682 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 1163399005683 salt bridge; other site 1163399005684 non-specific DNA binding site [nucleotide binding]; other site 1163399005685 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1163399005686 sequence-specific DNA binding site [nucleotide binding]; other site 1163399005687 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 1163399005688 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1163399005689 NAD(P) binding site [chemical binding]; other site 1163399005690 catalytic residues [active] 1163399005691 acetolactate synthase; Reviewed; Region: PRK08322 1163399005692 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1163399005693 PYR/PP interface [polypeptide binding]; other site 1163399005694 dimer interface [polypeptide binding]; other site 1163399005695 TPP binding site [chemical binding]; other site 1163399005696 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1163399005697 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1163399005698 TPP-binding site [chemical binding]; other site 1163399005699 dimer interface [polypeptide binding]; other site 1163399005700 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1163399005701 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 1163399005702 dimer interface [polypeptide binding]; other site 1163399005703 putative anticodon binding site; other site 1163399005704 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 1163399005705 motif 1; other site 1163399005706 active site 1163399005707 motif 2; other site 1163399005708 motif 3; other site 1163399005709 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1163399005710 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 1163399005711 active site 1163399005712 phosphorylation site [posttranslational modification] 1163399005713 intermolecular recognition site; other site 1163399005714 dimerization interface [polypeptide binding]; other site 1163399005715 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163399005716 Zn2+ binding site [ion binding]; other site 1163399005717 Mg2+ binding site [ion binding]; other site 1163399005718 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399005719 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 1163399005720 dimer interface [polypeptide binding]; other site 1163399005721 phosphorylation site [posttranslational modification] 1163399005722 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 1163399005723 ATP binding site [chemical binding]; other site 1163399005724 Mg2+ binding site [ion binding]; other site 1163399005725 G-X-G motif; other site 1163399005726 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399005727 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 1163399005728 active site 1163399005729 phosphorylation site [posttranslational modification] 1163399005730 intermolecular recognition site; other site 1163399005731 dimerization interface [polypeptide binding]; other site 1163399005732 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 1163399005733 putative binding surface; other site 1163399005734 active site 1163399005735 enoyl-CoA hydratase; Validated; Region: PRK08788 1163399005736 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 1163399005737 substrate binding site [chemical binding]; other site 1163399005738 oxyanion hole (OAH) forming residues; other site 1163399005739 trimer interface [polypeptide binding]; other site 1163399005740 putative long-chain fatty acyl CoA ligase; Provisional; Region: PRK08751 1163399005741 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1163399005742 acyl-activating enzyme (AAE) consensus motif; other site 1163399005743 putative AMP binding site [chemical binding]; other site 1163399005744 putative active site [active] 1163399005745 putative CoA binding site [chemical binding]; other site 1163399005746 choline dehydrogenase; Validated; Region: PRK02106 1163399005747 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1163399005748 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1163399005749 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 1163399005750 tetrameric interface [polypeptide binding]; other site 1163399005751 NAD binding site [chemical binding]; other site 1163399005752 catalytic residues [active] 1163399005753 transcriptional regulator BetI; Validated; Region: PRK00767 1163399005754 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399005755 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1163399005756 BCCT family transporter; Region: BCCT; pfam02028 1163399005757 aconitate hydratase; Validated; Region: PRK09277 1163399005758 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1163399005759 substrate binding site [chemical binding]; other site 1163399005760 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1163399005761 ligand binding site [chemical binding]; other site 1163399005762 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 1163399005763 substrate binding site [chemical binding]; other site 1163399005764 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1163399005765 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1163399005766 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB-like; cd09875 1163399005767 putative active site [active] 1163399005768 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1163399005769 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 1163399005770 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 1163399005771 substrate binding site [chemical binding]; other site 1163399005772 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1163399005773 substrate binding site [chemical binding]; other site 1163399005774 ligand binding site [chemical binding]; other site 1163399005775 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 1163399005776 nucleophilic elbow; other site 1163399005777 catalytic triad; other site 1163399005778 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1163399005779 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 1163399005780 active site 1163399005781 phosphorylation site [posttranslational modification] 1163399005782 intermolecular recognition site; other site 1163399005783 dimerization interface [polypeptide binding]; other site 1163399005784 CheB methylesterase; Region: CheB_methylest; pfam01339 1163399005785 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 1163399005786 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1163399005787 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1163399005788 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1163399005789 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1163399005790 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 1163399005791 dimerization interface [polypeptide binding]; other site 1163399005792 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1163399005793 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399005794 dimer interface [polypeptide binding]; other site 1163399005795 putative CheW interface [polypeptide binding]; other site 1163399005796 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1163399005797 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 1163399005798 dimerization interface [polypeptide binding]; other site 1163399005799 PAS domain; Region: PAS; smart00091 1163399005800 PAS domain; Region: PAS_9; pfam13426 1163399005801 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163399005802 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399005803 dimer interface [polypeptide binding]; other site 1163399005804 putative CheW interface [polypeptide binding]; other site 1163399005805 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 1163399005806 putative CheA interaction surface; other site 1163399005807 Flagellar regulator YcgR; Region: YcgR; pfam07317 1163399005808 PilZ domain; Region: PilZ; pfam07238 1163399005809 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1163399005810 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 1163399005811 dimerization interface [polypeptide binding]; other site 1163399005812 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163399005813 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399005814 dimer interface [polypeptide binding]; other site 1163399005815 putative CheW interface [polypeptide binding]; other site 1163399005816 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 1163399005817 putative binding surface; other site 1163399005818 active site 1163399005819 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1163399005820 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 1163399005821 ATP binding site [chemical binding]; other site 1163399005822 Mg2+ binding site [ion binding]; other site 1163399005823 G-X-G motif; other site 1163399005824 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 1163399005825 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 1163399005826 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399005827 active site 1163399005828 phosphorylation site [posttranslational modification] 1163399005829 intermolecular recognition site; other site 1163399005830 dimerization interface [polypeptide binding]; other site 1163399005831 STAS domain; Region: STAS_2; pfam13466 1163399005832 CheW-like domain; Region: CheW; pfam01584 1163399005833 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1163399005834 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1163399005835 P-loop; other site 1163399005836 Magnesium ion binding site [ion binding]; other site 1163399005837 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1163399005838 Magnesium ion binding site [ion binding]; other site 1163399005839 flagellar motor protein MotD; Reviewed; Region: PRK09038 1163399005840 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1163399005841 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163399005842 ligand binding site [chemical binding]; other site 1163399005843 flagellar motor protein; Reviewed; Region: motC; PRK09109 1163399005844 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1163399005845 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 1163399005846 putative binding surface; other site 1163399005847 active site 1163399005848 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1163399005849 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1163399005850 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 1163399005851 ATP binding site [chemical binding]; other site 1163399005852 Mg2+ binding site [ion binding]; other site 1163399005853 G-X-G motif; other site 1163399005854 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 1163399005855 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 1163399005856 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1163399005857 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 1163399005858 active site 1163399005859 phosphorylation site [posttranslational modification] 1163399005860 intermolecular recognition site; other site 1163399005861 dimerization interface [polypeptide binding]; other site 1163399005862 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1163399005863 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399005864 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1163399005865 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 1163399005866 DNA binding residues [nucleotide binding] 1163399005867 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1163399005868 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 1163399005869 P-loop; other site 1163399005870 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 1163399005871 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 1163399005872 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 1163399005873 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1163399005874 FHIPEP family; Region: FHIPEP; pfam00771 1163399005875 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1163399005876 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1163399005877 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1163399005878 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1163399005879 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1163399005880 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399005881 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399005882 metal binding site [ion binding]; metal-binding site 1163399005883 active site 1163399005884 I-site; other site 1163399005885 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 1163399005886 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1163399005887 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1163399005888 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1163399005889 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1163399005890 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1163399005891 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1163399005892 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1163399005893 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1163399005894 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1163399005895 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 1163399005896 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1163399005897 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 1163399005898 Walker A motif/ATP binding site; other site 1163399005899 Walker B motif; other site 1163399005900 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1163399005901 Flagellar assembly protein FliH; Region: FliH; pfam02108 1163399005902 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1163399005903 FliG C-terminal domain; Region: FliG_C; pfam01706 1163399005904 flagellar MS-ring protein; Reviewed; Region: fliF; PRK12800 1163399005905 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1163399005906 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1163399005907 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 1163399005908 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1163399005909 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1163399005910 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 1163399005911 Walker A motif; other site 1163399005912 ATP binding site [chemical binding]; other site 1163399005913 Walker B motif; other site 1163399005914 arginine finger; other site 1163399005915 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163399005916 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399005917 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 1163399005918 active site 1163399005919 phosphorylation site [posttranslational modification] 1163399005920 intermolecular recognition site; other site 1163399005921 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1163399005922 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1163399005923 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1163399005924 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1163399005925 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399005926 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 1163399005927 active site 1163399005928 phosphorylation site [posttranslational modification] 1163399005929 intermolecular recognition site; other site 1163399005930 dimerization interface [polypeptide binding]; other site 1163399005931 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 1163399005932 DNA binding residues [nucleotide binding] 1163399005933 flagellar protein FliS; Validated; Region: fliS; PRK05685 1163399005934 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1163399005935 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1163399005936 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1163399005937 flagellin; Reviewed; Region: PRK08869 1163399005938 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163399005939 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1163399005940 flagellin; Reviewed; Region: PRK08869 1163399005941 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163399005942 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1163399005943 flagellin; Reviewed; Region: PRK08869 1163399005944 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163399005945 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1163399005946 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1163399005947 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163399005948 flagellar hook-associated protein FlgK; Provisional; Region: flgK; PRK12714 1163399005949 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163399005950 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163399005951 flagellar rod assembly protein/muramidase FlgJ; Reviewed; Region: flgJ; PRK12711 1163399005952 Rod binding protein; Region: Rod-binding; cl01626 1163399005953 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1163399005954 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1163399005955 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1163399005956 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1163399005957 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1163399005958 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163399005959 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163399005960 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1163399005961 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163399005962 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1163399005963 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1163399005964 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1163399005965 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163399005966 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1163399005967 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12634 1163399005968 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1163399005969 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12629 1163399005970 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163399005971 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163399005972 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12620 1163399005973 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1163399005974 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1163399005975 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163399005976 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 1163399005977 active site 1163399005978 phosphorylation site [posttranslational modification] 1163399005979 intermolecular recognition site; other site 1163399005980 dimerization interface [polypeptide binding]; other site 1163399005981 SAF-like; Region: SAF_2; pfam13144 1163399005982 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1163399005983 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1163399005984 FlgN protein; Region: FlgN; pfam05130 1163399005985 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; cl00080 1163399005986 dimer interface [polypeptide binding]; other site 1163399005987 phosphorylation site [posttranslational modification] 1163399005988 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 1163399005989 ATP binding site [chemical binding]; other site 1163399005990 Mg2+ binding site [ion binding]; other site 1163399005991 G-X-G motif; other site 1163399005992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399005993 metal binding site [ion binding]; metal-binding site 1163399005994 active site 1163399005995 I-site; other site 1163399005996 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 1163399005997 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 1163399005998 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399005999 active site 1163399006000 phosphorylation site [posttranslational modification] 1163399006001 intermolecular recognition site; other site 1163399006002 dimerization interface [polypeptide binding]; other site 1163399006003 PAS domain S-box; Region: sensory_box; TIGR00229 1163399006004 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 1163399006005 putative active site [active] 1163399006006 heme pocket [chemical binding]; other site 1163399006007 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 1163399006008 PAS domain; Region: PAS_9; pfam13426 1163399006009 putative active site [active] 1163399006010 heme pocket [chemical binding]; other site 1163399006011 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1163399006012 Histidine kinase; Region: HisKA_3; pfam07730 1163399006013 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 1163399006014 ATP binding site [chemical binding]; other site 1163399006015 Mg2+ binding site [ion binding]; other site 1163399006016 G-X-G motif; other site 1163399006017 PAS fold; Region: PAS_3; pfam08447 1163399006018 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 1163399006019 heme pocket [chemical binding]; other site 1163399006020 putative active site [active] 1163399006021 PAS domain; Region: PAS_9; pfam13426 1163399006022 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399006023 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399006024 metal binding site [ion binding]; metal-binding site 1163399006025 active site 1163399006026 I-site; other site 1163399006027 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 1163399006028 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1163399006029 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399006030 dimer interface [polypeptide binding]; other site 1163399006031 putative CheW interface [polypeptide binding]; other site 1163399006032 putative lysogenization regulator; Reviewed; Region: PRK00218 1163399006033 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1163399006034 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 1163399006035 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 1163399006036 nudix motif; other site 1163399006037 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1163399006038 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 1163399006039 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1163399006040 Clp amino terminal domain; Region: Clp_N; pfam02861 1163399006041 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 1163399006042 Walker A motif; other site 1163399006043 ATP binding site [chemical binding]; other site 1163399006044 Walker B motif; other site 1163399006045 arginine finger; other site 1163399006046 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 1163399006047 Walker A motif; other site 1163399006048 ATP binding site [chemical binding]; other site 1163399006049 Walker B motif; other site 1163399006050 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1163399006051 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 1163399006052 rRNA binding site [nucleotide binding]; other site 1163399006053 predicted 30S ribosome binding site; other site 1163399006054 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1163399006055 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1163399006056 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1163399006057 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 1163399006058 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1163399006059 active site 1163399006060 thioredoxin reductase; Provisional; Region: PRK10262 1163399006061 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163399006062 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163399006063 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1163399006064 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1163399006065 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1163399006066 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 1163399006067 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1163399006068 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1163399006069 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1163399006070 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1163399006071 recombination factor protein RarA; Reviewed; Region: PRK13342 1163399006072 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 1163399006073 Walker A motif; other site 1163399006074 ATP binding site [chemical binding]; other site 1163399006075 Walker B motif; other site 1163399006076 arginine finger; other site 1163399006077 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1163399006078 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1163399006079 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1163399006080 Putative esterase; Region: Esterase; pfam00756 1163399006081 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1163399006082 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1163399006083 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1163399006084 intersubunit interface [polypeptide binding]; other site 1163399006085 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1163399006086 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 1163399006087 ABC-ATPase subunit interface; other site 1163399006088 dimer interface [polypeptide binding]; other site 1163399006089 putative PBP binding regions; other site 1163399006090 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1163399006091 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1163399006092 Walker A/P-loop; other site 1163399006093 ATP binding site [chemical binding]; other site 1163399006094 Q-loop/lid; other site 1163399006095 ABC transporter signature motif; other site 1163399006096 Walker B; other site 1163399006097 D-loop; other site 1163399006098 H-loop/switch region; other site 1163399006099 elongation factor G; Reviewed; Region: PRK12739 1163399006100 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1163399006101 G1 box; other site 1163399006102 GTP/Mg2+ binding site [chemical binding]; other site 1163399006103 G2 box; other site 1163399006104 Switch I region; other site 1163399006105 G3 box; other site 1163399006106 Switch II region; other site 1163399006107 G4 box; other site 1163399006108 G5 box; other site 1163399006109 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 1163399006110 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 1163399006111 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 1163399006112 SapC; Region: SapC; pfam07277 1163399006114 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1163399006115 Outer membrane efflux protein; Region: OEP; pfam02321 1163399006116 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1163399006117 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399006118 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1163399006119 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1163399006120 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1163399006121 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1163399006122 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1163399006123 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1163399006124 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1163399006125 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1163399006126 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399006127 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399006128 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399006129 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1163399006130 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 1163399006131 metal-binding site [ion binding] 1163399006132 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1163399006133 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 1163399006134 metal-binding site [ion binding] 1163399006135 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163399006136 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1163399006137 Cytochrome c; Region: Cytochrom_C; cl11414 1163399006138 Iron permease FTR1 family; Region: FTR1; cl00475 1163399006139 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1163399006140 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 1163399006141 DNA binding residues [nucleotide binding] 1163399006142 dimer interface [polypeptide binding]; other site 1163399006143 putative metal binding site [ion binding]; other site 1163399006144 NAD synthetase; Provisional; Region: PRK13981 1163399006145 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1163399006146 multimer interface [polypeptide binding]; other site 1163399006147 active site 1163399006148 catalytic triad [active] 1163399006149 protein interface 1 [polypeptide binding]; other site 1163399006150 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 1163399006151 homodimer interface [polypeptide binding]; other site 1163399006152 NAD binding pocket [chemical binding]; other site 1163399006153 ATP binding pocket [chemical binding]; other site 1163399006154 Mg binding site [ion binding]; other site 1163399006155 active-site loop [active] 1163399006156 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 1163399006157 DNA binding site [nucleotide binding] 1163399006158 dimer interface [polypeptide binding]; other site 1163399006159 active site 1163399006160 Int/Topo IB signature motif; other site 1163399006161 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1163399006162 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1163399006164 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399006165 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 1163399006166 active site 1163399006167 phosphorylation site [posttranslational modification] 1163399006168 intermolecular recognition site; other site 1163399006169 dimerization interface [polypeptide binding]; other site 1163399006170 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 1163399006171 DNA binding residues [nucleotide binding] 1163399006172 dimerization interface [polypeptide binding]; other site 1163399006173 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1163399006174 AAA domain; Region: AAA_12; pfam13087 1163399006175 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1163399006176 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1163399006177 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 1163399006178 S-adenosylmethionine binding site [chemical binding]; other site 1163399006179 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 1163399006180 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1163399006181 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1163399006182 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 1163399006183 S-adenosylmethionine binding site [chemical binding]; other site 1163399006184 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1163399006185 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1163399006186 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163399006187 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1163399006188 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1163399006189 Di-iron ligands [ion binding]; other site 1163399006190 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1163399006191 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1163399006192 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399006193 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 1163399006194 DNA binding residues [nucleotide binding] 1163399006195 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 1163399006196 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1163399006197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399006198 NAD(P) binding site [chemical binding]; other site 1163399006199 active site 1163399006200 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163399006201 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 1163399006202 active site 1163399006203 phosphorylation site [posttranslational modification] 1163399006204 intermolecular recognition site; other site 1163399006205 dimerization interface [polypeptide binding]; other site 1163399006206 PAS fold; Region: PAS_4; pfam08448 1163399006207 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 1163399006208 putative active site [active] 1163399006209 heme pocket [chemical binding]; other site 1163399006210 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1163399006211 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 1163399006212 dimer interface [polypeptide binding]; other site 1163399006213 phosphorylation site [posttranslational modification] 1163399006214 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 1163399006215 ATP binding site [chemical binding]; other site 1163399006216 Mg2+ binding site [ion binding]; other site 1163399006217 G-X-G motif; other site 1163399006218 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399006219 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 1163399006220 active site 1163399006221 phosphorylation site [posttranslational modification] 1163399006222 intermolecular recognition site; other site 1163399006223 dimerization interface [polypeptide binding]; other site 1163399006224 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399006225 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 1163399006226 active site 1163399006227 phosphorylation site [posttranslational modification] 1163399006228 intermolecular recognition site; other site 1163399006229 dimerization interface [polypeptide binding]; other site 1163399006230 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1163399006231 GAF domain; Region: GAF; pfam01590 1163399006232 Phytochrome region; Region: PHY; pfam00360 1163399006233 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 1163399006234 dimer interface [polypeptide binding]; other site 1163399006235 phosphorylation site [posttranslational modification] 1163399006236 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 1163399006237 ATP binding site [chemical binding]; other site 1163399006238 Mg2+ binding site [ion binding]; other site 1163399006239 G-X-G motif; other site 1163399006240 TspO/MBR family; Region: TspO_MBR; pfam03073 1163399006241 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1163399006242 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399006243 Coenzyme A binding pocket [chemical binding]; other site 1163399006244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163399006245 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399006246 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 1163399006247 dimer interface [polypeptide binding]; other site 1163399006248 phosphorylation site [posttranslational modification] 1163399006249 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 1163399006250 ATP binding site [chemical binding]; other site 1163399006251 Mg2+ binding site [ion binding]; other site 1163399006252 G-X-G motif; other site 1163399006253 Replication initiation factor; Region: Rep_trans; pfam02486 1163399006254 Helix-destabilising protein; Region: Phage_DNA_bind; pfam02303 1163399006255 Zonular occludens toxin (Zot); Region: Zot; cl17485 1163399006256 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 1163399006257 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1163399006258 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 1163399006259 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1163399006260 metal-binding site 1163399006261 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1163399006262 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1163399006263 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1163399006264 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1163399006265 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1163399006266 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1163399006267 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1163399006268 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1163399006269 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 1163399006270 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1163399006271 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1163399006272 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 1163399006273 SnoaL-like domain; Region: SnoaL_2; pfam12680 1163399006274 putative transcriptional regulator; Provisional; Region: PRK11640 1163399006275 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399006276 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163399006277 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163399006278 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399006279 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1163399006280 GAF domain; Region: GAF; pfam01590 1163399006281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399006282 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 1163399006283 dimer interface [polypeptide binding]; other site 1163399006284 phosphorylation site [posttranslational modification] 1163399006285 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 1163399006286 ATP binding site [chemical binding]; other site 1163399006287 G-X-G motif; other site 1163399006288 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1163399006289 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1163399006290 conserved cys residue [active] 1163399006291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399006292 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1163399006293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399006294 NAD(P) binding site [chemical binding]; other site 1163399006295 active site 1163399006296 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399006297 Walker A/P-loop; other site 1163399006298 ATP binding site [chemical binding]; other site 1163399006299 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1163399006300 Q-loop/lid; other site 1163399006301 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1163399006302 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1163399006303 Low affinity iron permease; Region: Iron_permease; pfam04120 1163399006304 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1163399006305 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1163399006306 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 1163399006307 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1163399006308 [2Fe-2S] cluster binding site [ion binding]; other site 1163399006309 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1163399006310 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1163399006311 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1163399006312 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1163399006313 active site 1163399006314 DNA binding site [nucleotide binding] 1163399006315 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1163399006316 DNA binding site [nucleotide binding] 1163399006317 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1163399006318 nucleotide binding site [chemical binding]; other site 1163399006319 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 1163399006320 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 1163399006321 dimerization interface [polypeptide binding]; other site 1163399006322 metal binding site [ion binding]; metal-binding site 1163399006323 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1163399006324 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 1163399006325 putative DNA binding site [nucleotide binding]; other site 1163399006326 catalytic residue [active] 1163399006327 putative H2TH interface [polypeptide binding]; other site 1163399006328 putative catalytic residues [active] 1163399006329 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1163399006330 Protein of unknown function DUF72; Region: DUF72; pfam01904 1163399006331 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1163399006332 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1163399006333 dimanganese center [ion binding]; other site 1163399006334 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1163399006335 dinuclear metal binding motif [ion binding]; other site 1163399006336 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163399006337 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 1163399006338 active site 1163399006339 phosphorylation site [posttranslational modification] 1163399006340 intermolecular recognition site; other site 1163399006341 dimerization interface [polypeptide binding]; other site 1163399006342 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1163399006343 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1163399006344 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1163399006345 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1163399006346 active site 1163399006347 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 1163399006348 S-adenosylmethionine binding site [chemical binding]; other site 1163399006349 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1163399006350 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1163399006351 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1163399006352 NAD binding site [chemical binding]; other site 1163399006353 catalytic Zn binding site [ion binding]; other site 1163399006354 structural Zn binding site [ion binding]; other site 1163399006355 Isochorismatase family; Region: Isochorismatase; pfam00857 1163399006356 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 1163399006357 catalytic triad [active] 1163399006358 conserved cis-peptide bond; other site 1163399006359 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1163399006360 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1163399006361 DNA binding site [nucleotide binding] 1163399006362 domain linker motif; other site 1163399006363 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_4; cd06280 1163399006364 putative dimerization interface [polypeptide binding]; other site 1163399006365 putative ligand binding site [chemical binding]; other site 1163399006366 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 1163399006367 active site 1163399006368 phosphorylation site [posttranslational modification] 1163399006369 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 1163399006370 dimerization domain swap beta strand [polypeptide binding]; other site 1163399006371 regulatory protein interface [polypeptide binding]; other site 1163399006372 active site 1163399006373 regulatory phosphorylation site [posttranslational modification]; other site 1163399006374 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1163399006375 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1163399006376 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1163399006377 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1163399006378 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1163399006379 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 1163399006380 putative substrate binding site [chemical binding]; other site 1163399006381 putative ATP binding site [chemical binding]; other site 1163399006382 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 1163399006383 active site 1163399006384 P-loop; other site 1163399006385 phosphorylation site [posttranslational modification] 1163399006386 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1163399006387 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1163399006388 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1163399006389 active site 1163399006390 catalytic residues [active] 1163399006391 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 1163399006392 substrate binding site [chemical binding]; other site 1163399006393 active site 1163399006394 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1163399006395 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1163399006396 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1163399006397 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1163399006398 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 1163399006399 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1163399006400 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1163399006401 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1163399006402 inhibitor binding site; inhibition site 1163399006403 active site 1163399006404 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1163399006405 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1163399006406 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1163399006407 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 1163399006408 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 1163399006409 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 1163399006410 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1163399006411 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1163399006412 DNA binding site [nucleotide binding] 1163399006413 domain linker motif; other site 1163399006414 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 1163399006415 putative dimerization interface [polypeptide binding]; other site 1163399006416 putative ligand binding site [chemical binding]; other site 1163399006417 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1163399006418 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1163399006419 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1163399006420 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1163399006421 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399006422 putative substrate translocation pore; other site 1163399006423 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399006424 xylose isomerase; Provisional; Region: PRK05474 1163399006425 xylose isomerase; Region: xylose_isom_A; TIGR02630 1163399006426 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 1163399006427 N- and C-terminal domain interface [polypeptide binding]; other site 1163399006428 active site 1163399006429 MgATP binding site [chemical binding]; other site 1163399006430 catalytic site [active] 1163399006431 metal binding site [ion binding]; metal-binding site 1163399006432 xylulose binding site [chemical binding]; other site 1163399006433 putative homodimer interface [polypeptide binding]; other site 1163399006434 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1163399006435 Cupin-like domain; Region: Cupin_8; pfam13621 1163399006436 SapC; Region: SapC; pfam07277 1163399006437 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 1163399006438 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 1163399006439 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 1163399006440 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163399006441 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163399006442 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1163399006443 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 1163399006444 transmembrane helices; other site 1163399006445 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1163399006446 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1163399006447 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1163399006448 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 1163399006449 dimer interface [polypeptide binding]; other site 1163399006450 conserved gate region; other site 1163399006451 putative PBP binding loops; other site 1163399006452 ABC-ATPase subunit interface; other site 1163399006453 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1163399006454 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1163399006455 Walker A/P-loop; other site 1163399006456 ATP binding site [chemical binding]; other site 1163399006457 Q-loop/lid; other site 1163399006458 ABC transporter signature motif; other site 1163399006459 Walker B; other site 1163399006460 D-loop; other site 1163399006461 H-loop/switch region; other site 1163399006462 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1163399006463 NMT1/THI5 like; Region: NMT1; pfam09084 1163399006464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1163399006465 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399006466 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399006467 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 1163399006468 putative dimerization interface [polypeptide binding]; other site 1163399006469 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163399006470 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163399006471 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; cl00246 1163399006472 FAD binding site [chemical binding]; other site 1163399006473 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1163399006474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399006475 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 1163399006476 putative dimerization interface [polypeptide binding]; other site 1163399006477 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 1163399006478 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163399006479 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1163399006480 methionine synthase; Provisional; Region: PRK01207 1163399006481 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 1163399006482 substrate binding site [chemical binding]; other site 1163399006483 THF binding site; other site 1163399006484 zinc-binding site [ion binding]; other site 1163399006485 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1163399006486 active site 1163399006487 substrate binding sites [chemical binding]; other site 1163399006488 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 1163399006489 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399006490 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 1163399006491 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 1163399006492 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1163399006493 active site 1163399006494 substrate binding site [chemical binding]; other site 1163399006495 Mg2+ binding site [ion binding]; other site 1163399006496 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1163399006497 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1163399006498 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399006499 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_16; cd07263 1163399006500 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399006501 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163399006502 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399006503 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1163399006504 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399006505 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 1163399006506 dimerization interface [polypeptide binding]; other site 1163399006507 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163399006508 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163399006509 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 1163399006510 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 1163399006511 Walker A motif; other site 1163399006512 ATP binding site [chemical binding]; other site 1163399006513 Walker B motif; other site 1163399006514 arginine finger; other site 1163399006515 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163399006516 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 1163399006517 putative active site [active] 1163399006518 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1163399006519 Killing trait; Region: RebB; pfam11747 1163399006520 Killing trait; Region: RebB; pfam11747 1163399006521 Killing trait; Region: RebB; pfam11747 1163399006522 Killing trait; Region: RebB; pfam11747 1163399006523 Killing trait; Region: RebB; pfam11747 1163399006524 Killing trait; Region: RebB; pfam11747 1163399006525 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1163399006526 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 1163399006527 Walker A motif; other site 1163399006528 ATP binding site [chemical binding]; other site 1163399006529 Walker B motif; other site 1163399006530 arginine finger; other site 1163399006531 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1163399006532 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399006533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399006534 Interferon-induced transmembrane protein; Region: CD225; pfam04505 1163399006535 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1163399006536 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1163399006537 Protease inhibitor Inh; Region: Inh; pfam02974 1163399006538 Cation efflux family; Region: Cation_efflux; pfam01545 1163399006539 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1163399006540 active site 1163399006541 DNA binding site [nucleotide binding] 1163399006542 GAF domain; Region: GAF; pfam01590 1163399006543 GAF domain; Region: GAF_2; pfam13185 1163399006544 PAS domain S-box; Region: sensory_box; TIGR00229 1163399006545 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 1163399006546 putative active site [active] 1163399006547 heme pocket [chemical binding]; other site 1163399006548 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399006549 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399006550 metal binding site [ion binding]; metal-binding site 1163399006551 active site 1163399006552 I-site; other site 1163399006553 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 1163399006554 putative catalytic site [active] 1163399006555 putative phosphate binding site [ion binding]; other site 1163399006556 active site 1163399006557 metal binding site A [ion binding]; metal-binding site 1163399006558 DNA binding site [nucleotide binding] 1163399006559 putative AP binding site [nucleotide binding]; other site 1163399006560 putative metal binding site B [ion binding]; other site 1163399006561 trehalose synthase; Region: treS_nterm; TIGR02456 1163399006562 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1163399006563 active site 1163399006564 catalytic site [active] 1163399006565 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1163399006566 probable non-F420 flavinoid oxidoreductase; Region: flavin_revert; TIGR03885 1163399006567 Anabaena sensory rhodopsin transducer; Region: ASRT; pfam07100 1163399006568 short chain dehydrogenase; Provisional; Region: PRK06701 1163399006569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399006570 NAD(P) binding site [chemical binding]; other site 1163399006571 active site 1163399006572 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1163399006573 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163399006574 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1163399006575 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163399006576 Walker A/P-loop; other site 1163399006577 ATP binding site [chemical binding]; other site 1163399006578 Q-loop/lid; other site 1163399006579 ABC transporter signature motif; other site 1163399006580 Walker B; other site 1163399006581 D-loop; other site 1163399006582 H-loop/switch region; other site 1163399006583 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163399006584 FtsX-like permease family; Region: FtsX; pfam02687 1163399006585 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1163399006586 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399006587 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399006588 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399006589 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 1163399006590 active site 1163399006591 phosphorylation site [posttranslational modification] 1163399006592 intermolecular recognition site; other site 1163399006593 dimerization interface [polypeptide binding]; other site 1163399006594 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 1163399006595 DNA binding site [nucleotide binding] 1163399006596 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399006597 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 1163399006598 dimerization interface [polypeptide binding]; other site 1163399006599 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 1163399006600 dimer interface [polypeptide binding]; other site 1163399006601 phosphorylation site [posttranslational modification] 1163399006602 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 1163399006603 ATP binding site [chemical binding]; other site 1163399006604 Mg2+ binding site [ion binding]; other site 1163399006605 G-X-G motif; other site 1163399006606 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1163399006607 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 1163399006608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1163399006609 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1163399006610 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399006611 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1163399006612 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 1163399006613 N-terminal plug; other site 1163399006614 ligand-binding site [chemical binding]; other site 1163399006615 conjugal transfer protein TrbP; Provisional; Region: PRK13882 1163399006616 TraX protein; Region: TraX; pfam05857 1163399006617 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1163399006618 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1163399006619 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 1163399006620 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1163399006621 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 1163399006622 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1163399006623 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163399006624 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1163399006625 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1163399006626 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1163399006627 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1163399006628 MgtC family; Region: MgtC; pfam02308 1163399006629 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 1163399006630 dimer interface [polypeptide binding]; other site 1163399006631 phosphorylation site [posttranslational modification] 1163399006632 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 1163399006633 ATP binding site [chemical binding]; other site 1163399006634 Mg2+ binding site [ion binding]; other site 1163399006635 G-X-G motif; other site 1163399006636 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1163399006637 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 1163399006638 active site 1163399006639 phosphorylation site [posttranslational modification] 1163399006640 intermolecular recognition site; other site 1163399006641 dimerization interface [polypeptide binding]; other site 1163399006642 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 1163399006643 DNA binding residues [nucleotide binding] 1163399006644 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 1163399006645 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 1163399006646 Predicted membrane protein [Function unknown]; Region: COG2510 1163399006647 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1163399006648 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1163399006649 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1163399006650 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1163399006651 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1163399006652 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 1163399006653 putative molybdopterin cofactor binding site [chemical binding]; other site 1163399006654 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 1163399006655 putative molybdopterin cofactor binding site; other site 1163399006656 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 1163399006657 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1163399006658 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1163399006659 Cupin; Region: Cupin_6; pfam12852 1163399006660 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399006661 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163399006662 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399006663 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1163399006664 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399006665 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1163399006666 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399006667 putative substrate translocation pore; other site 1163399006668 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1163399006669 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1163399006670 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163399006671 FtsX-like permease family; Region: FtsX; pfam02687 1163399006672 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163399006673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399006674 Walker A/P-loop; other site 1163399006675 ATP binding site [chemical binding]; other site 1163399006676 Q-loop/lid; other site 1163399006677 ABC transporter signature motif; other site 1163399006678 Walker B; other site 1163399006679 D-loop; other site 1163399006680 H-loop/switch region; other site 1163399006681 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1163399006682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399006683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399006684 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 1163399006685 putative effector binding pocket; other site 1163399006686 dimerization interface [polypeptide binding]; other site 1163399006687 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 1163399006688 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1163399006689 active site 1163399006690 catalytic tetrad [active] 1163399006691 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1163399006692 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1163399006693 Putative cyclase; Region: Cyclase; pfam04199 1163399006694 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 1163399006695 CopC domain; Region: CopC; pfam04234 1163399006696 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1163399006697 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 1163399006698 active site 1163399006699 phosphorylation site [posttranslational modification] 1163399006700 intermolecular recognition site; other site 1163399006701 dimerization interface [polypeptide binding]; other site 1163399006702 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 1163399006703 DNA binding site [nucleotide binding] 1163399006704 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1163399006705 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 1163399006706 dimer interface [polypeptide binding]; other site 1163399006707 phosphorylation site [posttranslational modification] 1163399006708 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 1163399006709 ATP binding site [chemical binding]; other site 1163399006710 Mg2+ binding site [ion binding]; other site 1163399006711 G-X-G motif; other site 1163399006712 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399006713 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399006714 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 1163399006715 dimerization interface [polypeptide binding]; other site 1163399006716 short chain dehydrogenase; Provisional; Region: PRK12937 1163399006717 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1163399006718 NADP binding site [chemical binding]; other site 1163399006719 homodimer interface [polypeptide binding]; other site 1163399006720 active site 1163399006721 substrate binding site [chemical binding]; other site 1163399006722 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1163399006723 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399006724 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399006725 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399006726 Outer membrane efflux protein; Region: OEP; pfam02321 1163399006727 Outer membrane efflux protein; Region: OEP; pfam02321 1163399006728 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1163399006729 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 1163399006730 active site 1163399006731 phosphorylation site [posttranslational modification] 1163399006732 intermolecular recognition site; other site 1163399006733 dimerization interface [polypeptide binding]; other site 1163399006734 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 1163399006735 DNA binding site [nucleotide binding] 1163399006736 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1163399006737 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399006738 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 1163399006739 dimer interface [polypeptide binding]; other site 1163399006740 phosphorylation site [posttranslational modification] 1163399006741 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 1163399006742 ATP binding site [chemical binding]; other site 1163399006743 Mg2+ binding site [ion binding]; other site 1163399006744 G-X-G motif; other site 1163399006745 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1163399006746 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1163399006747 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 1163399006748 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163399006749 catalytic residues [active] 1163399006750 Protein required for attachment to host cells; Region: Host_attach; pfam10116 1163399006751 proline/glycine betaine transporter; Provisional; Region: PRK10642 1163399006752 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399006753 putative substrate translocation pore; other site 1163399006754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1163399006755 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1163399006756 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 1163399006757 PAS domain; Region: PAS_9; pfam13426 1163399006758 putative active site [active] 1163399006759 heme pocket [chemical binding]; other site 1163399006760 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1163399006761 HWE histidine kinase; Region: HWE_HK; pfam07536 1163399006762 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163399006763 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 1163399006764 active site 1163399006765 phosphorylation site [posttranslational modification] 1163399006766 intermolecular recognition site; other site 1163399006767 dimerization interface [polypeptide binding]; other site 1163399006769 Secretin and TonB N terminus short domain; Region: STN; smart00965 1163399006770 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1163399006771 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 1163399006772 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 1163399006773 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1163399006774 FecR protein; Region: FecR; pfam04773 1163399006775 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1163399006776 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 1163399006777 DNA binding residues [nucleotide binding] 1163399006778 LysR family transcriptional regulator; Provisional; Region: PRK14997 1163399006779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399006780 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_4; cd08473 1163399006781 putative effector binding pocket; other site 1163399006782 putative dimerization interface [polypeptide binding]; other site 1163399006783 Pirin-related protein [General function prediction only]; Region: COG1741 1163399006784 Pirin; Region: Pirin; pfam02678 1163399006785 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1163399006786 Isochorismatase family; Region: Isochorismatase; pfam00857 1163399006787 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1163399006788 catalytic triad [active] 1163399006789 dimer interface [polypeptide binding]; other site 1163399006790 conserved cis-peptide bond; other site 1163399006791 OsmC-like protein; Region: OsmC; pfam02566 1163399006792 TonB C terminal; Region: TonB_2; pfam13103 1163399006793 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1163399006794 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163399006795 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 1163399006796 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1163399006797 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1163399006798 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1163399006799 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1163399006800 Surface antigen; Region: Bac_surface_Ag; pfam01103 1163399006801 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1163399006802 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1163399006803 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 1163399006804 Type II transport protein GspH; Region: GspH; pfam12019 1163399006805 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1163399006806 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1163399006807 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 1163399006808 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 1163399006809 PBP superfamily domain; Region: PBP_like_2; pfam12849 1163399006810 type II secretion system protein F; Region: GspF; TIGR02120 1163399006811 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163399006812 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163399006813 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1163399006814 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 1163399006815 Walker A motif; other site 1163399006816 ATP binding site [chemical binding]; other site 1163399006817 Walker B motif; other site 1163399006818 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1163399006819 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163399006820 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163399006821 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163399006822 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1163399006823 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 1163399006824 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1163399006825 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1163399006826 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1163399006827 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1163399006828 FecR protein; Region: FecR; pfam04773 1163399006829 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1163399006830 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399006831 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1163399006832 Secretin and TonB N terminus short domain; Region: STN; smart00965 1163399006833 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1163399006834 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1163399006835 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 1163399006836 putative DNA binding site [nucleotide binding]; other site 1163399006837 putative Zn2+ binding site [ion binding]; other site 1163399006838 AsnC family; Region: AsnC_trans_reg; pfam01037 1163399006839 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1163399006840 Predicted membrane protein [Function unknown]; Region: COG4541 1163399006841 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1163399006842 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 1163399006843 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1163399006844 active site 1163399006845 catalytic site [active] 1163399006846 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1163399006847 malto-oligosyltrehalose synthase; Region: trehalose_TreY; TIGR02401 1163399006848 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1163399006849 active site 1163399006850 catalytic site [active] 1163399006851 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1163399006852 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1163399006853 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1163399006854 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1163399006855 catalytic site [active] 1163399006856 active site 1163399006857 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1163399006858 glycogen branching enzyme; Provisional; Region: PRK12568 1163399006859 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1163399006860 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1163399006861 active site 1163399006862 catalytic site [active] 1163399006863 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1163399006864 glycogen synthase; Provisional; Region: glgA; PRK00654 1163399006865 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 1163399006866 ADP-binding pocket [chemical binding]; other site 1163399006867 homodimer interface [polypeptide binding]; other site 1163399006868 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 1163399006869 PAS domain; Region: PAS_9; pfam13426 1163399006870 putative active site [active] 1163399006871 heme pocket [chemical binding]; other site 1163399006872 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1163399006873 Flavodoxin; Region: Flavodoxin_1; pfam00258 1163399006874 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1163399006875 FAD binding pocket [chemical binding]; other site 1163399006876 conserved FAD binding motif [chemical binding]; other site 1163399006877 phosphate binding motif [ion binding]; other site 1163399006878 beta-alpha-beta structure motif; other site 1163399006879 NAD binding pocket [chemical binding]; other site 1163399006880 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399006881 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1163399006882 Walker A/P-loop; other site 1163399006883 ATP binding site [chemical binding]; other site 1163399006884 Q-loop/lid; other site 1163399006885 ABC transporter signature motif; other site 1163399006886 Walker B; other site 1163399006887 D-loop; other site 1163399006888 H-loop/switch region; other site 1163399006889 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1163399006890 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 1163399006891 dimer interface [polypeptide binding]; other site 1163399006892 conserved gate region; other site 1163399006893 putative PBP binding loops; other site 1163399006894 ABC-ATPase subunit interface; other site 1163399006895 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1163399006896 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1163399006897 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 1163399006898 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 1163399006899 ligand binding site [chemical binding]; other site 1163399006900 flexible hinge region; other site 1163399006901 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 1163399006902 putative switch regulator; other site 1163399006903 non-specific DNA interactions [nucleotide binding]; other site 1163399006904 DNA binding site [nucleotide binding] 1163399006905 sequence specific DNA binding site [nucleotide binding]; other site 1163399006906 putative cAMP binding site [chemical binding]; other site 1163399006907 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1163399006908 GTP binding site; other site 1163399006909 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 1163399006910 MoaE homodimer interface [polypeptide binding]; other site 1163399006911 MoaD interaction [polypeptide binding]; other site 1163399006912 active site residues [active] 1163399006913 Ubiquitin-like proteins; Region: UBQ; cl00155 1163399006914 charged pocket; other site 1163399006915 hydrophobic patch; other site 1163399006916 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1163399006917 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 1163399006918 dimer interface [polypeptide binding]; other site 1163399006919 putative functional site; other site 1163399006920 putative MPT binding site; other site 1163399006921 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 1163399006922 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 1163399006923 trimer interface [polypeptide binding]; other site 1163399006924 dimer interface [polypeptide binding]; other site 1163399006925 putative active site [active] 1163399006926 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 1163399006927 MPT binding site; other site 1163399006928 trimer interface [polypeptide binding]; other site 1163399006929 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1163399006930 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 1163399006931 FeS/SAM binding site; other site 1163399006932 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1163399006933 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1163399006934 RHS Repeat; Region: RHS_repeat; pfam05593 1163399006935 RHS Repeat; Region: RHS_repeat; pfam05593 1163399006936 RHS Repeat; Region: RHS_repeat; cl11982 1163399006937 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1163399006938 RHS Repeat; Region: RHS_repeat; pfam05593 1163399006939 RHS Repeat; Region: RHS_repeat; cl11982 1163399006940 RHS Repeat; Region: RHS_repeat; pfam05593 1163399006941 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1163399006942 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399006943 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1163399006944 catalytic site [active] 1163399006945 Helix-turn-helix domain; Region: HTH_18; pfam12833 1163399006946 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399006947 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1163399006948 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1163399006949 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1163399006950 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399006951 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399006952 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1163399006953 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 1163399006954 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 1163399006955 SnoaL-like domain; Region: SnoaL_3; pfam13474 1163399006956 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399006957 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 1163399006958 active site 1163399006959 phosphorylation site [posttranslational modification] 1163399006960 intermolecular recognition site; other site 1163399006961 dimerization interface [polypeptide binding]; other site 1163399006962 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 1163399006963 DNA binding site [nucleotide binding] 1163399006964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399006965 HAMP domain; Region: HAMP; pfam00672 1163399006966 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 1163399006967 dimer interface [polypeptide binding]; other site 1163399006968 phosphorylation site [posttranslational modification] 1163399006969 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 1163399006970 ATP binding site [chemical binding]; other site 1163399006971 Mg2+ binding site [ion binding]; other site 1163399006972 G-X-G motif; other site 1163399006973 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1163399006974 putative metal dependent hydrolase; Provisional; Region: PRK11598 1163399006975 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1163399006976 Sulfatase; Region: Sulfatase; pfam00884 1163399006977 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 1163399006978 hypothetical protein; Provisional; Region: PRK09040 1163399006979 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163399006980 ligand binding site [chemical binding]; other site 1163399006981 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 1163399006982 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1163399006983 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399006984 NAD(P) binding site [chemical binding]; other site 1163399006985 active site 1163399006986 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1163399006987 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1163399006988 acyl-activating enzyme (AAE) consensus motif; other site 1163399006989 AMP binding site [chemical binding]; other site 1163399006990 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1163399006991 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1163399006992 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; cl00220 1163399006993 Isochorismatase family; Region: Isochorismatase; pfam00857 1163399006994 catalytic triad [active] 1163399006995 conserved cis-peptide bond; other site 1163399006996 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 1163399006997 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1163399006998 acyl-activating enzyme (AAE) consensus motif; other site 1163399006999 active site 1163399007000 AMP binding site [chemical binding]; other site 1163399007001 substrate binding site [chemical binding]; other site 1163399007002 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1163399007003 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163399007004 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399007005 putative substrate translocation pore; other site 1163399007006 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 1163399007007 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1163399007008 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1163399007009 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1163399007010 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399007011 Coenzyme A binding pocket [chemical binding]; other site 1163399007012 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 1163399007013 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163399007014 catalytic residues [active] 1163399007015 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1163399007016 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1163399007017 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1163399007018 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1163399007019 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1163399007020 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1163399007021 putative di-iron ligands [ion binding]; other site 1163399007022 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_2; cd06216 1163399007023 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1163399007024 FAD binding pocket [chemical binding]; other site 1163399007025 FAD binding motif [chemical binding]; other site 1163399007026 phosphate binding motif [ion binding]; other site 1163399007027 beta-alpha-beta structure motif; other site 1163399007028 NAD binding pocket [chemical binding]; other site 1163399007029 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 1163399007030 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1163399007031 catalytic loop [active] 1163399007032 iron binding site [ion binding]; other site 1163399007033 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1163399007034 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399007035 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1163399007036 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 1163399007037 N-terminal plug; other site 1163399007038 ligand-binding site [chemical binding]; other site 1163399007039 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163399007040 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163399007041 manganese transport regulator MntR; Provisional; Region: PRK11050 1163399007042 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1163399007043 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1163399007044 manganese transport protein MntH; Reviewed; Region: PRK00701 1163399007045 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1163399007046 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 1163399007047 catalytic residues [active] 1163399007048 flavodoxin; Provisional; Region: PRK09271 1163399007049 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1163399007050 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1163399007051 dimer interface [polypeptide binding]; other site 1163399007052 putative radical transfer pathway; other site 1163399007053 diiron center [ion binding]; other site 1163399007054 tyrosyl radical; other site 1163399007055 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 1163399007056 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1163399007057 active site 1163399007058 dimer interface [polypeptide binding]; other site 1163399007059 catalytic residues [active] 1163399007060 effector binding site; other site 1163399007061 R2 peptide binding site; other site 1163399007062 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1163399007063 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 1163399007064 putative NAD(P) binding site [chemical binding]; other site 1163399007065 putative dimer interface [polypeptide binding]; other site 1163399007066 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 1163399007067 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 1163399007068 BCCT family transporter; Region: BCCT; cl00569 1163399007069 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_19; cd07262 1163399007070 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399007071 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1163399007072 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1163399007073 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399007074 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399007075 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 1163399007076 dimerization interface [polypeptide binding]; other site 1163399007077 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 1163399007078 putative active site [active] 1163399007079 Zn binding site [ion binding]; other site 1163399007080 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1163399007081 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 1163399007082 N-terminal plug; other site 1163399007083 ligand-binding site [chemical binding]; other site 1163399007084 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 1163399007085 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1163399007086 Cl- selectivity filter; other site 1163399007087 Cl- binding residues [ion binding]; other site 1163399007088 pore gating glutamate residue; other site 1163399007089 dimer interface [polypeptide binding]; other site 1163399007090 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; cl15354 1163399007091 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1163399007092 MgtC family; Region: MgtC; pfam02308 1163399007093 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1163399007094 DNA binding residues [nucleotide binding] 1163399007095 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1163399007096 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 1163399007097 S-adenosylmethionine binding site [chemical binding]; other site 1163399007098 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1163399007099 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1163399007100 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163399007101 ligand binding site [chemical binding]; other site 1163399007102 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1163399007103 Haemagglutinin; Region: HIM; pfam05662 1163399007104 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1163399007105 Haemagglutinin; Region: HIM; pfam05662 1163399007106 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1163399007107 YadA-like C-terminal region; Region: YadA; pfam03895 1163399007108 Helix-turn-helix domain; Region: HTH_18; pfam12833 1163399007109 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399007110 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1163399007111 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1163399007112 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1163399007113 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1163399007114 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1163399007115 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1163399007116 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1163399007117 AAA domain; Region: AAA_31; pfam13614 1163399007118 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 1163399007119 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1163399007120 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1163399007121 ATP binding site [chemical binding]; other site 1163399007122 Walker A motif; other site 1163399007123 hexamer interface [polypeptide binding]; other site 1163399007124 Walker B motif; other site 1163399007125 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1163399007126 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163399007127 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163399007128 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 1163399007129 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 1163399007130 TPR motif; other site 1163399007131 binding surface 1163399007132 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 1163399007133 Predicted membrane protein [Function unknown]; Region: COG4655 1163399007134 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1163399007135 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1163399007136 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163399007137 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163399007138 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399007139 Transmembrane secretion effector; Region: MFS_3; pfam05977 1163399007140 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399007141 putative substrate translocation pore; other site 1163399007142 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1163399007143 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1163399007144 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1163399007145 active site 1163399007146 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1163399007147 Isochorismatase family; Region: Isochorismatase; pfam00857 1163399007148 catalytic triad [active] 1163399007149 dimer interface [polypeptide binding]; other site 1163399007150 conserved cis-peptide bond; other site 1163399007151 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399007152 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163399007153 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399007154 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1163399007155 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1163399007156 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1163399007157 Histidine kinase; Region: HisKA_3; pfam07730 1163399007158 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 1163399007159 ATP binding site [chemical binding]; other site 1163399007160 Mg2+ binding site [ion binding]; other site 1163399007161 G-X-G motif; other site 1163399007162 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399007163 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 1163399007164 active site 1163399007165 phosphorylation site [posttranslational modification] 1163399007166 intermolecular recognition site; other site 1163399007167 dimerization interface [polypeptide binding]; other site 1163399007168 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 1163399007169 DNA binding residues [nucleotide binding] 1163399007170 dimerization interface [polypeptide binding]; other site 1163399007171 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1163399007172 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399007173 putative substrate translocation pore; other site 1163399007174 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399007175 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399007176 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 1163399007177 putative effector binding pocket; other site 1163399007178 dimerization interface [polypeptide binding]; other site 1163399007179 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1163399007180 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 1163399007181 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 1163399007182 active site 1163399007183 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 1163399007184 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1163399007185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399007186 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 1163399007187 dimerization interface [polypeptide binding]; other site 1163399007188 Domain of unknown function (DUF3806); Region: DUF3806; pfam12713 1163399007189 cytosine deaminase; Provisional; Region: PRK05985 1163399007190 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 1163399007191 active site 1163399007192 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1163399007193 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399007194 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 1163399007195 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1163399007196 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163399007197 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 1163399007198 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1163399007199 D-lactate dehydrogenase; Provisional; Region: PRK11183 1163399007200 FAD binding domain; Region: FAD_binding_4; pfam01565 1163399007201 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1163399007202 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1163399007203 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 1163399007204 phosphate binding site [ion binding]; other site 1163399007205 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 1163399007206 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163399007207 DNA-binding site [nucleotide binding]; DNA binding site 1163399007208 FCD domain; Region: FCD; pfam07729 1163399007209 L-lactate permease; Provisional; Region: PRK10420 1163399007210 glycolate transporter; Provisional; Region: PRK09695 1163399007211 MgtC family; Region: MgtC; pfam02308 1163399007212 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1163399007213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399007214 NAD(P) binding site [chemical binding]; other site 1163399007215 active site 1163399007216 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163399007217 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399007218 Predicted acyl esterases [General function prediction only]; Region: COG2936 1163399007219 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1163399007220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 1163399007221 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1163399007222 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399007223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399007224 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 1163399007225 putative effector binding pocket; other site 1163399007226 dimerization interface [polypeptide binding]; other site 1163399007227 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1163399007228 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1163399007229 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1163399007230 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399007231 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1163399007232 active site 1163399007233 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1163399007234 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1163399007235 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1163399007236 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399007237 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399007238 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 1163399007239 putative effector binding pocket; other site 1163399007240 dimerization interface [polypeptide binding]; other site 1163399007241 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163399007242 Putative cyclase; Region: Cyclase; pfam04199 1163399007243 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1163399007244 DNA Polymerase Y-family; Region: PolY_like; cd03468 1163399007245 active site 1163399007246 DNA binding site [nucleotide binding] 1163399007247 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1163399007248 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1163399007249 putative active site [active] 1163399007250 putative PHP Thumb interface [polypeptide binding]; other site 1163399007251 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 1163399007252 generic binding surface II; other site 1163399007253 generic binding surface I; other site 1163399007254 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 1163399007255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399007256 homodimer interface [polypeptide binding]; other site 1163399007257 catalytic residue [active] 1163399007258 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1163399007259 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163399007260 catalytic residue [active] 1163399007261 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1163399007262 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1163399007263 catalytic triad [active] 1163399007264 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1163399007265 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399007266 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 1163399007267 DNA binding residues [nucleotide binding] 1163399007268 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1163399007269 FecR protein; Region: FecR; pfam04773 1163399007270 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 1163399007271 N-terminal plug; other site 1163399007272 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1163399007273 ligand-binding site [chemical binding]; other site 1163399007274 Protein of unknown function, DUF399; Region: DUF399; cl01139 1163399007275 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1163399007276 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 1163399007277 homotrimer interaction site [polypeptide binding]; other site 1163399007278 putative active site [active] 1163399007279 Cation efflux family; Region: Cation_efflux; cl00316 1163399007280 arginine decarboxylase; Provisional; Region: PRK15029 1163399007281 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1163399007282 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 1163399007283 homodimer interface [polypeptide binding]; other site 1163399007284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399007285 catalytic residue [active] 1163399007286 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1163399007287 arginine:agmatin antiporter; Provisional; Region: PRK10644 1163399007288 Porin subfamily; Region: Porin_2; pfam02530 1163399007289 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1163399007290 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 1163399007291 dimer interface [polypeptide binding]; other site 1163399007292 catalytic residues [active] 1163399007293 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1163399007294 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1163399007295 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163399007296 catalytic residues [active] 1163399007297 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1163399007298 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1163399007299 conserved cys residue [active] 1163399007300 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399007301 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1163399007302 DNA binding residues [nucleotide binding] 1163399007303 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 1163399007304 dimer interface [polypeptide binding]; other site 1163399007305 metal binding site [ion binding]; metal-binding site 1163399007306 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399007307 Coenzyme A binding pocket [chemical binding]; other site 1163399007308 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163399007309 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1163399007310 response regulator; Provisional; Region: PRK13435 1163399007311 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 1163399007312 phosphorylation site [posttranslational modification] 1163399007313 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399007314 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399007315 metal binding site [ion binding]; metal-binding site 1163399007316 active site 1163399007317 I-site; other site 1163399007318 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 1163399007319 PAS domain; Region: PAS_9; pfam13426 1163399007320 putative active site [active] 1163399007321 heme pocket [chemical binding]; other site 1163399007322 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 1163399007323 PAS domain; Region: PAS_9; pfam13426 1163399007324 putative active site [active] 1163399007325 heme pocket [chemical binding]; other site 1163399007326 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399007327 dimer interface [polypeptide binding]; other site 1163399007328 putative CheW interface [polypeptide binding]; other site 1163399007329 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1163399007330 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 1163399007331 PAS fold; Region: PAS_3; pfam08447 1163399007332 putative active site [active] 1163399007333 heme pocket [chemical binding]; other site 1163399007334 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 1163399007335 PAS domain; Region: PAS_9; pfam13426 1163399007336 putative active site [active] 1163399007337 heme pocket [chemical binding]; other site 1163399007338 PAS domain S-box; Region: sensory_box; TIGR00229 1163399007339 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 1163399007340 putative active site [active] 1163399007341 heme pocket [chemical binding]; other site 1163399007342 PAS fold; Region: PAS_4; pfam08448 1163399007343 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 1163399007344 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399007345 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399007346 metal binding site [ion binding]; metal-binding site 1163399007347 active site 1163399007348 I-site; other site 1163399007349 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1163399007350 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1163399007351 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1163399007352 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 1163399007353 RNA binding site [nucleotide binding]; other site 1163399007354 PspC domain; Region: PspC; pfam04024 1163399007355 hypothetical protein; Provisional; Region: PRK10318 1163399007356 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 1163399007357 Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E); Region: PHA_synth_III_E; pfam09712 1163399007358 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1163399007359 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1163399007360 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1163399007361 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1163399007362 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 1163399007363 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 1163399007364 putative active site [active] 1163399007365 nucleotide binding site [chemical binding]; other site 1163399007366 nudix motif; other site 1163399007367 putative metal binding site [ion binding]; other site 1163399007368 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 1163399007369 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1163399007370 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1163399007371 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1163399007372 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 1163399007373 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1163399007374 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163399007375 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 1163399007376 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1163399007377 FMN binding site [chemical binding]; other site 1163399007378 active site 1163399007379 substrate binding site [chemical binding]; other site 1163399007380 catalytic residue [active] 1163399007381 EcsC protein family; Region: EcsC; pfam12787 1163399007382 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1163399007383 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1163399007384 catalytic site [active] 1163399007385 putative active site [active] 1163399007386 putative substrate binding site [chemical binding]; other site 1163399007387 dimer interface [polypeptide binding]; other site 1163399007388 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 1163399007389 nucleoside/Zn binding site; other site 1163399007390 dimer interface [polypeptide binding]; other site 1163399007391 catalytic motif [active] 1163399007392 Predicted transcriptional regulators [Transcription]; Region: COG1733 1163399007393 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1163399007394 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1163399007395 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163399007396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163399007397 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1163399007398 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399007399 Coenzyme A binding pocket [chemical binding]; other site 1163399007400 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 1163399007401 nucleophilic elbow; other site 1163399007402 catalytic triad; other site 1163399007403 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1163399007404 catalytic residue [active] 1163399007406 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1163399007407 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1163399007408 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1163399007409 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1163399007410 TrbC/VIRB2 family; Region: TrbC; cl01583 1163399007411 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 1163399007412 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163399007413 catalytic residue [active] 1163399007414 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1163399007415 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1163399007416 Walker A motif; other site 1163399007417 hexamer interface [polypeptide binding]; other site 1163399007418 ATP binding site [chemical binding]; other site 1163399007419 Walker B motif; other site 1163399007420 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1163399007421 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1163399007422 VirB7 interaction site; other site 1163399007423 VirB8 protein; Region: VirB8; pfam04335 1163399007424 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1163399007425 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 1163399007426 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 1163399007427 Walker A motif; other site 1163399007428 ATP binding site [chemical binding]; other site 1163399007429 Walker B motif; other site 1163399007430 HD domain; Region: HD_4; pfam13328 1163399007431 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1163399007432 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399007433 putative substrate translocation pore; other site 1163399007434 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1163399007435 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1163399007436 DNA binding residues [nucleotide binding] 1163399007437 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1163399007438 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 1163399007439 putative active site [active] 1163399007440 putative FMN binding site [chemical binding]; other site 1163399007441 putative substrate binding site [chemical binding]; other site 1163399007442 putative catalytic residue [active] 1163399007443 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1163399007444 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 1163399007445 dimer interface [polypeptide binding]; other site 1163399007446 phosphorylation site [posttranslational modification] 1163399007447 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 1163399007448 ATP binding site [chemical binding]; other site 1163399007449 Mg2+ binding site [ion binding]; other site 1163399007450 G-X-G motif; other site 1163399007451 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 1163399007452 active site 1163399007453 phosphorylation site [posttranslational modification] 1163399007454 intermolecular recognition site; other site 1163399007455 dimerization interface [polypeptide binding]; other site 1163399007456 hypothetical protein; Provisional; Region: PRK06834 1163399007457 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1163399007458 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399007459 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399007460 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1163399007461 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 1163399007462 N-terminal plug; other site 1163399007463 ligand-binding site [chemical binding]; other site 1163399007464 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399007465 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 1163399007466 active site 1163399007467 phosphorylation site [posttranslational modification] 1163399007468 intermolecular recognition site; other site 1163399007469 dimerization interface [polypeptide binding]; other site 1163399007470 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 1163399007471 DNA binding site [nucleotide binding] 1163399007472 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399007473 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 1163399007474 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 1163399007475 dimer interface [polypeptide binding]; other site 1163399007476 phosphorylation site [posttranslational modification] 1163399007477 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 1163399007478 ATP binding site [chemical binding]; other site 1163399007479 Mg2+ binding site [ion binding]; other site 1163399007480 G-X-G motif; other site 1163399007481 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399007482 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399007483 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399007484 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1163399007485 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163399007486 Walker A/P-loop; other site 1163399007487 ATP binding site [chemical binding]; other site 1163399007488 Q-loop/lid; other site 1163399007489 ABC transporter signature motif; other site 1163399007490 Walker B; other site 1163399007491 D-loop; other site 1163399007492 H-loop/switch region; other site 1163399007493 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163399007494 FtsX-like permease family; Region: FtsX; pfam02687 1163399007495 BA14K-like protein; Region: BA14K; pfam07886 1163399007496 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1163399007497 EF-hand domain pair; Region: EF_hand_5; pfam13499 1163399007498 Ca2+ binding site [ion binding]; other site 1163399007499 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 1163399007500 EF-hand domain pair; Region: EF_hand_5; pfam13499 1163399007501 Ca2+ binding site [ion binding]; other site 1163399007502 Predicted transcriptional regulators [Transcription]; Region: COG1733 1163399007503 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1163399007504 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1163399007505 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1163399007506 NADP binding site [chemical binding]; other site 1163399007507 dimer interface [polypeptide binding]; other site 1163399007508 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 1163399007509 Part of AAA domain; Region: AAA_19; pfam13245 1163399007510 Family description; Region: UvrD_C_2; pfam13538 1163399007511 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 1163399007512 LysR family transcriptional regulator; Provisional; Region: PRK14997 1163399007513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399007514 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_4; cd08473 1163399007515 putative effector binding pocket; other site 1163399007516 putative dimerization interface [polypeptide binding]; other site 1163399007517 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1163399007518 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163399007519 Src Homology 3 domain superfamily; Region: SH3; cl17036 1163399007520 seryl-tRNA synthetase; Provisional; Region: PRK05431 1163399007521 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1163399007522 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 1163399007523 dimer interface [polypeptide binding]; other site 1163399007524 active site 1163399007525 motif 1; other site 1163399007526 motif 2; other site 1163399007527 motif 3; other site 1163399007528 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163399007529 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163399007530 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163399007531 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163399007532 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1163399007533 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 1163399007534 hinge; other site 1163399007535 active site 1163399007536 Chorismate mutase type II; Region: CM_2; pfam01817 1163399007537 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1163399007538 Prephenate dehydratase; Region: PDT; pfam00800 1163399007539 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 1163399007540 putative L-Phe binding site [chemical binding]; other site 1163399007541 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1163399007542 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163399007543 catalytic residue [active] 1163399007544 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1163399007545 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1163399007546 phosphopeptide binding site; other site 1163399007547 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 1163399007548 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1163399007549 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1163399007550 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1163399007551 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1163399007552 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163399007553 DNA-binding site [nucleotide binding]; DNA binding site 1163399007554 UTRA domain; Region: UTRA; pfam07702 1163399007555 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1163399007556 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 1163399007557 active site 1163399007558 imidazolonepropionase; Validated; Region: PRK09356 1163399007559 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1163399007560 active site 1163399007561 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1163399007562 active sites [active] 1163399007563 tetramer interface [polypeptide binding]; other site 1163399007564 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1163399007565 urocanate hydratase; Provisional; Region: PRK05414 1163399007566 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163399007567 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163399007568 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 1163399007569 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1163399007570 TPR motif; other site 1163399007571 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399007572 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 1163399007573 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399007574 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399007575 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 1163399007576 active site 1163399007577 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_4; cd04501 1163399007578 active site 1163399007579 catalytic triad [active] 1163399007580 oxyanion hole [active] 1163399007581 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 1163399007582 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1163399007583 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399007584 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; cl09113 1163399007585 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 1163399007586 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163399007587 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163399007588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399007589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399007590 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_8; cd08477 1163399007591 putative effector binding pocket; other site 1163399007592 putative dimerization interface [polypeptide binding]; other site 1163399007593 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1163399007594 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1163399007595 putative NAD(P) binding site [chemical binding]; other site 1163399007596 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1163399007597 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163399007598 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163399007599 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1163399007600 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1163399007601 Trp docking motif [polypeptide binding]; other site 1163399007602 putative active site [active] 1163399007603 DNA gyrase subunit A; Validated; Region: PRK05560 1163399007604 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 1163399007605 CAP-like domain; other site 1163399007606 active site 1163399007607 primary dimer interface [polypeptide binding]; other site 1163399007608 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163399007609 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163399007610 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163399007611 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163399007612 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163399007613 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1163399007614 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1163399007615 Protein of unknown function (DUF3011); Region: DUF3011; pfam11218 1163399007616 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 1163399007617 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 1163399007618 motif 1; other site 1163399007619 dimer interface [polypeptide binding]; other site 1163399007620 active site 1163399007621 motif 2; other site 1163399007622 motif 3; other site 1163399007623 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1163399007624 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399007625 Coenzyme A binding pocket [chemical binding]; other site 1163399007626 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 1163399007627 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 1163399007628 nucleotide binding pocket [chemical binding]; other site 1163399007629 K-X-D-G motif; other site 1163399007630 catalytic site [active] 1163399007631 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1163399007632 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1163399007633 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 1163399007634 Dimer interface [polypeptide binding]; other site 1163399007635 BRCT sequence motif; other site 1163399007636 putative aminotransferase; Provisional; Region: PRK09105 1163399007637 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 1163399007638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399007639 homodimer interface [polypeptide binding]; other site 1163399007640 catalytic residue [active] 1163399007641 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 1163399007642 FtsZ protein binding site [polypeptide binding]; other site 1163399007643 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1163399007644 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1163399007645 Walker A/P-loop; other site 1163399007646 ATP binding site [chemical binding]; other site 1163399007647 Q-loop/lid; other site 1163399007648 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 1163399007649 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1163399007650 ABC transporter signature motif; other site 1163399007651 Walker B; other site 1163399007652 D-loop; other site 1163399007653 H-loop/switch region; other site 1163399007654 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1163399007655 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1163399007656 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1163399007657 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1163399007658 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1163399007659 Uncharacterized protein family (UPF0167); Region: UPF0167; pfam03691 1163399007660 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1163399007661 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1163399007662 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 1163399007663 putative anticodon binding site; other site 1163399007664 putative dimer interface [polypeptide binding]; other site 1163399007665 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 1163399007666 homodimer interface [polypeptide binding]; other site 1163399007667 motif 1; other site 1163399007668 motif 2; other site 1163399007669 active site 1163399007670 motif 3; other site 1163399007671 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1163399007672 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 1163399007673 active site clefts [active] 1163399007674 zinc binding site [ion binding]; other site 1163399007675 dimer interface [polypeptide binding]; other site 1163399007676 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 1163399007677 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 1163399007678 kynureninase; Region: kynureninase; TIGR01814 1163399007679 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163399007680 catalytic residue [active] 1163399007681 FAD binding domain; Region: FAD_binding_3; pfam01494 1163399007682 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1163399007683 exonuclease I; Provisional; Region: sbcB; PRK11779 1163399007684 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1163399007685 active site 1163399007686 catalytic site [active] 1163399007687 substrate binding site [chemical binding]; other site 1163399007688 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1163399007689 TIGR02453 family protein; Region: TIGR02453 1163399007690 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 1163399007691 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1163399007692 active site 1163399007693 catalytic tetrad [active] 1163399007694 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 1163399007695 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 1163399007696 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1163399007697 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1163399007698 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1163399007699 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1163399007700 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399007701 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399007702 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1163399007703 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399007704 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399007705 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399007706 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1163399007707 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163399007708 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163399007709 active site 1163399007710 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 1163399007711 dimerization interface [polypeptide binding]; other site 1163399007712 putative DNA binding site [nucleotide binding]; other site 1163399007713 putative Zn2+ binding site [ion binding]; other site 1163399007714 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 1163399007715 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1163399007716 S-adenosylmethionine binding site [chemical binding]; other site 1163399007717 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1163399007718 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1163399007719 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1163399007720 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 1163399007721 substrate binding pocket [chemical binding]; other site 1163399007722 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 1163399007723 B12 binding site [chemical binding]; other site 1163399007724 cobalt ligand [ion binding]; other site 1163399007725 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1163399007726 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1163399007727 MFS_1 like family; Region: MFS_1_like; pfam12832 1163399007728 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1163399007729 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 1163399007730 SlyX; Region: SlyX; cl01090 1163399007731 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1163399007732 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1163399007733 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1163399007734 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1163399007735 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1163399007736 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1163399007737 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1163399007738 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163399007739 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 1163399007740 catalytic residues [active] 1163399007741 dimer interface [polypeptide binding]; other site 1163399007742 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163399007743 DNA-binding site [nucleotide binding]; DNA binding site 1163399007744 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1163399007745 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1163399007746 Walker A/P-loop; other site 1163399007747 ATP binding site [chemical binding]; other site 1163399007748 Q-loop/lid; other site 1163399007749 ABC transporter signature motif; other site 1163399007750 Walker B; other site 1163399007751 D-loop; other site 1163399007752 H-loop/switch region; other site 1163399007753 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1163399007754 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1163399007755 Class II fumarases; Region: Fumarase_classII; cd01362 1163399007756 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1163399007757 active site 1163399007758 tetramer interface [polypeptide binding]; other site 1163399007759 adenylosuccinate lyase; Provisional; Region: PRK09285 1163399007760 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1163399007761 tetramer interface [polypeptide binding]; other site 1163399007762 active site 1163399007763 Cupin superfamily protein; Region: Cupin_4; pfam08007 1163399007764 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163399007765 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1163399007766 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 1163399007767 TPP-binding site [chemical binding]; other site 1163399007768 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1163399007769 dimer interface [polypeptide binding]; other site 1163399007770 PYR/PP interface [polypeptide binding]; other site 1163399007771 TPP binding site [chemical binding]; other site 1163399007772 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1163399007773 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 1163399007774 E3 interaction surface; other site 1163399007775 lipoyl attachment site [posttranslational modification]; other site 1163399007776 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1163399007777 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1163399007778 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1163399007779 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163399007780 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1163399007781 PhoD-like phosphatase; Region: PhoD; pfam09423 1163399007782 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1163399007783 putative active site [active] 1163399007784 putative metal binding site [ion binding]; other site 1163399007785 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1163399007786 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 1163399007787 N-terminal plug; other site 1163399007788 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399007789 ligand-binding site [chemical binding]; other site 1163399007790 replicative DNA helicase; Provisional; Region: PRK08760 1163399007791 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1163399007792 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 1163399007793 Walker A motif; other site 1163399007794 ATP binding site [chemical binding]; other site 1163399007795 Walker B motif; other site 1163399007796 DNA binding loops [nucleotide binding] 1163399007797 Predicted flavoprotein [General function prediction only]; Region: COG0431 1163399007798 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163399007799 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1163399007800 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 1163399007801 dimer interface [polypeptide binding]; other site 1163399007802 active site 1163399007803 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 1163399007804 Ligand Binding Site [chemical binding]; other site 1163399007805 Molecular Tunnel; other site 1163399007806 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1163399007807 TPP-binding site [chemical binding]; other site 1163399007808 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1163399007809 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1163399007810 PYR/PP interface [polypeptide binding]; other site 1163399007811 dimer interface [polypeptide binding]; other site 1163399007812 TPP binding site [chemical binding]; other site 1163399007813 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163399007814 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163399007815 GST_N family, unknown subfamily 4; 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_4; cd03056 1163399007816 putative C-terminal domain interface [polypeptide binding]; other site 1163399007817 putative GSH binding site (G-site) [chemical binding]; other site 1163399007818 putative dimer interface [polypeptide binding]; other site 1163399007819 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1163399007820 N-terminal domain interface [polypeptide binding]; other site 1163399007821 dimer interface [polypeptide binding]; other site 1163399007822 substrate binding pocket (H-site) [chemical binding]; other site 1163399007823 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1163399007824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163399007825 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1163399007826 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1163399007827 active site 1163399007828 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1163399007829 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 1163399007830 putative ATP binding site [chemical binding]; other site 1163399007831 putative substrate interface [chemical binding]; other site 1163399007832 Cytochrome C' Region: Cytochrom_C_2; cl01610 1163399007833 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 1163399007834 DNA-binding site [nucleotide binding]; DNA binding site 1163399007835 RNA-binding motif; other site 1163399007836 Protein of unknown function (DUF456); Region: DUF456; pfam04306 1163399007837 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 1163399007838 dimerization interface [polypeptide binding]; other site 1163399007839 substrate binding site [chemical binding]; other site 1163399007840 active site 1163399007841 calcium binding site [ion binding]; other site 1163399007842 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 1163399007843 ArsC family; Region: ArsC; pfam03960 1163399007844 catalytic residues [active] 1163399007845 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 1163399007846 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163399007847 C-terminal domain interface [polypeptide binding]; other site 1163399007848 GSH binding site (G-site) [chemical binding]; other site 1163399007849 dimer interface [polypeptide binding]; other site 1163399007850 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1163399007851 dimer interface [polypeptide binding]; other site 1163399007852 N-terminal domain interface [polypeptide binding]; other site 1163399007853 substrate binding pocket (H-site) [chemical binding]; other site 1163399007854 putative fumarate hydratase; Provisional; Region: PRK15392 1163399007855 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 1163399007856 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1163399007857 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 1163399007858 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399007859 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 1163399007860 DNA binding residues [nucleotide binding] 1163399007861 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1163399007862 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1163399007863 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1163399007864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399007865 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1163399007866 Walker A/P-loop; other site 1163399007867 ATP binding site [chemical binding]; other site 1163399007868 Q-loop/lid; other site 1163399007869 ABC transporter signature motif; other site 1163399007870 Walker B; other site 1163399007871 D-loop; other site 1163399007872 H-loop/switch region; other site 1163399007873 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1163399007874 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 1163399007875 FAD binding pocket [chemical binding]; other site 1163399007876 FAD binding motif [chemical binding]; other site 1163399007877 phosphate binding motif [ion binding]; other site 1163399007878 beta-alpha-beta structure motif; other site 1163399007879 NAD binding pocket [chemical binding]; other site 1163399007880 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 1163399007881 catalytic residues [active] 1163399007882 dimer interface [polypeptide binding]; other site 1163399007883 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1163399007884 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1163399007885 active site 1163399007886 Zn binding site [ion binding]; other site 1163399007887 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1163399007888 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 1163399007889 S-adenosylmethionine binding site [chemical binding]; other site 1163399007890 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1163399007891 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1163399007892 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1163399007893 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1163399007894 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399007895 POT family; Region: PTR2; cl17359 1163399007896 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1163399007897 putative catalytic site [active] 1163399007898 putative metal binding site [ion binding]; other site 1163399007899 putative phosphate binding site [ion binding]; other site 1163399007900 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1163399007901 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1163399007902 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1163399007903 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 1163399007904 active site 1163399007905 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 1163399007906 putative RNAase interaction site [polypeptide binding]; other site 1163399007907 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1163399007908 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1163399007909 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1163399007910 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 1163399007911 aromatic arch; other site 1163399007912 DCoH dimer interaction site [polypeptide binding]; other site 1163399007913 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1163399007914 DCoH tetramer interaction site [polypeptide binding]; other site 1163399007915 substrate binding site [chemical binding]; other site 1163399007916 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163399007917 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163399007918 zinc transporter ZupT; Provisional; Region: PRK04201 1163399007919 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1163399007920 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 1163399007921 RNA binding surface [nucleotide binding]; other site 1163399007922 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163399007923 active site 1163399007924 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1163399007925 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 1163399007926 homodimer interface [polypeptide binding]; other site 1163399007927 oligonucleotide binding site [chemical binding]; other site 1163399007928 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1163399007929 putative catalytic site [active] 1163399007930 putative metal binding site [ion binding]; other site 1163399007931 putative phosphate binding site [ion binding]; other site 1163399007932 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1163399007933 sugar binding site [chemical binding]; other site 1163399007934 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1163399007935 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 1163399007936 dimer interface [polypeptide binding]; other site 1163399007937 conserved gate region; other site 1163399007938 putative PBP binding loops; other site 1163399007939 ABC-ATPase subunit interface; other site 1163399007940 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 1163399007941 dimer interface [polypeptide binding]; other site 1163399007942 conserved gate region; other site 1163399007943 putative PBP binding loops; other site 1163399007944 ABC-ATPase subunit interface; other site 1163399007945 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1163399007946 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1163399007947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 1163399007948 Putative glucoamylase; Region: Glycoamylase; pfam10091 1163399007949 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1163399007950 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 1163399007951 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1163399007952 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1163399007953 DNA binding site [nucleotide binding] 1163399007954 domain linker motif; other site 1163399007955 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1163399007956 dimerization interface [polypeptide binding]; other site 1163399007957 ligand binding site [chemical binding]; other site 1163399007958 BolA-like protein; Region: BolA; pfam01722 1163399007959 YciI-like protein; Reviewed; Region: PRK11370 1163399007960 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1163399007961 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1163399007962 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1163399007963 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 1163399007964 RNA binding surface [nucleotide binding]; other site 1163399007965 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163399007966 active site 1163399007967 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1163399007968 Helix-turn-helix domain; Region: HTH_18; pfam12833 1163399007969 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399007970 putative substrate translocation pore; other site 1163399007971 C-N hydrolase family amidase; Provisional; Region: PRK10438 1163399007972 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1163399007973 putative active site [active] 1163399007974 catalytic triad [active] 1163399007975 dimer interface [polypeptide binding]; other site 1163399007976 multimer interface [polypeptide binding]; other site 1163399007977 methionine aminotransferase; Validated; Region: PRK09082 1163399007978 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 1163399007979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399007980 homodimer interface [polypeptide binding]; other site 1163399007981 catalytic residue [active] 1163399007982 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13543 1163399007983 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399007984 Walker A/P-loop; other site 1163399007985 ATP binding site [chemical binding]; other site 1163399007986 Q-loop/lid; other site 1163399007987 ABC transporter signature motif; other site 1163399007988 Walker B; other site 1163399007989 D-loop; other site 1163399007990 H-loop/switch region; other site 1163399007991 CcmB protein; Region: CcmB; cl17444 1163399007992 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1163399007993 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1163399007994 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1163399007995 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 1163399007996 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163399007997 catalytic residues [active] 1163399007998 central insert; other site 1163399007999 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1163399008000 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1163399008001 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 1163399008002 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1163399008003 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1163399008004 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1163399008005 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163399008006 Walker A/P-loop; other site 1163399008007 ATP binding site [chemical binding]; other site 1163399008008 Q-loop/lid; other site 1163399008009 ABC transporter signature motif; other site 1163399008010 Walker B; other site 1163399008011 D-loop; other site 1163399008012 H-loop/switch region; other site 1163399008013 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 1163399008014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399008015 Walker A/P-loop; other site 1163399008016 ATP binding site [chemical binding]; other site 1163399008017 Q-loop/lid; other site 1163399008018 ABC transporter signature motif; other site 1163399008019 Walker B; other site 1163399008020 D-loop; other site 1163399008021 H-loop/switch region; other site 1163399008022 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1163399008023 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1163399008024 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1163399008025 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1163399008026 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1163399008027 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1163399008028 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399008029 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1163399008030 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1163399008031 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 1163399008032 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 1163399008033 putative active site [active] 1163399008034 putative metal binding site [ion binding]; other site 1163399008035 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; cl10015 1163399008036 putative active site [active] 1163399008037 N-glycosyltransferase; Provisional; Region: PRK11204 1163399008038 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1163399008039 DXD motif; other site 1163399008040 PgaD-like protein; Region: PgaD; pfam13994 1163399008041 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1163399008042 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1163399008043 putative catalytic cysteine [active] 1163399008044 gamma-glutamyl kinase; Provisional; Region: PRK05429 1163399008045 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 1163399008046 nucleotide binding site [chemical binding]; other site 1163399008047 PUA domain; Region: PUA; pfam01472 1163399008048 YCII-related domain; Region: YCII; cl00999 1163399008049 argininosuccinate lyase; Provisional; Region: PRK00855 1163399008050 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1163399008051 active sites [active] 1163399008052 tetramer interface [polypeptide binding]; other site 1163399008053 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 1163399008054 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1163399008055 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1163399008056 acetylglutamate kinase; Provisional; Region: PRK04531 1163399008057 AAK_NAGK-fArgBP: N-Acetyl-L-glutamate kinase (NAGK) of the fungal arginine-biosynthetic pathway (fArgBP). The nuclear-encoded, mitochondrial polyprotein precursor with an N-terminal NAGK (ArgB) domain (this CD), a central DUF619 domain, and a C-terminal...; Region: AAK_NAGK-fArgBP; cd04252 1163399008058 putative nucleotide binding site [chemical binding]; other site 1163399008059 putative N-acetyl-L-glutamate binding site [chemical binding]; other site 1163399008060 DUF619 domain of various N-acetylglutamate Synthases of the fungal arginine-biosynthetic pathway and urea cycle found in humans and fish; Region: DUF619-NAGS; cd04264 1163399008061 acetylornithine deacetylase; Provisional; Region: PRK08737 1163399008062 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1163399008063 metal binding site [ion binding]; metal-binding site 1163399008064 putative dimer interface [polypeptide binding]; other site 1163399008065 argininosuccinate synthase; Provisional; Region: PRK13820 1163399008066 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1163399008067 ANP binding site [chemical binding]; other site 1163399008068 Substrate Binding Site II [chemical binding]; other site 1163399008069 Substrate Binding Site I [chemical binding]; other site 1163399008070 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 1163399008071 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1163399008072 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1163399008073 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1163399008074 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1163399008075 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163399008076 active site 1163399008077 HIGH motif; other site 1163399008078 nucleotide binding site [chemical binding]; other site 1163399008079 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1163399008080 KMSKS motif; other site 1163399008081 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1163399008082 tRNA binding surface [nucleotide binding]; other site 1163399008083 anticodon binding site; other site 1163399008084 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1163399008085 H+ Antiporter protein; Region: 2A0121; TIGR00900 1163399008086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399008087 putative substrate translocation pore; other site 1163399008088 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1163399008089 Haemolytic domain; Region: Haemolytic; pfam01809 1163399008090 dihydroorotase; Reviewed; Region: PRK09236 1163399008091 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 1163399008092 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 1163399008093 active site 1163399008094 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163399008095 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163399008096 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 1163399008097 phosphoglycolate phosphatase; Provisional; Region: PRK13226 1163399008098 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 1163399008099 motif II; other site 1163399008100 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1163399008101 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1163399008102 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 1163399008103 S-adenosylmethionine binding site [chemical binding]; other site 1163399008104 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 1163399008105 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 1163399008106 active site 1163399008107 putative substrate binding pocket [chemical binding]; other site 1163399008108 elongation factor P; Validated; Region: PRK00529 1163399008109 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1163399008110 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 1163399008111 RNA binding site [nucleotide binding]; other site 1163399008112 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 1163399008113 RNA binding site [nucleotide binding]; other site 1163399008114 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 1163399008115 FeS/SAM binding site; other site 1163399008116 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 1163399008117 dimerization interface [polypeptide binding]; other site 1163399008118 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399008119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399008120 metal binding site [ion binding]; metal-binding site 1163399008121 active site 1163399008122 I-site; other site 1163399008123 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 1163399008124 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1163399008125 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1163399008126 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1163399008127 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1163399008128 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 1163399008129 active site 1163399008130 dimerization interface [polypeptide binding]; other site 1163399008131 heat shock protein HtpX; Provisional; Region: PRK05457 1163399008132 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1163399008133 active site 1163399008134 HIGH motif; other site 1163399008135 nucleotide binding site [chemical binding]; other site 1163399008136 KMSKS motif; other site 1163399008137 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1163399008138 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1163399008139 NAD(P) binding site [chemical binding]; other site 1163399008140 homotetramer interface [polypeptide binding]; other site 1163399008141 homodimer interface [polypeptide binding]; other site 1163399008142 active site 1163399008143 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 1163399008144 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1163399008145 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1163399008146 TraB family; Region: TraB; pfam01963 1163399008147 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 1163399008148 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1163399008149 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 1163399008150 ATP binding site [chemical binding]; other site 1163399008151 Mg2+ binding site [ion binding]; other site 1163399008152 G-X-G motif; other site 1163399008153 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 1163399008154 ATP binding site [chemical binding]; other site 1163399008155 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1163399008156 AMIN domain; Region: AMIN; pfam11741 1163399008157 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1163399008158 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 1163399008159 active site 1163399008160 metal binding site [ion binding]; metal-binding site 1163399008161 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1163399008162 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1163399008163 putative carbohydrate kinase; Provisional; Region: PRK10565 1163399008164 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 1163399008165 putative substrate binding site [chemical binding]; other site 1163399008166 putative ATP binding site [chemical binding]; other site 1163399008167 epoxyqueuosine reductase; Region: TIGR00276 1163399008168 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1163399008169 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1163399008170 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 1163399008171 generic binding surface II; other site 1163399008172 generic binding surface I; other site 1163399008173 Peptidase family M48; Region: Peptidase_M48; pfam01435 1163399008174 TPR repeat; Region: TPR_11; pfam13414 1163399008175 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1163399008176 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1163399008177 ribonuclease D; Region: rnd; TIGR01388 1163399008178 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1163399008179 catalytic site [active] 1163399008180 putative active site [active] 1163399008181 putative substrate binding site [chemical binding]; other site 1163399008182 HRDC domain; Region: HRDC; cl02578 1163399008183 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399008184 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 1163399008185 N-terminal plug; other site 1163399008186 ligand-binding site [chemical binding]; other site 1163399008187 short chain dehydrogenase; Provisional; Region: PRK07478 1163399008188 classical (c) SDRs; Region: SDR_c; cd05233 1163399008189 NAD(P) binding site [chemical binding]; other site 1163399008190 active site 1163399008191 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163399008192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399008193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399008194 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1163399008195 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 1163399008196 DNA binding site [nucleotide binding] 1163399008197 active site 1163399008198 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1163399008199 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1163399008200 NAD(P) binding site [chemical binding]; other site 1163399008201 substrate binding site [chemical binding]; other site 1163399008202 dimer interface [polypeptide binding]; other site 1163399008203 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1163399008204 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 1163399008205 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1163399008206 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1163399008207 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163399008208 active site 1163399008209 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1163399008210 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1163399008211 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 1163399008212 active site 1163399008213 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1163399008214 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 1163399008215 TPP-binding site; other site 1163399008216 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 1163399008217 PYR/PP interface [polypeptide binding]; other site 1163399008218 dimer interface [polypeptide binding]; other site 1163399008219 TPP binding site [chemical binding]; other site 1163399008220 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163399008221 Protein of unknown function (DUF3011); Region: DUF3011; pfam11218 1163399008222 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 1163399008223 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399008224 active site 1163399008225 phosphorylation site [posttranslational modification] 1163399008226 intermolecular recognition site; other site 1163399008227 dimerization interface [polypeptide binding]; other site 1163399008228 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 1163399008229 DNA binding residues [nucleotide binding] 1163399008230 dimerization interface [polypeptide binding]; other site 1163399008231 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1163399008232 G1 box; other site 1163399008233 GTP/Mg2+ binding site [chemical binding]; other site 1163399008234 G2 box; other site 1163399008235 Switch I region; other site 1163399008236 G3 box; other site 1163399008237 Switch II region; other site 1163399008238 G4 box; other site 1163399008239 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 1163399008240 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1163399008241 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399008242 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1163399008243 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1163399008244 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1163399008245 aspartate racemase; Region: asp_race; TIGR00035 1163399008246 Protein of unknown function (DUF3011); Region: DUF3011; pfam11218 1163399008248 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1163399008249 active site 1163399008250 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1163399008251 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1163399008252 DNA binding residues [nucleotide binding] 1163399008253 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 1163399008254 IHF dimer interface [polypeptide binding]; other site 1163399008255 IHF - DNA interface [nucleotide binding]; other site 1163399008256 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1163399008257 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 1163399008258 putative tRNA-binding site [nucleotide binding]; other site 1163399008259 B3/4 domain; Region: B3_4; pfam03483 1163399008260 tRNA synthetase B5 domain; Region: B5; smart00874 1163399008261 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 1163399008262 dimer interface [polypeptide binding]; other site 1163399008263 motif 1; other site 1163399008264 motif 3; other site 1163399008265 motif 2; other site 1163399008266 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1163399008267 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1163399008268 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1163399008269 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 1163399008270 dimer interface [polypeptide binding]; other site 1163399008271 motif 1; other site 1163399008272 active site 1163399008273 motif 2; other site 1163399008274 motif 3; other site 1163399008275 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1163399008276 23S rRNA binding site [nucleotide binding]; other site 1163399008277 L21 binding site [polypeptide binding]; other site 1163399008278 L13 binding site [polypeptide binding]; other site 1163399008279 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1163399008280 translation initiation factor IF-3; Region: infC; TIGR00168 1163399008281 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1163399008282 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1163399008283 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1163399008284 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 1163399008285 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1163399008286 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 1163399008287 active site 1163399008288 dimer interface [polypeptide binding]; other site 1163399008289 motif 1; other site 1163399008290 motif 2; other site 1163399008291 motif 3; other site 1163399008292 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 1163399008293 anticodon binding site; other site 1163399008294 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1163399008295 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1163399008296 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1163399008297 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_2; cd07253 1163399008298 dimer interface [polypeptide binding]; other site 1163399008299 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399008300 metal binding site [ion binding]; metal-binding site 1163399008301 Glyco_18 domain; Region: Glyco_18; smart00636 1163399008302 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 1163399008303 active site 1163399008304 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1163399008305 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1163399008306 RNase E interface [polypeptide binding]; other site 1163399008307 trimer interface [polypeptide binding]; other site 1163399008308 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1163399008309 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1163399008310 RNase E interface [polypeptide binding]; other site 1163399008311 trimer interface [polypeptide binding]; other site 1163399008312 active site 1163399008313 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 1163399008314 putative nucleic acid binding region [nucleotide binding]; other site 1163399008315 G-X-X-G motif; other site 1163399008316 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 1163399008317 RNA binding site [nucleotide binding]; other site 1163399008318 domain interface; other site 1163399008319 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 1163399008320 16S/18S rRNA binding site [nucleotide binding]; other site 1163399008321 S13e-L30e interaction site [polypeptide binding]; other site 1163399008322 25S rRNA binding site [nucleotide binding]; other site 1163399008323 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04642 1163399008324 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1163399008325 RNA binding site [nucleotide binding]; other site 1163399008326 active site 1163399008327 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1163399008328 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1163399008329 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1163399008330 translation initiation factor IF-2; Region: IF-2; TIGR00487 1163399008331 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1163399008332 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1163399008333 G1 box; other site 1163399008334 putative GEF interaction site [polypeptide binding]; other site 1163399008335 GTP/Mg2+ binding site [chemical binding]; other site 1163399008336 Switch I region; other site 1163399008337 G2 box; other site 1163399008338 G3 box; other site 1163399008339 Switch II region; other site 1163399008340 G4 box; other site 1163399008341 G5 box; other site 1163399008342 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 1163399008343 Translation-initiation factor 2; Region: IF-2; pfam11987 1163399008344 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 1163399008345 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1163399008346 NusA N-terminal domain; Region: NusA_N; pfam08529 1163399008347 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 1163399008348 RNA binding site [nucleotide binding]; other site 1163399008349 homodimer interface [polypeptide binding]; other site 1163399008350 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 1163399008351 G-X-X-G motif; other site 1163399008352 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 1163399008353 G-X-X-G motif; other site 1163399008354 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1163399008355 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1163399008356 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1163399008357 Sm and related proteins; Region: Sm_like; cl00259 1163399008358 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1163399008359 putative oligomer interface [polypeptide binding]; other site 1163399008360 putative RNA binding site [nucleotide binding]; other site 1163399008361 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1163399008362 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163399008363 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1163399008364 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163399008365 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1163399008366 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1163399008367 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163399008368 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1163399008369 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1163399008370 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1163399008371 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1163399008372 4Fe-4S binding domain; Region: Fer4; cl02805 1163399008373 4Fe-4S binding domain; Region: Fer4; pfam00037 1163399008374 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1163399008375 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1163399008376 NADH dehydrogenase subunit G; Validated; Region: PRK09129 1163399008377 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 1163399008378 catalytic loop [active] 1163399008379 iron binding site [ion binding]; other site 1163399008380 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1163399008381 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 1163399008382 molybdopterin cofactor binding site; other site 1163399008383 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cd02775 1163399008384 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 1163399008385 SLBB domain; Region: SLBB; pfam10531 1163399008386 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1163399008387 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 1163399008388 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 1163399008389 putative dimer interface [polypeptide binding]; other site 1163399008390 [2Fe-2S] cluster binding site [ion binding]; other site 1163399008391 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1163399008392 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1163399008393 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1163399008394 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1163399008395 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1163399008396 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1163399008397 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1163399008398 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 1163399008399 substrate binding site [chemical binding]; other site 1163399008400 dimer interface [polypeptide binding]; other site 1163399008401 catalytic triad [active] 1163399008402 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1163399008403 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1163399008404 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1163399008405 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1163399008406 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1163399008407 Sulfatase; Region: Sulfatase; cl17466 1163399008408 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 1163399008409 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1163399008410 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163399008411 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1163399008412 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 1163399008413 putative active site [active] 1163399008414 putative metal binding site [ion binding]; other site 1163399008415 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1163399008416 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 1163399008417 active site 1163399008418 substrate binding site [chemical binding]; other site 1163399008419 metal binding site [ion binding]; metal-binding site 1163399008420 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1163399008421 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1163399008422 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1163399008423 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 1163399008424 substrate binding site [chemical binding]; other site 1163399008425 active site 1163399008426 catalytic residues [active] 1163399008427 heterodimer interface [polypeptide binding]; other site 1163399008428 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1163399008429 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 1163399008430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399008431 catalytic residue [active] 1163399008432 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1163399008433 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399008434 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 1163399008435 dimerization interface [polypeptide binding]; other site 1163399008436 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 1163399008437 ATPase involved in DNA repair; Region: DUF3686; pfam12458 1163399008438 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 1163399008439 Walker A motif; other site 1163399008440 ATP binding site [chemical binding]; other site 1163399008441 Walker B motif; other site 1163399008442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1163399008443 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 1163399008444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1163399008445 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 1163399008446 active site 1163399008447 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1163399008448 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1163399008449 dimerization interface 3.5A [polypeptide binding]; other site 1163399008450 active site 1163399008451 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399008452 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1163399008453 FimV N-terminal domain; Region: FimV_core; TIGR03505 1163399008454 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1163399008455 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1163399008456 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1163399008457 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1163399008458 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1163399008459 dimerization interface [polypeptide binding]; other site 1163399008460 ligand binding site [chemical binding]; other site 1163399008461 NADP binding site [chemical binding]; other site 1163399008462 catalytic site [active] 1163399008463 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1163399008464 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1163399008465 Tetramer interface [polypeptide binding]; other site 1163399008466 active site 1163399008467 FMN-binding site [chemical binding]; other site 1163399008468 HemK family putative methylases; Region: hemK_fam; TIGR00536 1163399008469 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 1163399008470 S-adenosylmethionine binding site [chemical binding]; other site 1163399008471 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1163399008472 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1163399008473 Cu(I) binding site [ion binding]; other site 1163399008474 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1163399008475 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1163399008476 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 1163399008477 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163399008478 catalytic residue [active] 1163399008479 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163399008480 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1163399008481 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1163399008482 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1163399008483 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1163399008484 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1163399008485 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 1163399008486 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1163399008487 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1163399008488 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 1163399008489 FeS/SAM binding site; other site 1163399008490 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 1163399008491 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1163399008492 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1163399008493 Phage tail assembly chaperone; Region: Phage_TAC; pfam06222 1163399008494 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1163399008495 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1163399008496 nucleotide binding site/active site [active] 1163399008497 HIT family signature motif; other site 1163399008498 catalytic residue [active] 1163399008499 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1163399008500 trimer interface [polypeptide binding]; other site 1163399008501 active site 1163399008502 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1163399008503 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 1163399008504 Walker A motif; other site 1163399008505 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1163399008506 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 1163399008507 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 1163399008508 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 1163399008509 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 1163399008510 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1163399008511 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399008512 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1163399008513 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1163399008514 active site 1163399008515 Zn binding site [ion binding]; other site 1163399008516 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1163399008517 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1163399008518 active site 1163399008519 Zn binding site [ion binding]; other site 1163399008520 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 1163399008521 dimer interface [polypeptide binding]; other site 1163399008522 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1163399008523 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163399008524 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1163399008525 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 1163399008526 active site 1163399008527 DNA binding site [nucleotide binding] 1163399008528 EamA-like transporter family; Region: EamA; pfam00892 1163399008529 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1163399008530 EamA-like transporter family; Region: EamA; pfam00892 1163399008531 glutathione reductase; Validated; Region: PRK06116 1163399008532 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163399008533 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163399008534 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1163399008536 Predicted membrane protein [Function unknown]; Region: COG2311 1163399008537 Protein of unknown function (DUF418); Region: DUF418; cl12135 1163399008538 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1163399008539 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163399008540 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1163399008541 NlpC/P60 family; Region: NLPC_P60; pfam00877 1163399008542 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1163399008543 NlpC/P60 family; Region: NLPC_P60; pfam00877 1163399008544 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1163399008545 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1163399008546 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 1163399008547 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1163399008548 active site 1163399008549 dimer interface [polypeptide binding]; other site 1163399008550 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 1163399008551 Ligand Binding Site [chemical binding]; other site 1163399008552 TilS substrate binding domain; Region: TilS; pfam09179 1163399008553 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1163399008554 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1163399008555 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1163399008556 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1163399008557 substrate binding pocket [chemical binding]; other site 1163399008558 chain length determination region; other site 1163399008559 substrate-Mg2+ binding site; other site 1163399008560 catalytic residues [active] 1163399008561 aspartate-rich region 1; other site 1163399008562 active site lid residues [active] 1163399008563 aspartate-rich region 2; other site 1163399008564 Tic20-like protein; Region: Tic20; pfam09685 1163399008565 peptidase PmbA; Provisional; Region: PRK11040 1163399008566 hypothetical protein; Provisional; Region: PRK05255 1163399008567 protease TldD; Provisional; Region: tldD; PRK10735 1163399008568 TIGR02099 family protein; Region: TIGR02099 1163399008569 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1163399008570 ribonuclease G; Provisional; Region: PRK11712 1163399008571 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 1163399008572 homodimer interface [polypeptide binding]; other site 1163399008573 oligonucleotide binding site [chemical binding]; other site 1163399008574 Maf-like protein; Region: Maf; pfam02545 1163399008575 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 1163399008576 active site 1163399008577 dimer interface [polypeptide binding]; other site 1163399008578 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1163399008579 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1163399008580 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163399008581 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1163399008582 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1163399008583 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 1163399008584 ligand-binding site [chemical binding]; other site 1163399008585 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399008586 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1163399008587 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1163399008588 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399008589 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1163399008590 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1163399008591 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1163399008592 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1163399008593 active site 1163399008594 (T/H)XGH motif; other site 1163399008595 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1163399008596 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1163399008597 Lipopolysaccharide-assembly; Region: LptE; cl01125 1163399008598 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1163399008599 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1163399008600 HIGH motif; other site 1163399008601 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1163399008602 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163399008603 active site 1163399008604 KMSKS motif; other site 1163399008605 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1163399008606 tRNA binding surface [nucleotide binding]; other site 1163399008607 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1163399008608 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 1163399008609 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163399008610 FecR protein; Region: FecR; pfam04773 1163399008611 CHASE2 domain; Region: CHASE2; pfam05226 1163399008612 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399008613 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399008614 metal binding site [ion binding]; metal-binding site 1163399008615 active site 1163399008616 I-site; other site 1163399008617 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1163399008618 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1163399008619 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1163399008620 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1163399008621 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163399008622 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163399008623 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 1163399008624 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399008625 putative metal binding site [ion binding]; other site 1163399008626 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 1163399008627 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1163399008628 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1163399008629 active site 1163399008630 HIGH motif; other site 1163399008631 KMSKS motif; other site 1163399008632 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1163399008633 anticodon binding site; other site 1163399008634 tRNA binding surface [nucleotide binding]; other site 1163399008635 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 1163399008636 putative tRNA-binding site [nucleotide binding]; other site 1163399008637 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1163399008638 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1163399008639 ferredoxin; Provisional; Region: PRK08764 1163399008640 Putative Fe-S cluster; Region: FeS; pfam04060 1163399008641 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 1163399008642 homotrimer interaction site [polypeptide binding]; other site 1163399008643 putative active site [active] 1163399008644 Predicted integral membrane protein [Function unknown]; Region: COG0392 1163399008645 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1163399008646 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1163399008647 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1163399008648 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1163399008649 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1163399008650 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 1163399008651 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 1163399008652 TPR repeat; Region: TPR_11; pfam13414 1163399008653 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 1163399008654 binding surface 1163399008655 TPR motif; other site 1163399008656 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 1163399008657 binding surface 1163399008658 TPR motif; other site 1163399008659 TPR repeat; Region: TPR_11; pfam13414 1163399008660 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1163399008661 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1163399008662 PhnA protein; Region: PhnA; pfam03831 1163399008663 putative chaperone; Provisional; Region: PRK11678 1163399008664 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1163399008665 nucleotide binding site [chemical binding]; other site 1163399008666 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1163399008667 nucleotide binding site [chemical binding]; other site 1163399008668 Flagellin N-methylase; Region: FliB; pfam03692 1163399008669 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1163399008670 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1163399008671 RNA polymerase sigma factor SigY; Reviewed; Region: PRK09638 1163399008672 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399008673 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1163399008674 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163399008675 hypothetical protein; Provisional; Region: PRK11019 1163399008676 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1163399008677 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1163399008678 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1163399008679 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 1163399008680 RNA binding surface [nucleotide binding]; other site 1163399008681 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163399008682 active site 1163399008683 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1163399008684 PLD-like domain; Region: PLDc_2; pfam13091 1163399008685 putative active site [active] 1163399008686 catalytic site [active] 1163399008687 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1163399008688 PLD-like domain; Region: PLDc_2; pfam13091 1163399008689 putative active site [active] 1163399008690 catalytic site [active] 1163399008691 HDOD domain; Region: HDOD; pfam08668 1163399008692 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1163399008693 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1163399008694 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1163399008695 NAD binding site [chemical binding]; other site 1163399008696 Phe binding site; other site 1163399008697 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1163399008698 catalytic triad [active] 1163399008699 putative active site [active] 1163399008700 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163399008701 putative acyltransferase; Provisional; Region: PRK05790 1163399008702 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 1163399008703 dimer interface [polypeptide binding]; other site 1163399008704 active site 1163399008705 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1163399008706 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1163399008707 active site 1163399008708 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1163399008709 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1163399008710 ATP-dependent DNA ligase; Validated; Region: PRK09247 1163399008711 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1163399008712 active site 1163399008713 DNA binding site [nucleotide binding] 1163399008714 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 1163399008715 DNA binding site [nucleotide binding] 1163399008716 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1163399008717 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 1163399008718 ATP binding site [chemical binding]; other site 1163399008719 putative Mg++ binding site [ion binding]; other site 1163399008720 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 1163399008721 nucleotide binding region [chemical binding]; other site 1163399008722 DEAD/H associated; Region: DEAD_assoc; pfam08494 1163399008723 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1163399008724 putative active site [active] 1163399008725 putative metal binding site [ion binding]; other site 1163399008726 hypothetical protein; Provisional; Region: PRK07236 1163399008727 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1163399008728 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 1163399008729 DNA-binding site [nucleotide binding]; DNA binding site 1163399008730 RNA-binding motif; other site 1163399008731 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 1163399008732 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163399008733 active site 1163399008734 beta-hexosaminidase; Provisional; Region: PRK05337 1163399008735 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1163399008736 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1163399008737 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1163399008738 catalytic residues [active] 1163399008739 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 1163399008740 putative active site [active] 1163399008741 putative metal binding residues [ion binding]; other site 1163399008742 signature motif; other site 1163399008743 putative dimer interface [polypeptide binding]; other site 1163399008744 putative phosphate binding site [ion binding]; other site 1163399008745 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1163399008746 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 1163399008747 S-adenosylmethionine binding site [chemical binding]; other site 1163399008748 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 1163399008749 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399008750 active site 1163399008751 phosphorylation site [posttranslational modification] 1163399008752 intermolecular recognition site; other site 1163399008753 dimerization interface [polypeptide binding]; other site 1163399008754 Hpt domain; Region: Hpt; pfam01627 1163399008755 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1163399008756 Recombination protein O N terminal; Region: RecO_N; pfam11967 1163399008757 Recombination protein O C terminal; Region: RecO_C; pfam02565 1163399008758 GTPase Era; Reviewed; Region: era; PRK00089 1163399008759 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1163399008760 G1 box; other site 1163399008761 GTP/Mg2+ binding site [chemical binding]; other site 1163399008762 Switch I region; other site 1163399008763 G2 box; other site 1163399008764 Switch II region; other site 1163399008765 G3 box; other site 1163399008766 G4 box; other site 1163399008767 G5 box; other site 1163399008768 KH domain; Region: KH_2; pfam07650 1163399008769 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 1163399008770 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 1163399008771 dimerization interface [polypeptide binding]; other site 1163399008772 active site 1163399008773 metal binding site [ion binding]; metal-binding site 1163399008774 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 1163399008775 dsRNA binding site [nucleotide binding]; other site 1163399008776 signal peptidase I; Provisional; Region: PRK10861 1163399008777 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 1163399008778 Catalytic site [active] 1163399008779 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 1163399008780 GTP-binding protein LepA; Provisional; Region: PRK05433 1163399008781 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1163399008782 G1 box; other site 1163399008783 putative GEF interaction site [polypeptide binding]; other site 1163399008784 GTP/Mg2+ binding site [chemical binding]; other site 1163399008785 Switch I region; other site 1163399008786 G2 box; other site 1163399008787 G3 box; other site 1163399008788 Switch II region; other site 1163399008789 G4 box; other site 1163399008790 G5 box; other site 1163399008791 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 1163399008792 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 1163399008793 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1163399008794 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1163399008795 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1163399008796 active site 1163399008797 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 1163399008798 protein binding site [polypeptide binding]; other site 1163399008799 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 1163399008800 protein binding site [polypeptide binding]; other site 1163399008801 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1163399008802 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1163399008803 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399008804 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 1163399008805 DNA binding residues [nucleotide binding] 1163399008806 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1163399008807 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 1163399008808 substrate binding site [chemical binding]; other site 1163399008809 oxyanion hole (OAH) forming residues; other site 1163399008810 trimer interface [polypeptide binding]; other site 1163399008811 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1163399008812 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1163399008813 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1163399008814 Pirin-related protein [General function prediction only]; Region: COG1741 1163399008815 Pirin; Region: Pirin; pfam02678 1163399008816 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1163399008817 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 1163399008818 amphipathic channel; other site 1163399008819 Asn-Pro-Ala signature motifs; other site 1163399008820 Pirin-related protein [General function prediction only]; Region: COG1741 1163399008821 Pirin; Region: Pirin; pfam02678 1163399008822 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1163399008823 carbon starvation protein A; Provisional; Region: PRK15015 1163399008824 Carbon starvation protein CstA; Region: CstA; pfam02554 1163399008825 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1163399008826 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1163399008827 Protein of unknown function (DUF819); Region: DUF819; cl02317 1163399008828 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1163399008829 active site 1163399008830 metal binding site [ion binding]; metal-binding site 1163399008831 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399008832 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399008833 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 1163399008834 dimer interface [polypeptide binding]; other site 1163399008835 phosphorylation site [posttranslational modification] 1163399008836 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 1163399008837 ATP binding site [chemical binding]; other site 1163399008838 Mg2+ binding site [ion binding]; other site 1163399008839 G-X-G motif; other site 1163399008840 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399008841 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 1163399008842 active site 1163399008843 phosphorylation site [posttranslational modification] 1163399008844 intermolecular recognition site; other site 1163399008845 dimerization interface [polypeptide binding]; other site 1163399008846 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 1163399008847 DNA binding site [nucleotide binding] 1163399008848 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1163399008849 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1163399008850 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 1163399008851 active site 1163399008852 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1163399008853 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1163399008854 Sulfatase; Region: Sulfatase; pfam00884 1163399008855 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 1163399008856 active site 1163399008857 Zn binding site [ion binding]; other site 1163399008858 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1163399008859 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 1163399008860 FAD binding pocket [chemical binding]; other site 1163399008861 FAD binding motif [chemical binding]; other site 1163399008862 phosphate binding motif [ion binding]; other site 1163399008863 NAD binding pocket [chemical binding]; other site 1163399008864 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1163399008865 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399008866 putative substrate translocation pore; other site 1163399008867 glycine dehydrogenase; Provisional; Region: PRK05367 1163399008868 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 1163399008869 tetramer interface [polypeptide binding]; other site 1163399008870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399008871 catalytic residue [active] 1163399008872 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 1163399008873 tetramer interface [polypeptide binding]; other site 1163399008874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399008875 catalytic residue [active] 1163399008876 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 1163399008877 dimer interface [polypeptide binding]; other site 1163399008878 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1163399008879 PAS fold; Region: PAS_4; pfam08448 1163399008880 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 1163399008881 putative active site [active] 1163399008882 heme pocket [chemical binding]; other site 1163399008883 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163399008884 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399008885 hydroperoxidase II; Provisional; Region: katE; PRK11249 1163399008886 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1163399008887 heme binding pocket [chemical binding]; other site 1163399008888 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1163399008889 domain interactions; other site 1163399008890 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399008891 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1163399008892 dimerization interface [polypeptide binding]; other site 1163399008893 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1163399008894 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399008895 dimer interface [polypeptide binding]; other site 1163399008896 putative CheW interface [polypeptide binding]; other site 1163399008897 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163399008898 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1163399008899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1163399008900 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1163399008901 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163399008902 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163399008903 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1163399008904 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 1163399008905 GDP-binding site [chemical binding]; other site 1163399008906 ACT binding site; other site 1163399008907 IMP binding site; other site 1163399008908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1163399008909 FtsH protease regulator HflC; Provisional; Region: PRK11029 1163399008910 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 1163399008911 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 1163399008912 HflK protein; Region: hflK; TIGR01933 1163399008913 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1163399008914 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1163399008915 NADP binding site [chemical binding]; other site 1163399008916 dimer interface [polypeptide binding]; other site 1163399008917 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399008918 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 1163399008919 active site 1163399008920 phosphorylation site [posttranslational modification] 1163399008921 intermolecular recognition site; other site 1163399008922 dimerization interface [polypeptide binding]; other site 1163399008923 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1163399008924 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 1163399008925 HSP70 interaction site [polypeptide binding]; other site 1163399008926 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1163399008927 substrate binding site [polypeptide binding]; other site 1163399008928 dimer interface [polypeptide binding]; other site 1163399008929 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1163399008930 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1163399008931 catalytic triad [active] 1163399008932 dimer interface [polypeptide binding]; other site 1163399008933 Ferritin-like domain; Region: Ferritin; pfam00210 1163399008934 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1163399008935 dinuclear metal binding motif [ion binding]; other site 1163399008936 penicillin-binding protein 1C; Provisional; Region: PRK11240 1163399008937 Transglycosylase; Region: Transgly; pfam00912 1163399008938 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1163399008939 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1163399008940 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1163399008941 MG2 domain; Region: A2M_N; pfam01835 1163399008942 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1163399008943 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 1163399008944 surface patch; other site 1163399008945 thioester region; other site 1163399008946 specificity defining residues; other site 1163399008947 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1163399008948 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1163399008949 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1163399008950 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1163399008951 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1163399008952 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1163399008953 substrate binding site [chemical binding]; other site 1163399008954 ligand binding site [chemical binding]; other site 1163399008955 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 1163399008956 substrate binding site [chemical binding]; other site 1163399008957 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1163399008958 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 1163399008959 dimer interface [polypeptide binding]; other site 1163399008960 active site 1163399008961 citrylCoA binding site [chemical binding]; other site 1163399008962 oxalacetate/citrate binding site [chemical binding]; other site 1163399008963 coenzyme A binding site [chemical binding]; other site 1163399008964 catalytic triad [active] 1163399008965 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1163399008966 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 1163399008967 tetramer interface [polypeptide binding]; other site 1163399008968 active site 1163399008969 Mg2+/Mn2+ binding site [ion binding]; other site 1163399008970 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 1163399008971 Propionate catabolism activator; Region: PrpR_N; pfam06506 1163399008972 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 1163399008973 Walker A motif; other site 1163399008974 ATP binding site [chemical binding]; other site 1163399008975 Walker B motif; other site 1163399008976 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1163399008977 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1163399008978 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1163399008979 D-glycerate 3-kinase; Region: PLN02796 1163399008980 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 1163399008981 Dodecin; Region: Dodecin; pfam07311 1163399008982 shikimate kinase; Reviewed; Region: aroK; PRK00131 1163399008983 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 1163399008984 ADP binding site [chemical binding]; other site 1163399008985 magnesium binding site [ion binding]; other site 1163399008986 putative shikimate binding site; other site 1163399008987 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1163399008988 active site 1163399008989 dimer interface [polypeptide binding]; other site 1163399008990 metal binding site [ion binding]; metal-binding site 1163399008991 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 1163399008992 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 1163399008993 substrate binding site [chemical binding]; other site 1163399008994 active site 1163399008995 putative transporter; Provisional; Region: PRK10504 1163399008996 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399008997 putative substrate translocation pore; other site 1163399008998 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1163399008999 Two component regulator propeller; Region: Reg_prop; pfam07494 1163399009000 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1163399009001 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399009002 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 1163399009003 dimer interface [polypeptide binding]; other site 1163399009004 phosphorylation site [posttranslational modification] 1163399009005 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 1163399009006 ATP binding site [chemical binding]; other site 1163399009007 Mg2+ binding site [ion binding]; other site 1163399009008 G-X-G motif; other site 1163399009009 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163399009010 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 1163399009011 active site 1163399009012 phosphorylation site [posttranslational modification] 1163399009013 intermolecular recognition site; other site 1163399009014 dimerization interface [polypeptide binding]; other site 1163399009015 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1163399009016 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1163399009017 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 1163399009018 dimer interface [polypeptide binding]; other site 1163399009019 phosphorylation site [posttranslational modification] 1163399009020 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 1163399009021 ATP binding site [chemical binding]; other site 1163399009022 Mg2+ binding site [ion binding]; other site 1163399009023 G-X-G motif; other site 1163399009024 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1163399009025 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1163399009026 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1163399009027 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1163399009028 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1163399009029 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1163399009030 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1163399009031 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 1163399009032 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163399009033 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1163399009034 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1163399009035 cystathionine gamma-synthase; Provisional; Region: PRK08776 1163399009036 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 1163399009037 homodimer interface [polypeptide binding]; other site 1163399009038 substrate-cofactor binding pocket; other site 1163399009039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399009040 catalytic residue [active] 1163399009041 homoserine O-acetyltransferase; Provisional; Region: PRK08775 1163399009042 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1163399009043 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163399009044 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163399009045 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1163399009046 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1163399009047 G1 box; other site 1163399009048 putative GEF interaction site [polypeptide binding]; other site 1163399009049 GTP/Mg2+ binding site [chemical binding]; other site 1163399009050 Switch I region; other site 1163399009051 G2 box; other site 1163399009052 G3 box; other site 1163399009053 Switch II region; other site 1163399009054 G4 box; other site 1163399009055 G5 box; other site 1163399009056 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 1163399009057 Haemolysin-III related; Region: HlyIII; cl03831 1163399009058 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1163399009060 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_10; cd04623 1163399009061 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1163399009062 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1163399009063 Ligand binding site; other site 1163399009064 Putative Catalytic site; other site 1163399009065 DXD motif; other site 1163399009066 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1163399009067 Transglycosylase; Region: Transgly; cl17702 1163399009068 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1163399009069 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 1163399009070 dimerization interface [polypeptide binding]; other site 1163399009071 domain crossover interface; other site 1163399009072 redox-dependent activation switch; other site 1163399009073 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1163399009074 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 1163399009075 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 1163399009076 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399009077 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399009078 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399009079 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1163399009080 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1163399009081 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1163399009082 active site 1163399009083 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1163399009084 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 1163399009085 CoenzymeA binding site [chemical binding]; other site 1163399009086 subunit interaction site [polypeptide binding]; other site 1163399009087 PHB binding site; other site 1163399009088 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1163399009089 TLC ATP/ADP transporter; Region: TLC; cl03940 1163399009090 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163399009091 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163399009092 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163399009093 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1163399009094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399009095 NAD(P) binding site [chemical binding]; other site 1163399009096 active site 1163399009097 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399009098 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399009099 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_8; cd08477 1163399009100 putative effector binding pocket; other site 1163399009101 putative dimerization interface [polypeptide binding]; other site 1163399009102 glycine cleavage system protein H; Provisional; Region: PRK13380 1163399009103 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 1163399009104 lipoyl attachment site [posttranslational modification]; other site 1163399009105 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1163399009106 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1163399009107 Protein of unknown function (DUF962); Region: DUF962; pfam06127 1163399009108 hypothetical protein; Provisional; Region: PRK02237 1163399009109 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1163399009110 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 1163399009111 homodimer interface [polypeptide binding]; other site 1163399009112 metal binding site [ion binding]; metal-binding site 1163399009113 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 1163399009114 homodimer interface [polypeptide binding]; other site 1163399009115 active site 1163399009116 putative chemical substrate binding site [chemical binding]; other site 1163399009117 metal binding site [ion binding]; metal-binding site 1163399009118 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 1163399009119 active site 1163399009120 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1163399009121 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 1163399009122 dimer interface [polypeptide binding]; other site 1163399009123 ADP-ribose binding site [chemical binding]; other site 1163399009124 active site 1163399009125 nudix motif; other site 1163399009126 metal binding site [ion binding]; metal-binding site 1163399009127 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK08742 1163399009128 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 1163399009129 inhibitor-cofactor binding pocket; inhibition site 1163399009130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399009131 catalytic residue [active] 1163399009132 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1163399009135 CheW-like domain; Region: CheW; pfam01584 1163399009136 CheB methylesterase; Region: CheB_methylest; pfam01339 1163399009137 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 1163399009138 putative binding surface; other site 1163399009139 active site 1163399009140 Hpt domain; Region: Hpt; pfam01627 1163399009141 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 1163399009142 putative binding surface; other site 1163399009143 active site 1163399009144 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1163399009145 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1163399009146 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 1163399009147 ATP binding site [chemical binding]; other site 1163399009148 Mg2+ binding site [ion binding]; other site 1163399009149 G-X-G motif; other site 1163399009150 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 1163399009151 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399009152 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 1163399009153 active site 1163399009154 phosphorylation site [posttranslational modification] 1163399009155 intermolecular recognition site; other site 1163399009156 dimerization interface [polypeptide binding]; other site 1163399009157 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163399009158 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399009159 dimer interface [polypeptide binding]; other site 1163399009160 putative CheW interface [polypeptide binding]; other site 1163399009161 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 1163399009162 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399009163 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 1163399009164 active site 1163399009165 phosphorylation site [posttranslational modification] 1163399009166 intermolecular recognition site; other site 1163399009167 dimerization interface [polypeptide binding]; other site 1163399009168 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 1163399009169 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399009170 active site 1163399009171 phosphorylation site [posttranslational modification] 1163399009172 intermolecular recognition site; other site 1163399009173 dimerization interface [polypeptide binding]; other site 1163399009174 glutathione synthetase; Provisional; Region: PRK05246 1163399009175 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1163399009176 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1163399009177 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163399009178 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163399009179 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1163399009180 Glycoprotease family; Region: Peptidase_M22; pfam00814 1163399009181 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1163399009182 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1163399009183 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1163399009184 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1163399009185 Transglycosylase; Region: Transgly; pfam00912 1163399009186 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1163399009187 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1163399009188 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1163399009189 Probable Catalytic site; other site 1163399009190 metal-binding site 1163399009191 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163399009192 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1163399009193 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1163399009194 HD domain; Region: HD_4; pfam13328 1163399009195 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1163399009196 synthetase active site [active] 1163399009197 NTP binding site [chemical binding]; other site 1163399009198 metal binding site [ion binding]; metal-binding site 1163399009199 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 1163399009200 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1163399009201 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1163399009202 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 1163399009203 ATP binding site [chemical binding]; other site 1163399009204 putative Mg++ binding site [ion binding]; other site 1163399009205 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 1163399009206 nucleotide binding region [chemical binding]; other site 1163399009207 ATP-binding site [chemical binding]; other site 1163399009208 Helicase associated domain (HA2); Region: HA2; pfam04408 1163399009209 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1163399009210 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1163399009211 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1163399009212 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1163399009213 dimerization interface [polypeptide binding]; other site 1163399009214 DPS ferroxidase diiron center [ion binding]; other site 1163399009215 ion pore; other site 1163399009216 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1163399009217 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 1163399009218 ATP binding site [chemical binding]; other site 1163399009219 putative Mg++ binding site [ion binding]; other site 1163399009220 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 1163399009221 nucleotide binding region [chemical binding]; other site 1163399009222 ATP-binding site [chemical binding]; other site 1163399009223 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1163399009224 HRDC domain; Region: HRDC; pfam00570 1163399009225 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1163399009226 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1163399009227 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1163399009228 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1163399009229 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1163399009230 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1163399009231 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399009232 Coenzyme A binding pocket [chemical binding]; other site 1163399009233 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 1163399009234 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399009235 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 1163399009236 active site 1163399009237 phosphorylation site [posttranslational modification] 1163399009238 intermolecular recognition site; other site 1163399009239 dimerization interface [polypeptide binding]; other site 1163399009240 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1163399009241 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1163399009242 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1163399009243 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1163399009244 Phage portal protein; Region: Phage_portal; pfam04860 1163399009245 terminase ATPase subunit; Provisional; Region: P; PHA02535 1163399009246 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1163399009247 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1163399009248 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 1163399009249 capsid protein; Provisional; Region: N; PHA02538 1163399009250 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1163399009251 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1163399009252 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1163399009253 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1163399009254 Protein of unknown function (DUF754); Region: DUF754; pfam05449 1163399009255 Predicted chitinase [General function prediction only]; Region: COG3179 1163399009256 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1163399009257 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1163399009258 Baseplate J-like protein; Region: Baseplate_J; cl01294 1163399009259 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1163399009260 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 1163399009261 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1163399009262 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1163399009263 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1163399009264 major tail sheath protein; Provisional; Region: FI; PHA02560 1163399009265 major tail tube protein; Provisional; Region: FII; PHA02600 1163399009266 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1163399009267 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 1163399009268 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1163399009269 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1163399009270 tail protein; Provisional; Region: D; PHA02561 1163399009271 Protein of unknown function (DUF983); Region: DUF983; cl02211 1163399009272 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1163399009273 active site 1163399009274 metal binding site [ion binding]; metal-binding site 1163399009275 interdomain interaction site; other site 1163399009276 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1163399009277 active site 1163399009278 catalytic residues [active] 1163399009279 DNA binding site [nucleotide binding] 1163399009280 Int/Topo IB signature motif; other site 1163399009281 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 1163399009282 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 1163399009283 Ligand Binding Site [chemical binding]; other site 1163399009284 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 1163399009285 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 1163399009286 FeS/SAM binding site; other site 1163399009287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1163399009288 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 1163399009289 binding surface 1163399009290 TPR motif; other site 1163399009291 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1163399009292 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163399009293 ligand binding site [chemical binding]; other site 1163399009294 translocation protein TolB; Provisional; Region: tolB; PRK04922 1163399009295 TolB amino-terminal domain; Region: TolB_N; pfam04052 1163399009296 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163399009297 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163399009298 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163399009299 TolA protein; Region: tolA_full; TIGR02794 1163399009300 TonB C terminal; Region: TonB_2; pfam13103 1163399009301 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163399009302 TolR protein; Region: tolR; TIGR02801 1163399009303 TolQ protein; Region: tolQ; TIGR02796 1163399009304 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 1163399009305 active site 1163399009306 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1163399009307 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 1163399009308 Walker A motif; other site 1163399009309 ATP binding site [chemical binding]; other site 1163399009310 Walker B motif; other site 1163399009311 arginine finger; other site 1163399009312 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1163399009313 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1163399009314 potassium uptake protein; Region: kup; TIGR00794 1163399009315 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1163399009316 RuvA N terminal domain; Region: RuvA_N; pfam01330 1163399009317 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1163399009318 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 1163399009319 active site 1163399009320 putative DNA-binding cleft [nucleotide binding]; other site 1163399009321 dimer interface [polypeptide binding]; other site 1163399009322 hypothetical protein; Validated; Region: PRK00110 1163399009323 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1163399009324 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399009325 Coenzyme A binding pocket [chemical binding]; other site 1163399009326 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1163399009327 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 1163399009328 dimer interface [polypeptide binding]; other site 1163399009329 anticodon binding site; other site 1163399009330 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 1163399009331 homodimer interface [polypeptide binding]; other site 1163399009332 motif 1; other site 1163399009333 active site 1163399009334 motif 2; other site 1163399009335 GAD domain; Region: GAD; pfam02938 1163399009336 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 1163399009337 motif 3; other site 1163399009338 Protein of unknown function (DUF3011); Region: DUF3011; pfam11218 1163399009339 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1163399009340 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1163399009341 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1163399009342 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1163399009343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399009344 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 1163399009345 dimerization interface [polypeptide binding]; other site 1163399009346 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1163399009347 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163399009348 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163399009349 ABC transporter; Region: ABC_tran_2; pfam12848 1163399009350 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163399009351 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399009352 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 1163399009353 N-terminal plug; other site 1163399009354 ligand-binding site [chemical binding]; other site 1163399009355 putative cation:proton antiport protein; Provisional; Region: PRK10669 1163399009356 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1163399009357 TrkA-N domain; Region: TrkA_N; pfam02254 1163399009358 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399009359 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 1163399009360 active site 1163399009361 phosphorylation site [posttranslational modification] 1163399009362 intermolecular recognition site; other site 1163399009363 dimerization interface [polypeptide binding]; other site 1163399009364 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 1163399009365 DNA binding site [nucleotide binding] 1163399009366 sensor protein RstB; Provisional; Region: PRK10604 1163399009367 HAMP domain; Region: HAMP; pfam00672 1163399009368 dimerization interface [polypeptide binding]; other site 1163399009369 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; cl00080 1163399009370 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 1163399009371 ATP binding site [chemical binding]; other site 1163399009372 Mg2+ binding site [ion binding]; other site 1163399009373 G-X-G motif; other site 1163399009374 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1163399009375 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1163399009376 Clp amino terminal domain; Region: Clp_N; pfam02861 1163399009377 Clp amino terminal domain; Region: Clp_N; pfam02861 1163399009378 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 1163399009379 Walker A motif; other site 1163399009380 ATP binding site [chemical binding]; other site 1163399009381 Walker B motif; other site 1163399009382 arginine finger; other site 1163399009383 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 1163399009384 Walker A motif; other site 1163399009385 ATP binding site [chemical binding]; other site 1163399009386 Walker B motif; other site 1163399009387 arginine finger; other site 1163399009388 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1163399009389 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 1163399009390 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 1163399009391 glutathione s-transferase; Provisional; Region: PTZ00057 1163399009392 GSH binding site (G-site) [chemical binding]; other site 1163399009393 C-terminal domain interface [polypeptide binding]; other site 1163399009394 dimer interface [polypeptide binding]; other site 1163399009395 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 1163399009396 dimer interface [polypeptide binding]; other site 1163399009397 N-terminal domain interface [polypeptide binding]; other site 1163399009398 substrate binding pocket (H-site) [chemical binding]; other site 1163399009399 pyruvate dehydrogenase; Provisional; Region: PRK09124 1163399009400 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1163399009401 PYR/PP interface [polypeptide binding]; other site 1163399009402 dimer interface [polypeptide binding]; other site 1163399009403 tetramer interface [polypeptide binding]; other site 1163399009404 TPP binding site [chemical binding]; other site 1163399009405 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1163399009406 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 1163399009407 TPP-binding site [chemical binding]; other site 1163399009408 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 1163399009409 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1163399009410 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 1163399009411 N-terminal plug; other site 1163399009412 ligand-binding site [chemical binding]; other site 1163399009413 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1163399009414 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 1163399009415 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1163399009416 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1163399009417 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 1163399009418 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1163399009419 active site 1163399009420 homotetramer interface [polypeptide binding]; other site 1163399009421 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 1163399009422 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 1163399009423 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1163399009424 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1163399009425 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1163399009426 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 1163399009427 RNA binding surface [nucleotide binding]; other site 1163399009428 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163399009429 active site 1163399009430 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1163399009431 Secretory lipase; Region: LIP; pfam03583 1163399009432 NAD synthetase; Provisional; Region: PRK13981 1163399009433 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1163399009434 multimer interface [polypeptide binding]; other site 1163399009435 active site 1163399009436 catalytic triad [active] 1163399009437 protein interface 1 [polypeptide binding]; other site 1163399009438 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 1163399009439 homodimer interface [polypeptide binding]; other site 1163399009440 NAD binding pocket [chemical binding]; other site 1163399009441 ATP binding pocket [chemical binding]; other site 1163399009442 Mg binding site [ion binding]; other site 1163399009443 active-site loop [active] 1163399009444 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1163399009445 CoA binding domain; Region: CoA_binding; smart00881 1163399009446 CoA-ligase; Region: Ligase_CoA; pfam00549 1163399009447 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1163399009448 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1163399009449 CoA-ligase; Region: Ligase_CoA; pfam00549 1163399009450 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1163399009451 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 1163399009452 dimer interface [polypeptide binding]; other site 1163399009453 phosphorylation site [posttranslational modification] 1163399009454 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 1163399009455 ATP binding site [chemical binding]; other site 1163399009456 Mg2+ binding site [ion binding]; other site 1163399009457 G-X-G motif; other site 1163399009458 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1163399009459 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 1163399009460 active site 1163399009461 phosphorylation site [posttranslational modification] 1163399009462 intermolecular recognition site; other site 1163399009463 dimerization interface [polypeptide binding]; other site 1163399009464 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 1163399009465 Walker A motif; other site 1163399009466 ATP binding site [chemical binding]; other site 1163399009467 Walker B motif; other site 1163399009468 arginine finger; other site 1163399009469 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163399009470 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1163399009471 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1163399009472 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 1163399009473 Walker A motif; other site 1163399009474 ATP binding site [chemical binding]; other site 1163399009475 Walker B motif; other site 1163399009476 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1163399009477 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1163399009478 Pilin (bacterial filament); Region: Pilin; pfam00114 1163399009479 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1163399009480 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163399009481 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1163399009482 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 1163399009483 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1163399009484 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1163399009485 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1163399009486 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 1163399009487 CoA-binding site [chemical binding]; other site 1163399009488 ATP-binding [chemical binding]; other site 1163399009489 Transposase; Region: HTH_Tnp_1; pfam01527 1163399009490 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1163399009491 HTH-like domain; Region: HTH_21; pfam13276 1163399009492 Integrase core domain; Region: rve; pfam00665 1163399009493 Integrase core domain; Region: rve_3; pfam13683 1163399009494 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399009495 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 1163399009496 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 1163399009497 dimer interface [polypeptide binding]; other site 1163399009498 phosphorylation site [posttranslational modification] 1163399009499 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 1163399009500 ATP binding site [chemical binding]; other site 1163399009501 Mg2+ binding site [ion binding]; other site 1163399009502 G-X-G motif; other site 1163399009503 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399009504 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 1163399009505 active site 1163399009506 phosphorylation site [posttranslational modification] 1163399009507 intermolecular recognition site; other site 1163399009508 dimerization interface [polypeptide binding]; other site 1163399009509 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 1163399009510 DNA binding site [nucleotide binding] 1163399009511 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1163399009512 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163399009513 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1163399009514 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399009515 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399009516 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1163399009517 putative active site [active] 1163399009518 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1163399009519 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163399009520 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1163399009521 Walker A/P-loop; other site 1163399009522 ATP binding site [chemical binding]; other site 1163399009523 Q-loop/lid; other site 1163399009524 ABC transporter signature motif; other site 1163399009525 Walker B; other site 1163399009526 D-loop; other site 1163399009527 H-loop/switch region; other site 1163399009528 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1163399009529 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 1163399009530 active site 1163399009531 catalytic triad [active] 1163399009532 oxyanion hole [active] 1163399009533 Autotransporter beta-domain; Region: Autotransporter; cl17461 1163399009534 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1163399009535 thiS-thiF/thiG interaction site; other site 1163399009536 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 1163399009537 ThiS interaction site; other site 1163399009538 putative active site [active] 1163399009539 tetramer interface [polypeptide binding]; other site 1163399009540 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 1163399009541 S-adenosylmethionine binding site [chemical binding]; other site 1163399009542 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1163399009543 transmembrane helices; other site 1163399009544 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1163399009545 TrkA-C domain; Region: TrkA_C; pfam02080 1163399009546 TrkA-C domain; Region: TrkA_C; pfam02080 1163399009547 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 1163399009548 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; cd03467 1163399009549 iron-sulfur cluster [ion binding]; other site 1163399009550 [2Fe-2S] cluster binding site [ion binding]; other site 1163399009551 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 1163399009552 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1163399009553 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1163399009554 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1163399009555 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1163399009556 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 1163399009557 PA/protease or protease-like domain interface [polypeptide binding]; other site 1163399009558 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 1163399009559 Peptidase family M28; Region: Peptidase_M28; pfam04389 1163399009560 metal binding site [ion binding]; metal-binding site 1163399009561 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1163399009562 amino acid carrier protein; Region: agcS; TIGR00835 1163399009563 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1163399009564 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1163399009565 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1163399009566 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1163399009567 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1163399009568 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1163399009569 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163399009570 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163399009571 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399009572 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399009573 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1163399009574 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 1163399009575 N-terminal plug; other site 1163399009576 ligand-binding site [chemical binding]; other site 1163399009577 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12680 1163399009578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399009579 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 1163399009580 dimerization interface [polypeptide binding]; other site 1163399009581 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1163399009582 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 1163399009583 dimer interface [polypeptide binding]; other site 1163399009584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399009585 catalytic residue [active] 1163399009586 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 1163399009587 putative ADP-ribose binding site [chemical binding]; other site 1163399009588 putative active site [active] 1163399009589 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 1163399009590 active site 1163399009591 intersubunit interface [polypeptide binding]; other site 1163399009592 catalytic residue [active] 1163399009593 pyruvate kinase; Provisional; Region: PRK05826 1163399009594 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; cl17342 1163399009595 domain interfaces; other site 1163399009596 active site 1163399009597 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1163399009598 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 1163399009599 motif II; other site 1163399009600 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1163399009601 Phosphoglycerate kinase; Region: PGK; pfam00162 1163399009602 substrate binding site [chemical binding]; other site 1163399009603 hinge regions; other site 1163399009604 ADP binding site [chemical binding]; other site 1163399009605 catalytic site [active] 1163399009606 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 1163399009607 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 1163399009608 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1163399009609 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1163399009610 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1163399009611 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1163399009612 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 1163399009613 active site 1163399009614 Zn binding site [ion binding]; other site 1163399009615 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1163399009616 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1163399009617 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163399009618 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163399009619 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1163399009620 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1163399009621 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1163399009622 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1163399009623 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1163399009624 sequence-specific DNA binding site [nucleotide binding]; other site 1163399009625 salt bridge; other site 1163399009626 transketolase; Reviewed; Region: PRK12753 1163399009627 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 1163399009628 TPP-binding site [chemical binding]; other site 1163399009629 dimer interface [polypeptide binding]; other site 1163399009630 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 1163399009631 PYR/PP interface [polypeptide binding]; other site 1163399009632 dimer interface [polypeptide binding]; other site 1163399009633 TPP binding site [chemical binding]; other site 1163399009634 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163399009635 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1163399009636 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1163399009637 Oxygen tolerance; Region: BatD; pfam13584 1163399009638 Oxygen tolerance; Region: BatD; pfam13584 1163399009639 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1163399009640 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1163399009641 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 1163399009642 binding surface 1163399009643 TPR motif; other site 1163399009644 VWA BatA 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_BatA_type; cd01467 1163399009645 metal ion-dependent adhesion site (MIDAS); other site 1163399009646 Protein of unknown function DUF58; Region: DUF58; pfam01882 1163399009647 MoxR-like ATPases [General function prediction only]; Region: COG0714 1163399009648 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 1163399009649 Walker A motif; other site 1163399009650 ATP binding site [chemical binding]; other site 1163399009651 Walker B motif; other site 1163399009652 arginine finger; other site 1163399009653 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1163399009654 Secretin and TonB N terminus short domain; Region: STN; smart00965 1163399009655 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1163399009656 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1163399009657 Pilus assembly protein, PilP; Region: PilP; pfam04351 1163399009658 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 1163399009659 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1163399009660 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1163399009661 Competence protein A; Region: Competence_A; pfam11104 1163399009662 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1163399009663 Transglycosylase; Region: Transgly; pfam00912 1163399009664 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1163399009665 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1163399009667 putative fimbrial protein TcfA; Provisional; Region: PRK15308 1163399009669 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 1163399009670 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1163399009671 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; pfam04449 1163399009672 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 1163399009673 dimer interface [polypeptide binding]; other site 1163399009674 Citrate synthase; Region: Citrate_synt; pfam00285 1163399009675 active site 1163399009676 citrylCoA binding site [chemical binding]; other site 1163399009677 NADH binding [chemical binding]; other site 1163399009678 cationic pore residues; other site 1163399009679 oxalacetate/citrate binding site [chemical binding]; other site 1163399009680 coenzyme A binding site [chemical binding]; other site 1163399009681 catalytic triad [active] 1163399009682 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1163399009683 nuc_hydro_CeIAG: Nucleoside hydrolases similar to the inosine-adenosine-guanosine-preferring nucleoside hydrolase from Caenorhabditis elegans. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_CeIAG; cd02649 1163399009684 active site 1163399009685 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1163399009686 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 1163399009687 generic binding surface II; other site 1163399009688 ssDNA binding site; other site 1163399009689 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 1163399009690 ATP binding site [chemical binding]; other site 1163399009691 putative Mg++ binding site [ion binding]; other site 1163399009692 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 1163399009693 nucleotide binding region [chemical binding]; other site 1163399009694 ATP-binding site [chemical binding]; other site 1163399009695 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 1163399009696 homotrimer interaction site [polypeptide binding]; other site 1163399009697 putative active site [active] 1163399009698 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1163399009699 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163399009700 Zn2+ binding site [ion binding]; other site 1163399009701 Mg2+ binding site [ion binding]; other site 1163399009702 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1163399009703 synthetase active site [active] 1163399009704 NTP binding site [chemical binding]; other site 1163399009705 metal binding site [ion binding]; metal-binding site 1163399009706 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 1163399009707 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1163399009708 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1163399009709 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1163399009710 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 1163399009711 catalytic site [active] 1163399009712 G-X2-G-X-G-K; other site 1163399009713 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 1163399009714 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 1163399009715 [4Fe-4S] binding site [ion binding]; other site 1163399009716 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 1163399009717 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 1163399009718 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 1163399009719 molybdopterin cofactor binding site; other site 1163399009720 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1163399009721 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1163399009722 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1163399009723 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1163399009724 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1163399009725 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1163399009726 selenocysteine synthase; Provisional; Region: PRK04311 1163399009727 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1163399009728 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163399009729 catalytic residue [active] 1163399009730 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1163399009731 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1163399009732 G1 box; other site 1163399009733 putative GEF interaction site [polypeptide binding]; other site 1163399009734 GTP/Mg2+ binding site [chemical binding]; other site 1163399009735 Switch I region; other site 1163399009736 G2 box; other site 1163399009737 G3 box; other site 1163399009738 Switch II region; other site 1163399009739 G4 box; other site 1163399009740 G5 box; other site 1163399009741 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 1163399009742 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 1163399009743 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1163399009744 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1163399009745 selenophosphate synthetase; Provisional; Region: PRK00943 1163399009746 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 1163399009747 dimerization interface [polypeptide binding]; other site 1163399009748 putative ATP binding site [chemical binding]; other site 1163399009749 hypothetical protein; Provisional; Region: PRK11820 1163399009750 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1163399009751 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1163399009752 ribonuclease PH; Reviewed; Region: rph; PRK00173 1163399009753 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1163399009754 hexamer interface [polypeptide binding]; other site 1163399009755 active site 1163399009756 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399009757 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_16; cd07263 1163399009758 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 1163399009759 active site 1163399009760 dimerization interface [polypeptide binding]; other site 1163399009761 HemN family oxidoreductase; Provisional; Region: PRK05660 1163399009762 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 1163399009763 FeS/SAM binding site; other site 1163399009764 HemN C-terminal domain; Region: HemN_C; pfam06969 1163399009765 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1163399009766 PilZ domain; Region: PilZ; pfam07238 1163399009767 proline dipeptidase; Provisional; Region: PRK13607 1163399009768 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 1163399009769 active site 1163399009770 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 1163399009771 proline aminopeptidase P II; Provisional; Region: PRK10879 1163399009772 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 1163399009773 active site 1163399009774 hypothetical protein; Validated; Region: PRK04758 1163399009775 TIGR02449 family protein; Region: TIGR02449 1163399009776 Cell division protein ZapA; Region: ZapA; cl01146 1163399009777 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1163399009778 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1163399009779 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 1163399009780 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1163399009781 active site 1163399009782 dimer interface [polypeptide binding]; other site 1163399009783 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1163399009784 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1163399009785 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1163399009786 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 1163399009787 binding surface 1163399009788 TPR motif; other site 1163399009789 Rubredoxin [Energy production and conversion]; Region: COG1773 1163399009790 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 1163399009791 iron binding site [ion binding]; other site 1163399009792 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 1163399009793 thiamine phosphate binding site [chemical binding]; other site 1163399009794 active site 1163399009795 pyrophosphate binding site [ion binding]; other site 1163399009796 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1163399009797 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 1163399009798 inhibitor-cofactor binding pocket; inhibition site 1163399009799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399009800 catalytic residue [active] 1163399009801 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1163399009802 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1163399009803 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 1163399009804 motif II; other site 1163399009805 acetylornithine transaminase protein; Provisional; Region: argD; PRK04612 1163399009806 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 1163399009807 inhibitor-cofactor binding pocket; inhibition site 1163399009808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399009809 catalytic residue [active] 1163399009810 Ion transport protein; Region: Ion_trans; pfam00520 1163399009811 Ion channel; Region: Ion_trans_2; pfam07885 1163399009812 Double zinc ribbon; Region: DZR; pfam12773 1163399009813 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1163399009814 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 1163399009815 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 1163399009816 short chain dehydrogenase; Provisional; Region: PRK08278 1163399009817 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 1163399009818 NAD(P) binding site [chemical binding]; other site 1163399009819 homodimer interface [polypeptide binding]; other site 1163399009820 active site 1163399009821 RHS Repeat; Region: RHS_repeat; pfam05593 1163399009822 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1163399009823 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 1163399009824 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1163399009825 serine/threonine protein kinase; Provisional; Region: PRK12274 1163399009826 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1163399009827 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1163399009828 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1163399009829 active site 1163399009830 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1163399009831 LssY C-terminus; Region: LssY_C; pfam14067 1163399009832 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1163399009833 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1163399009834 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1163399009835 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163399009836 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163399009837 adenylate kinase; Reviewed; Region: adk; PRK00279 1163399009838 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 1163399009839 AMP-binding site [chemical binding]; other site 1163399009840 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1163399009841 6-phosphofructokinase; Provisional; Region: PRK14072 1163399009842 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1163399009843 active site 1163399009844 ADP/pyrophosphate binding site [chemical binding]; other site 1163399009845 dimerization interface [polypeptide binding]; other site 1163399009846 allosteric effector site; other site 1163399009847 fructose-1,6-bisphosphate binding site; other site 1163399009848 Protein of unknown function, DUF488; Region: DUF488; cl01246 1163399009849 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1163399009850 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 1163399009851 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163399009852 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163399009853 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163399009854 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1163399009855 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1163399009856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1163399009857 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1163399009858 heme binding pocket [chemical binding]; other site 1163399009859 heme ligand [chemical binding]; other site 1163399009860 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1163399009861 Secretin and TonB N terminus short domain; Region: STN; smart00965 1163399009862 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399009863 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 1163399009864 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 1163399009865 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1163399009866 FecR protein; Region: FecR; pfam04773 1163399009867 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1163399009868 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 1163399009869 DNA binding residues [nucleotide binding] 1163399009870 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 1163399009871 substrate binding site [chemical binding]; other site 1163399009872 metal binding sites [ion binding]; metal-binding site 1163399009873 dimer interface [polypeptide binding]; other site 1163399009874 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; cl17736 1163399009875 active site 1163399009876 phosphorylation site [posttranslational modification] 1163399009877 intermolecular recognition site; other site 1163399009878 HDOD domain; Region: HDOD; pfam08668 1163399009879 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1163399009880 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 1163399009881 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 1163399009882 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399009883 Helix-turn-helix domain; Region: HTH_18; pfam12833 1163399009884 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399009885 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 1163399009886 DNA binding site [nucleotide binding] 1163399009887 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1163399009888 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163399009889 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1163399009890 ThiC-associated domain; Region: ThiC-associated; pfam13667 1163399009891 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1163399009892 BCCT family transporter; Region: BCCT; pfam02028 1163399009893 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1163399009894 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1163399009895 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1163399009896 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1163399009897 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1163399009898 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1163399009899 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1163399009900 PYR/PP interface [polypeptide binding]; other site 1163399009901 dimer interface [polypeptide binding]; other site 1163399009902 TPP binding site [chemical binding]; other site 1163399009903 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1163399009904 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 1163399009905 TPP-binding site [chemical binding]; other site 1163399009906 dimer interface [polypeptide binding]; other site 1163399009907 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1163399009908 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1163399009909 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 1163399009910 tetramer interface [polypeptide binding]; other site 1163399009911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399009912 catalytic residue [active] 1163399009913 2-isopropylmalate synthase; Validated; Region: PRK00915 1163399009914 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1163399009915 active site 1163399009916 catalytic residues [active] 1163399009917 metal binding site [ion binding]; metal-binding site 1163399009918 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1163399009919 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1163399009920 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 1163399009921 S-adenosylmethionine binding site [chemical binding]; other site 1163399009922 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1163399009923 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1163399009924 substrate binding site [chemical binding]; other site 1163399009925 ligand binding site [chemical binding]; other site 1163399009926 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1163399009927 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 1163399009928 substrate binding site [chemical binding]; other site 1163399009929 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1163399009930 tartrate dehydrogenase; Region: TTC; TIGR02089 1163399009931 short chain dehydrogenase; Provisional; Region: PRK12744 1163399009932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399009933 NAD(P) binding site [chemical binding]; other site 1163399009934 active site 1163399009935 transcriptional regulator; Provisional; Region: PRK10632 1163399009936 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399009937 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 1163399009938 putative effector binding pocket; other site 1163399009939 putative dimerization interface [polypeptide binding]; other site 1163399009940 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163399009941 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399009942 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399009943 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399009944 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399009945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399009946 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1163399009947 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1163399009948 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 1163399009949 S-adenosylmethionine binding site [chemical binding]; other site 1163399009950 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1163399009951 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1163399009952 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1163399009953 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1163399009954 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1163399009955 putative acyl-acceptor binding pocket; other site 1163399009956 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1163399009957 O-Antigen ligase; Region: Wzy_C; pfam04932 1163399009958 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 1163399009959 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163399009960 Zinc-finger domain; Region: zf-CHCC; cl01821 1163399009961 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1163399009962 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1163399009963 Peptidase of plants and bacteria; Region: BSP; pfam04450 1163399009964 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1163399009965 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1163399009966 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1163399009967 putative NAD(P) binding site [chemical binding]; other site 1163399009968 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1163399009969 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1163399009970 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1163399009971 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1163399009972 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1163399009973 PAS domain; Region: PAS; smart00091 1163399009974 PAS fold; Region: PAS_7; pfam12860 1163399009975 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399009976 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 1163399009977 dimer interface [polypeptide binding]; other site 1163399009978 phosphorylation site [posttranslational modification] 1163399009979 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 1163399009980 ATP binding site [chemical binding]; other site 1163399009981 Mg2+ binding site [ion binding]; other site 1163399009982 G-X-G motif; other site 1163399009983 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 1163399009984 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399009985 active site 1163399009986 phosphorylation site [posttranslational modification] 1163399009987 intermolecular recognition site; other site 1163399009988 dimerization interface [polypeptide binding]; other site 1163399009989 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399009990 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 1163399009991 active site 1163399009992 phosphorylation site [posttranslational modification] 1163399009993 intermolecular recognition site; other site 1163399009994 dimerization interface [polypeptide binding]; other site 1163399009995 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 1163399009996 DNA binding residues [nucleotide binding] 1163399009997 dimerization interface [polypeptide binding]; other site 1163399009998 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1163399009999 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1163399010000 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1163399010001 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 1163399010002 dimer interface [polypeptide binding]; other site 1163399010003 phosphorylation site [posttranslational modification] 1163399010004 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 1163399010005 ATP binding site [chemical binding]; other site 1163399010006 Mg2+ binding site [ion binding]; other site 1163399010007 G-X-G motif; other site 1163399010008 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1163399010009 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 1163399010010 active site 1163399010011 phosphorylation site [posttranslational modification] 1163399010012 intermolecular recognition site; other site 1163399010013 dimerization interface [polypeptide binding]; other site 1163399010014 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 1163399010015 DNA binding site [nucleotide binding] 1163399010016 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1163399010017 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1163399010018 Citrate transporter; Region: CitMHS; pfam03600 1163399010019 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 1163399010020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399010021 NAD(P) binding site [chemical binding]; other site 1163399010022 active site 1163399010023 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1163399010024 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 1163399010025 N-terminal plug; other site 1163399010026 ligand-binding site [chemical binding]; other site 1163399010027 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 1163399010028 Predicted GTPases [General function prediction only]; Region: COG1162 1163399010029 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1163399010030 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1163399010031 GTP/Mg2+ binding site [chemical binding]; other site 1163399010032 G4 box; other site 1163399010033 G5 box; other site 1163399010034 G1 box; other site 1163399010035 Switch I region; other site 1163399010036 G2 box; other site 1163399010037 G3 box; other site 1163399010038 Switch II region; other site 1163399010039 aminotransferase AlaT; Validated; Region: PRK09265 1163399010040 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 1163399010041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399010042 homodimer interface [polypeptide binding]; other site 1163399010043 catalytic residue [active] 1163399010044 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_1; cd01832 1163399010045 active site 1163399010046 catalytic triad [active] 1163399010047 oxyanion hole [active] 1163399010048 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 1163399010049 S-adenosylmethionine binding site [chemical binding]; other site 1163399010050 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1163399010051 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1163399010052 NodB motif; other site 1163399010053 active site 1163399010054 catalytic site [active] 1163399010055 metal binding site [ion binding]; metal-binding site 1163399010056 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 1163399010057 putative GSH binding site [chemical binding]; other site 1163399010058 catalytic residues [active] 1163399010059 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1163399010060 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 1163399010061 active site residue [active] 1163399010062 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1163399010063 AMP nucleosidase; Provisional; Region: PRK07115 1163399010064 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1163399010065 catalytic triad [active] 1163399010066 putative active site [active] 1163399010067 Autotransporter beta-domain; Region: Autotransporter; smart00869 1163399010068 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1163399010069 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_C; cd01309 1163399010070 active site 1163399010071 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 1163399010072 active site 1163399010073 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1163399010074 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1163399010075 putative catalytic residue [active] 1163399010076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 1163399010077 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1163399010078 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1163399010079 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1163399010080 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399010081 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399010082 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399010083 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1163399010084 putative substrate translocation pore; other site 1163399010085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399010086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399010087 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 1163399010088 putative substrate binding pocket [chemical binding]; other site 1163399010089 putative dimerization interface [polypeptide binding]; other site 1163399010090 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 1163399010091 Ligand Binding Site [chemical binding]; other site 1163399010092 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399010093 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399010094 metal binding site [ion binding]; metal-binding site 1163399010095 active site 1163399010096 I-site; other site 1163399010097 S-formylglutathione hydrolase; Region: PLN02442 1163399010098 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1163399010099 tRNA pseudouridine synthase C; Region: DUF446; cl01187 1163399010100 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1163399010101 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1163399010102 substrate binding site [chemical binding]; other site 1163399010103 catalytic Zn binding site [ion binding]; other site 1163399010104 NAD binding site [chemical binding]; other site 1163399010105 structural Zn binding site [ion binding]; other site 1163399010106 dimer interface [polypeptide binding]; other site 1163399010107 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1163399010108 putative metal binding site [ion binding]; other site 1163399010109 putative homodimer interface [polypeptide binding]; other site 1163399010110 putative homotetramer interface [polypeptide binding]; other site 1163399010111 putative homodimer-homodimer interface [polypeptide binding]; other site 1163399010112 putative allosteric switch controlling residues; other site 1163399010113 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399010114 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399010115 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 1163399010116 dimerization interface [polypeptide binding]; other site 1163399010117 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1163399010118 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 1163399010119 FMN binding site [chemical binding]; other site 1163399010120 active site 1163399010121 substrate binding site [chemical binding]; other site 1163399010122 catalytic residue [active] 1163399010123 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1163399010124 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1163399010125 active site 1163399010126 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399010127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 1163399010128 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399010129 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399010130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399010131 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 1163399010132 putative effector binding pocket; other site 1163399010133 putative dimerization interface [polypeptide binding]; other site 1163399010134 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1163399010135 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1163399010136 putative NAD(P) binding site [chemical binding]; other site 1163399010137 putative substrate binding site [chemical binding]; other site 1163399010138 catalytic Zn binding site [ion binding]; other site 1163399010139 structural Zn binding site [ion binding]; other site 1163399010140 dimer interface [polypeptide binding]; other site 1163399010141 glutamate--cysteine ligase; Region: PLN02611 1163399010142 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1163399010143 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1163399010144 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399010145 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1163399010146 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1163399010147 G1 box; other site 1163399010148 GTP/Mg2+ binding site [chemical binding]; other site 1163399010149 Switch I region; other site 1163399010150 G2 box; other site 1163399010151 G3 box; other site 1163399010152 Switch II region; other site 1163399010153 G4 box; other site 1163399010154 G5 box; other site 1163399010155 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1163399010156 Cytochrome c; Region: Cytochrom_C; cl11414 1163399010157 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 1163399010158 catalytic residues [active] 1163399010159 hinge region; other site 1163399010160 alpha helical domain; other site 1163399010161 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 1163399010162 catalytic residues [active] 1163399010163 hinge region; other site 1163399010164 alpha helical domain; other site 1163399010165 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1163399010166 putative catalytic site [active] 1163399010167 putative metal binding site [ion binding]; other site 1163399010168 putative phosphate binding site [ion binding]; other site 1163399010169 threonine and homoserine efflux system; Provisional; Region: PRK10532 1163399010170 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1163399010171 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1163399010172 putative DNA binding site [nucleotide binding]; other site 1163399010173 putative Zn2+ binding site [ion binding]; other site 1163399010174 AsnC family; Region: AsnC_trans_reg; pfam01037 1163399010175 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163399010176 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163399010177 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 1163399010178 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 1163399010179 N-terminal plug; other site 1163399010180 ligand-binding site [chemical binding]; other site 1163399010181 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1163399010182 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 1163399010183 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 1163399010184 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1163399010185 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163399010186 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1163399010187 lytic murein transglycosylase; Provisional; Region: PRK11619 1163399010188 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 1163399010189 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163399010190 catalytic residue [active] 1163399010191 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1163399010192 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1163399010193 active site 1163399010194 NTP binding site [chemical binding]; other site 1163399010195 metal binding triad [ion binding]; metal-binding site 1163399010196 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1163399010197 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163399010198 Zn2+ binding site [ion binding]; other site 1163399010199 Mg2+ binding site [ion binding]; other site 1163399010200 SseB protein; Region: SseB; cl06279 1163399010201 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1163399010202 Active site serine [active] 1163399010203 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 1163399010204 Autotransporter beta-domain; Region: Autotransporter; smart00869 1163399010205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 1163399010206 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1163399010207 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 1163399010208 active site 1163399010209 dimer interface [polypeptide binding]; other site 1163399010210 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1163399010211 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 1163399010212 dimer interface [polypeptide binding]; other site 1163399010213 active site 1163399010214 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 1163399010215 dimer interface [polypeptide binding]; other site 1163399010216 active site 1163399010217 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1163399010218 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1163399010219 DNA binding site [nucleotide binding] 1163399010220 domain linker motif; other site 1163399010221 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 1163399010222 putative dimerization interface [polypeptide binding]; other site 1163399010223 putative ligand binding site [chemical binding]; other site 1163399010224 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399010225 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163399010226 putative substrate translocation pore; other site 1163399010227 glucose/galactose transporter; Region: gluP; TIGR01272 1163399010228 glucokinase; Provisional; Region: PRK12408 1163399010229 glucokinase, proteobacterial type; Region: glk; TIGR00749 1163399010230 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1163399010231 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 1163399010232 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 1163399010233 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 1163399010234 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 1163399010235 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1163399010236 active site 1163399010237 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C_1; pfam13290 1163399010238 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 1163399010239 VanZ like family; Region: VanZ; cl01971 1163399010240 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1163399010241 pteridine reductase; Provisional; Region: PRK09135 1163399010242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399010243 NAD(P) binding site [chemical binding]; other site 1163399010244 active site 1163399010245 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 1163399010246 catalytic center binding site [active] 1163399010247 ATP binding site [chemical binding]; other site 1163399010248 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1163399010249 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1163399010250 active site 1163399010251 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163399010252 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 1163399010253 active site 1163399010254 phosphorylation site [posttranslational modification] 1163399010255 intermolecular recognition site; other site 1163399010256 dimerization interface [polypeptide binding]; other site 1163399010257 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 1163399010258 ATP binding site [chemical binding]; other site 1163399010259 Mg2+ binding site [ion binding]; other site 1163399010260 G-X-G motif; other site 1163399010261 cheY-homologous receiver domain; Region: REC; smart00448 1163399010262 phosphorylation site [posttranslational modification] 1163399010263 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399010264 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 1163399010265 active site 1163399010266 phosphorylation site [posttranslational modification] 1163399010267 intermolecular recognition site; other site 1163399010268 dimerization interface [polypeptide binding]; other site 1163399010269 CHASE3 domain; Region: CHASE3; pfam05227 1163399010270 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1163399010271 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 1163399010272 dimer interface [polypeptide binding]; other site 1163399010273 phosphorylation site [posttranslational modification] 1163399010274 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 1163399010275 ATP binding site [chemical binding]; other site 1163399010276 Mg2+ binding site [ion binding]; other site 1163399010277 G-X-G motif; other site 1163399010278 BON domain; Region: BON; pfam04972 1163399010279 putative oxidoreductase; Provisional; Region: PRK11579 1163399010280 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1163399010281 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1163399010282 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 1163399010283 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1163399010284 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 1163399010285 carboxy-terminal protease; Provisional; Region: PRK11186 1163399010286 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1163399010287 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 1163399010288 protein binding site [polypeptide binding]; other site 1163399010289 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1163399010290 Catalytic dyad [active] 1163399010291 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1163399010292 lipoyl synthase; Provisional; Region: PRK05481 1163399010293 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 1163399010294 FeS/SAM binding site; other site 1163399010295 lipoate-protein ligase B; Provisional; Region: PRK14342 1163399010296 hypothetical protein; Provisional; Region: PRK00907 1163399010297 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 1163399010298 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1163399010299 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1163399010300 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1163399010301 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1163399010302 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1163399010303 Sporulation related domain; Region: SPOR; pfam05036 1163399010304 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1163399010305 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 1163399010306 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163399010307 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1163399010308 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1163399010309 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1163399010310 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1163399010311 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1163399010312 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 1163399010313 rod shape-determining protein MreC; Provisional; Region: PRK13922 1163399010314 rod shape-determining protein MreC; Region: MreC; pfam04085 1163399010315 rod shape-determining protein MreB; Provisional; Region: PRK13927 1163399010316 MreB and similar proteins; Region: MreB_like; cd10225 1163399010317 nucleotide binding site [chemical binding]; other site 1163399010318 Mg binding site [ion binding]; other site 1163399010319 putative protofilament interaction site [polypeptide binding]; other site 1163399010320 RodZ interaction site [polypeptide binding]; other site 1163399010321 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 1163399010322 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1163399010323 substrate binding site [chemical binding]; other site 1163399010324 ATP binding site [chemical binding]; other site 1163399010325 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1163399010326 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 1163399010327 motif II; other site 1163399010328 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 1163399010329 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 1163399010330 active site 1163399010331 Zn binding site [ion binding]; other site 1163399010332 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 1163399010333 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1163399010334 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 1163399010335 S-adenosylmethionine binding site [chemical binding]; other site 1163399010336 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 1163399010337 nucleoside/Zn binding site; other site 1163399010338 dimer interface [polypeptide binding]; other site 1163399010339 catalytic motif [active] 1163399010340 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1163399010341 Low affinity iron permease; Region: Iron_permease; pfam04120 1163399010342 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1163399010343 Domain of unknown function, E. rectale Gene description (DUF3881); Region: DUF3881; pfam12997 1163399010344 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1163399010345 Protein export membrane protein; Region: SecD_SecF; cl14618 1163399010346 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399010347 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399010348 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399010349 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 1163399010350 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399010351 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1163399010352 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1163399010353 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1163399010354 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1163399010355 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 1163399010356 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 1163399010357 Walker A motif; other site 1163399010358 ATP binding site [chemical binding]; other site 1163399010359 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 1163399010360 Walker B motif; other site 1163399010361 arginine finger; other site 1163399010362 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1163399010363 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 1163399010364 active site 1163399010365 HslU subunit interaction site [polypeptide binding]; other site 1163399010366 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1163399010367 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 1163399010368 active site 1163399010369 DNA binding site [nucleotide binding] 1163399010370 Int/Topo IB signature motif; other site 1163399010371 Protein of unknown function, DUF484; Region: DUF484; cl17449 1163399010372 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1163399010373 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1163399010374 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1163399010375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1163399010376 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1163399010377 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399010378 hypothetical protein; Provisional; Region: PRK08960 1163399010379 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 1163399010380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399010381 homodimer interface [polypeptide binding]; other site 1163399010382 catalytic residue [active] 1163399010383 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1163399010384 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399010385 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1163399010386 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 1163399010387 dimer interface [polypeptide binding]; other site 1163399010388 conserved gate region; other site 1163399010389 ABC-ATPase subunit interface; other site 1163399010390 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1163399010391 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1163399010392 Walker A/P-loop; other site 1163399010393 ATP binding site [chemical binding]; other site 1163399010394 Q-loop/lid; other site 1163399010395 ABC transporter signature motif; other site 1163399010396 Walker B; other site 1163399010397 D-loop; other site 1163399010398 H-loop/switch region; other site 1163399010399 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 1163399010400 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1163399010401 EamA-like transporter family; Region: EamA; pfam00892 1163399010402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1163399010403 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1163399010404 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1163399010405 oxidoreductase; Validated; Region: PRK05717 1163399010406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399010407 NAD(P) binding site [chemical binding]; other site 1163399010408 active site 1163399010409 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1163399010410 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1163399010411 active site 1163399010412 Zn binding site [ion binding]; other site 1163399010413 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1163399010414 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 1163399010415 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163399010416 catalytic residue [active] 1163399010417 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1163399010418 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399010419 dimer interface [polypeptide binding]; other site 1163399010420 active site 1163399010421 metal binding site [ion binding]; metal-binding site 1163399010422 glutathione binding site [chemical binding]; other site 1163399010423 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_19; cd07262 1163399010424 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399010425 FOG: CBS domain [General function prediction only]; Region: COG0517 1163399010426 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_10; cd04623 1163399010427 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1163399010428 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 1163399010429 glutaminase active site [active] 1163399010430 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 1163399010431 dimer interface [polypeptide binding]; other site 1163399010432 active site 1163399010433 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 1163399010434 dimer interface [polypeptide binding]; other site 1163399010435 active site 1163399010436 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399010437 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399010438 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399010439 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163399010440 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163399010441 Walker A/P-loop; other site 1163399010442 ATP binding site [chemical binding]; other site 1163399010443 Q-loop/lid; other site 1163399010444 ABC transporter signature motif; other site 1163399010445 Walker B; other site 1163399010446 D-loop; other site 1163399010447 H-loop/switch region; other site 1163399010448 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163399010449 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1163399010450 FtsX-like permease family; Region: FtsX; pfam02687 1163399010451 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163399010452 FtsX-like permease family; Region: FtsX; pfam02687 1163399010453 carboxyl-terminal processing protease; Provisional; Region: PLN00049 1163399010454 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1163399010455 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 1163399010456 active site 1163399010457 phosphorylation site [posttranslational modification] 1163399010458 intermolecular recognition site; other site 1163399010459 dimerization interface [polypeptide binding]; other site 1163399010460 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 1163399010461 Walker A motif; other site 1163399010462 ATP binding site [chemical binding]; other site 1163399010463 Walker B motif; other site 1163399010464 arginine finger; other site 1163399010465 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1163399010466 HAMP domain; Region: HAMP; pfam00672 1163399010467 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399010468 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 1163399010469 ATP binding site [chemical binding]; other site 1163399010470 Mg2+ binding site [ion binding]; other site 1163399010471 G-X-G motif; other site 1163399010472 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1163399010473 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1163399010474 Substrate binding site; other site 1163399010475 Mg++ binding site; other site 1163399010476 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 1163399010477 active site 1163399010478 substrate binding site [chemical binding]; other site 1163399010479 CoA binding site [chemical binding]; other site 1163399010480 GtrA-like protein; Region: GtrA; pfam04138 1163399010481 Predicted membrane protein [Function unknown]; Region: COG2246 1163399010482 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1163399010483 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1163399010484 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1163399010485 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1163399010486 gamma subunit interface [polypeptide binding]; other site 1163399010487 epsilon subunit interface [polypeptide binding]; other site 1163399010488 LBP interface [polypeptide binding]; other site 1163399010489 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1163399010490 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1163399010491 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 1163399010492 alpha subunit interaction interface [polypeptide binding]; other site 1163399010493 Walker A motif; other site 1163399010494 ATP binding site [chemical binding]; other site 1163399010495 Walker B motif; other site 1163399010496 inhibitor binding site; inhibition site 1163399010497 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1163399010498 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1163399010499 core domain interface [polypeptide binding]; other site 1163399010500 delta subunit interface [polypeptide binding]; other site 1163399010501 epsilon subunit interface [polypeptide binding]; other site 1163399010502 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1163399010503 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1163399010504 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 1163399010505 beta subunit interaction interface [polypeptide binding]; other site 1163399010506 Walker A motif; other site 1163399010507 ATP binding site [chemical binding]; other site 1163399010508 Walker B motif; other site 1163399010509 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1163399010510 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1163399010511 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1163399010512 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1163399010513 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1163399010514 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1163399010515 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1163399010516 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1163399010517 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1163399010518 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 1163399010519 E3 interaction surface; other site 1163399010520 lipoyl attachment site [posttranslational modification]; other site 1163399010521 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1163399010522 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163399010523 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1163399010524 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1163399010525 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 1163399010526 E3 interaction surface; other site 1163399010527 lipoyl attachment site [posttranslational modification]; other site 1163399010528 e3 binding domain; Region: E3_binding; pfam02817 1163399010529 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1163399010530 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1163399010531 putative active site [active] 1163399010532 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1163399010533 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1163399010534 glycerol kinase; Provisional; Region: glpK; PRK00047 1163399010535 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1163399010536 N- and C-terminal domain interface [polypeptide binding]; other site 1163399010537 active site 1163399010538 MgATP binding site [chemical binding]; other site 1163399010539 catalytic site [active] 1163399010540 metal binding site [ion binding]; metal-binding site 1163399010541 glycerol binding site [chemical binding]; other site 1163399010542 homotetramer interface [polypeptide binding]; other site 1163399010543 homodimer interface [polypeptide binding]; other site 1163399010544 FBP binding site [chemical binding]; other site 1163399010545 protein IIAGlc interface [polypeptide binding]; other site 1163399010546 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1163399010547 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1163399010548 Predicted transcriptional regulator [Transcription]; Region: COG2378 1163399010549 HTH domain; Region: HTH_11; pfam08279 1163399010550 WYL domain; Region: WYL; pfam13280 1163399010551 Predicted periplasmic protein (DUF2092); Region: DUF2092; cl17607 1163399010552 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1163399010553 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1163399010554 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; cl17708 1163399010555 domain interfaces; other site 1163399010556 active site 1163399010557 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1163399010558 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 1163399010559 active site 1163399010560 phosphorylation site [posttranslational modification] 1163399010561 intermolecular recognition site; other site 1163399010562 dimerization interface [polypeptide binding]; other site 1163399010563 LytTr DNA-binding domain; Region: LytTR; pfam04397 1163399010564 Histidine kinase; Region: His_kinase; pfam06580 1163399010565 putative hydrolase; Provisional; Region: PRK11460 1163399010566 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1163399010567 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 1163399010568 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1163399010569 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1163399010570 Ligand binding site; other site 1163399010571 DXD motif; other site 1163399010572 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1163399010573 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 1163399010574 N-terminal plug; other site 1163399010575 ligand-binding site [chemical binding]; other site 1163399010576 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1163399010577 Cache domain; Region: Cache_1; pfam02743 1163399010578 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 1163399010579 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399010580 dimer interface [polypeptide binding]; other site 1163399010581 putative CheW interface [polypeptide binding]; other site 1163399010582 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1163399010583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399010584 NAD(P) binding site [chemical binding]; other site 1163399010585 active site 1163399010586 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 1163399010587 active site triad [active] 1163399010588 MarR family; Region: MarR_2; pfam12802 1163399010589 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1163399010590 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399010591 putative substrate translocation pore; other site 1163399010592 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399010593 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399010594 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_5; cd07238 1163399010595 dimer interface [polypeptide binding]; other site 1163399010596 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399010597 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1163399010598 catalytic triad [active] 1163399010599 putative active site [active] 1163399010600 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1163399010601 Autotransporter beta-domain; Region: Autotransporter; smart00869 1163399010602 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163399010603 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163399010604 Walker A/P-loop; other site 1163399010605 ATP binding site [chemical binding]; other site 1163399010606 Q-loop/lid; other site 1163399010607 ABC transporter signature motif; other site 1163399010608 Walker B; other site 1163399010609 D-loop; other site 1163399010610 H-loop/switch region; other site 1163399010611 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163399010612 FtsX-like permease family; Region: FtsX; pfam02687 1163399010613 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163399010614 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1163399010615 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163399010616 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399010617 Walker A/P-loop; other site 1163399010618 ATP binding site [chemical binding]; other site 1163399010619 Q-loop/lid; other site 1163399010620 ABC transporter signature motif; other site 1163399010621 Walker B; other site 1163399010622 D-loop; other site 1163399010623 H-loop/switch region; other site 1163399010624 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 1163399010625 active site 1163399010626 zinc binding site [ion binding]; other site 1163399010627 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1163399010628 Helix-turn-helix domain; Region: HTH_38; pfam13936 1163399010629 Helix-turn-helix domain; Region: HTH_17; pfam12728 1163399010630 Integrase core domain; Region: rve; pfam00665 1163399010631 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1163399010632 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 1163399010633 Walker A motif; other site 1163399010634 ATP binding site [chemical binding]; other site 1163399010635 Walker B motif; other site 1163399010636 arginine finger; other site 1163399010637 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 1163399010638 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1163399010639 active site 1163399010640 phosphorylation site [posttranslational modification] 1163399010641 intermolecular recognition site; other site 1163399010642 dimerization interface [polypeptide binding]; other site 1163399010643 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 1163399010644 DNA binding site [nucleotide binding] 1163399010645 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1163399010648 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1163399010649 putative C-terminal domain interface [polypeptide binding]; other site 1163399010650 putative GSH binding site (G-site) [chemical binding]; other site 1163399010651 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163399010652 putative dimer interface [polypeptide binding]; other site 1163399010653 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1163399010654 dimer interface [polypeptide binding]; other site 1163399010655 N-terminal domain interface [polypeptide binding]; other site 1163399010656 putative substrate binding pocket (H-site) [chemical binding]; other site 1163399010657 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1163399010658 H-NS histone family; Region: Histone_HNS; pfam00816 1163399010659 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1163399010660 Predicted membrane protein [Function unknown]; Region: COG2259 1163399010661 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1163399010662 Fasciclin domain; Region: Fasciclin; pfam02469 1163399010663 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; cl10015 1163399010664 putative active site [active] 1163399010665 homotrimer interaction site [polypeptide binding]; other site 1163399010666 Peptidase M15; Region: Peptidase_M15_3; cl01194 1163399010667 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1163399010668 HTH-like domain; Region: HTH_21; pfam13276 1163399010669 Integrase core domain; Region: rve; pfam00665 1163399010670 Integrase core domain; Region: rve_3; pfam13683 1163399010671 Transposase; Region: HTH_Tnp_1; pfam01527 1163399010672 integrase; Provisional; Region: PRK09692 1163399010673 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 1163399010674 active site 1163399010675 Int/Topo IB signature motif; other site 1163399010676 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1163399010677 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1163399010678 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1163399010679 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1163399010680 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399010681 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1163399010682 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 1163399010683 DNA binding residues [nucleotide binding] 1163399010684 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 1163399010685 putative active site [active] 1163399010686 dimerization interface [polypeptide binding]; other site 1163399010687 putative tRNAtyr binding site [nucleotide binding]; other site 1163399010688 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1163399010689 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1163399010690 putative acyl-acceptor binding pocket; other site 1163399010691 GTP cyclohydrolase; Provisional; Region: PRK08815 1163399010692 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 1163399010693 dimerization interface [polypeptide binding]; other site 1163399010694 active site 1163399010695 Bacterial PH domain; Region: DUF304; cl01348 1163399010696 Predicted membrane protein [Function unknown]; Region: COG3428 1163399010697 Bacterial PH domain; Region: DUF304; pfam03703 1163399010698 Bacterial PH domain; Region: DUF304; pfam03703 1163399010699 Bacterial PH domain; Region: DUF304; pfam03703 1163399010700 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1163399010701 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163399010702 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1163399010703 putative metal binding site; other site 1163399010704 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1163399010705 O-Antigen ligase; Region: Wzy_C; pfam04932 1163399010706 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1163399010707 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1163399010708 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1163399010709 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1163399010710 putative RNA binding site [nucleotide binding]; other site 1163399010711 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 1163399010712 S-adenosylmethionine binding site [chemical binding]; other site 1163399010713 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1163399010714 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1163399010715 putative active site [active] 1163399010716 substrate binding site [chemical binding]; other site 1163399010717 putative cosubstrate binding site; other site 1163399010718 catalytic site [active] 1163399010719 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1163399010720 substrate binding site [chemical binding]; other site 1163399010721 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 1163399010722 active site 1163399010723 catalytic residues [active] 1163399010724 metal binding site [ion binding]; metal-binding site 1163399010725 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163399010726 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1163399010727 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1163399010728 DNA protecting protein DprA; Region: dprA; TIGR00732 1163399010729 hypothetical protein; Validated; Region: PRK03430 1163399010730 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1163399010731 Pilin (bacterial filament); Region: Pilin; pfam00114 1163399010732 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1163399010733 RDD family; Region: RDD; pfam06271 1163399010734 DNA topoisomerase I; Provisional; Region: PRK08780 1163399010735 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 1163399010736 active site 1163399010737 interdomain interaction site; other site 1163399010738 putative metal-binding site [ion binding]; other site 1163399010739 nucleotide binding site [chemical binding]; other site 1163399010740 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 1163399010741 domain I; other site 1163399010742 DNA binding groove [nucleotide binding] 1163399010743 phosphate binding site [ion binding]; other site 1163399010744 domain II; other site 1163399010745 domain III; other site 1163399010746 nucleotide binding site [chemical binding]; other site 1163399010747 catalytic site [active] 1163399010748 domain IV; other site 1163399010749 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1163399010750 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1163399010751 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1163399010752 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1163399010753 tropinone reductase; Provisional; Region: PRK09242 1163399010754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399010755 NAD(P) binding site [chemical binding]; other site 1163399010756 active site 1163399010757 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1163399010758 tandem repeat interface [polypeptide binding]; other site 1163399010759 oligomer interface [polypeptide binding]; other site 1163399010760 active site residues [active] 1163399010761 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1163399010762 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1163399010763 tandem repeat interface [polypeptide binding]; other site 1163399010764 oligomer interface [polypeptide binding]; other site 1163399010765 active site residues [active] 1163399010766 multidrug efflux protein; Reviewed; Region: PRK01766 1163399010767 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1163399010768 cation binding site [ion binding]; other site 1163399010769 primosome assembly protein PriA; Validated; Region: PRK05580 1163399010770 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 1163399010771 ATP binding site [chemical binding]; other site 1163399010772 putative Mg++ binding site [ion binding]; other site 1163399010773 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1163399010774 nucleotide binding region [chemical binding]; other site 1163399010775 ATP-binding site [chemical binding]; other site 1163399010776 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163399010777 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 1163399010778 putative C-terminal domain interface [polypeptide binding]; other site 1163399010779 putative GSH binding site (G-site) [chemical binding]; other site 1163399010780 putative dimer interface [polypeptide binding]; other site 1163399010781 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1163399010782 putative N-terminal domain interface [polypeptide binding]; other site 1163399010783 putative dimer interface [polypeptide binding]; other site 1163399010784 putative substrate binding pocket (H-site) [chemical binding]; other site 1163399010785 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1163399010786 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1163399010787 putative metal binding site [ion binding]; other site 1163399010788 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1163399010789 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1163399010790 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163399010791 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163399010793 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1163399010794 GIY-YIG motif/motif A; other site 1163399010795 putative active site [active] 1163399010796 putative metal binding site [ion binding]; other site 1163399010797 Predicted membrane protein [Function unknown]; Region: COG2860 1163399010798 UPF0126 domain; Region: UPF0126; pfam03458 1163399010799 UPF0126 domain; Region: UPF0126; pfam03458 1163399010800 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1163399010801 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1163399010802 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 1163399010803 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1163399010804 MarR family; Region: MarR; pfam01047 1163399010805 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399010806 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 1163399010807 dimer interface [polypeptide binding]; other site 1163399010808 phosphorylation site [posttranslational modification] 1163399010809 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 1163399010810 ATP binding site [chemical binding]; other site 1163399010811 Mg2+ binding site [ion binding]; other site 1163399010812 G-X-G motif; other site 1163399010813 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399010814 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 1163399010815 active site 1163399010816 phosphorylation site [posttranslational modification] 1163399010817 intermolecular recognition site; other site 1163399010818 dimerization interface [polypeptide binding]; other site 1163399010819 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 1163399010820 DNA binding site [nucleotide binding] 1163399010821 Aspartyl protease; Region: Asp_protease_2; pfam13650 1163399010822 inhibitor binding site; inhibition site 1163399010823 catalytic motif [active] 1163399010824 Catalytic residue [active] 1163399010825 Active site flap [active] 1163399010826 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 1163399010827 inhibitor binding site; inhibition site 1163399010828 catalytic motif [active] 1163399010829 Catalytic residue [active] 1163399010830 Active site flap [active] 1163399010831 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1163399010832 Beta-lactamase; Region: Beta-lactamase; pfam00144 1163399010833 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1163399010834 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 1163399010835 ring oligomerisation interface [polypeptide binding]; other site 1163399010836 ATP/Mg binding site [chemical binding]; other site 1163399010837 stacking interactions; other site 1163399010838 hinge regions; other site 1163399010839 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 1163399010840 oligomerisation interface [polypeptide binding]; other site 1163399010841 mobile loop; other site 1163399010842 roof hairpin; other site 1163399010843 Bacterial Ig-like domain; Region: Big_5; pfam13205 1163399010844 Endonuclease I; Region: Endonuclease_1; pfam04231 1163399010845 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1163399010846 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1163399010847 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 1163399010848 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1163399010849 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1163399010850 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163399010851 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1163399010852 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163399010853 catalytic residues [active] 1163399010854 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1163399010855 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1163399010856 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1163399010857 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1163399010858 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1163399010859 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1163399010860 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_like1; cd06200 1163399010861 FAD binding pocket [chemical binding]; other site 1163399010862 FAD binding motif [chemical binding]; other site 1163399010863 catalytic residues [active] 1163399010864 NAD binding pocket [chemical binding]; other site 1163399010865 phosphate binding motif [ion binding]; other site 1163399010866 beta-alpha-beta structure motif; other site 1163399010867 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 1163399010868 PAS fold; Region: PAS; pfam00989 1163399010869 PAS domain; Region: PAS; smart00091 1163399010870 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163399010871 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399010872 dimer interface [polypeptide binding]; other site 1163399010873 putative CheW interface [polypeptide binding]; other site 1163399010874 N-acetyltransferase; Region: Acetyltransf_2; cl00949 1163399010875 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1163399010876 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1163399010877 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1163399010878 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 1163399010879 substrate binding pocket [chemical binding]; other site 1163399010880 membrane-bound complex binding site; other site 1163399010881 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1163399010882 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399010883 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 1163399010884 dimerization interface [polypeptide binding]; other site 1163399010885 substrate binding pocket [chemical binding]; other site 1163399010886 T5orf172 domain; Region: T5orf172; pfam10544 1163399010887 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1163399010888 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1163399010889 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1163399010890 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1163399010891 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1163399010892 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1163399010893 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 1163399010894 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1163399010895 tetramer interface [polypeptide binding]; other site 1163399010896 active site 1163399010897 Mg2+/Mn2+ binding site [ion binding]; other site 1163399010898 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 1163399010899 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 1163399010900 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1163399010901 active site 1163399010902 trimer interface [polypeptide binding]; other site 1163399010903 dimer interface [polypeptide binding]; other site 1163399010904 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 1163399010905 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1163399010906 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 1163399010907 carboxyltransferase (CT) interaction site; other site 1163399010908 biotinylation site [posttranslational modification]; other site 1163399010909 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1163399010910 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163399010911 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1163399010912 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1163399010913 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1163399010914 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1163399010915 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1163399010916 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1163399010917 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1163399010918 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163399010919 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1163399010920 putative acyl-acceptor binding pocket; other site 1163399010921 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 1163399010922 active site 1163399010923 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1163399010924 active site 1163399010925 catalytic residues [active] 1163399010926 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1163399010927 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163399010928 Putative methyltransferase; Region: Methyltransf_20; pfam12147 1163399010929 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1163399010930 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1163399010931 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1163399010932 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 1163399010933 purine monophosphate binding site [chemical binding]; other site 1163399010934 dimer interface [polypeptide binding]; other site 1163399010935 putative catalytic residues [active] 1163399010936 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1163399010937 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1163399010938 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1163399010939 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1163399010940 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1163399010941 Predicted transcriptional regulator [Transcription]; Region: COG2944 1163399010942 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 1163399010943 non-specific DNA binding site [nucleotide binding]; other site 1163399010944 salt bridge; other site 1163399010945 sequence-specific DNA binding site [nucleotide binding]; other site 1163399010946 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1163399010947 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1163399010948 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399010949 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 1163399010950 DNA binding residues [nucleotide binding] 1163399010951 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1163399010952 ligand binding site [chemical binding]; other site 1163399010953 active site 1163399010954 UGI interface [polypeptide binding]; other site 1163399010955 catalytic site [active] 1163399010956 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163399010957 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 1163399010958 active site 1163399010959 phosphorylation site [posttranslational modification] 1163399010960 intermolecular recognition site; other site 1163399010961 dimerization interface [polypeptide binding]; other site 1163399010962 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163399010963 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 1163399010964 active site 1163399010965 phosphorylation site [posttranslational modification] 1163399010966 intermolecular recognition site; other site 1163399010967 dimerization interface [polypeptide binding]; other site 1163399010968 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1163399010969 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1163399010970 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1163399010971 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399010972 Walker A/P-loop; other site 1163399010973 ATP binding site [chemical binding]; other site 1163399010974 Q-loop/lid; other site 1163399010975 ABC transporter signature motif; other site 1163399010976 Walker B; other site 1163399010977 D-loop; other site 1163399010978 H-loop/switch region; other site 1163399010979 helicase 45; Provisional; Region: PTZ00424 1163399010980 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 1163399010981 ATP binding site [chemical binding]; other site 1163399010982 Mg++ binding site [ion binding]; other site 1163399010983 motif III; other site 1163399010984 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 1163399010985 nucleotide binding region [chemical binding]; other site 1163399010986 ATP-binding site [chemical binding]; other site 1163399010987 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 1163399010988 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163399010989 catalytic residues [active] 1163399010990 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1163399010991 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1163399010992 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 1163399010993 RNA binding site [nucleotide binding]; other site 1163399010994 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 1163399010995 multimer interface [polypeptide binding]; other site 1163399010996 Walker A motif; other site 1163399010997 ATP binding site [chemical binding]; other site 1163399010998 Walker B motif; other site 1163399010999 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 1163399011000 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399011001 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399011002 metal binding site [ion binding]; metal-binding site 1163399011003 active site 1163399011004 I-site; other site 1163399011005 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163399011006 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1163399011007 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1163399011008 KilA-N domain; Region: KilA-N; pfam04383 1163399011009 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1163399011010 Conserved hypothetical ATP binding protein; Region: ATP_bind_1; pfam03029 1163399011011 G1 box; other site 1163399011012 GTP/Mg2+ binding site [chemical binding]; other site 1163399011013 G2 box; other site 1163399011014 Switch I region; other site 1163399011015 G3 box; other site 1163399011016 Switch II region; other site 1163399011017 G4 box; other site 1163399011018 G5 box; other site 1163399011019 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1163399011020 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1163399011021 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163399011022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1163399011023 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1163399011024 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1163399011025 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 1163399011026 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1163399011027 metal binding site [ion binding]; metal-binding site 1163399011028 putative dimer interface [polypeptide binding]; other site 1163399011029 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399011030 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399011031 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399011032 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1163399011033 Protein export membrane protein; Region: SecD_SecF; cl14618 1163399011034 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1163399011035 Protein export membrane protein; Region: SecD_SecF; cl14618 1163399011036 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1163399011037 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1163399011038 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1163399011039 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1163399011040 classical (c) SDRs; Region: SDR_c; cd05233 1163399011041 NAD(P) binding site [chemical binding]; other site 1163399011042 active site 1163399011043 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399011044 putative substrate translocation pore; other site 1163399011045 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1163399011046 putative acyl-acceptor binding pocket; other site 1163399011047 Interferon-induced transmembrane protein; Region: CD225; pfam04505 1163399011048 Interferon-induced transmembrane protein; Region: CD225; pfam04505 1163399011049 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 1163399011050 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1163399011051 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1163399011052 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1163399011053 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 1163399011054 putative NADH binding site [chemical binding]; other site 1163399011055 putative active site [active] 1163399011056 nudix motif; other site 1163399011057 putative metal binding site [ion binding]; other site 1163399011058 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1163399011059 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1163399011060 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1163399011061 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 1163399011062 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 1163399011063 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399011064 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 1163399011065 active site 1163399011066 phosphorylation site [posttranslational modification] 1163399011067 intermolecular recognition site; other site 1163399011068 dimerization interface [polypeptide binding]; other site 1163399011069 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399011070 metal binding site [ion binding]; metal-binding site 1163399011071 active site 1163399011072 I-site; other site 1163399011073 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 1163399011074 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 1163399011075 dimer interface [polypeptide binding]; other site 1163399011076 phosphorylation site [posttranslational modification] 1163399011077 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 1163399011078 ATP binding site [chemical binding]; other site 1163399011079 Mg2+ binding site [ion binding]; other site 1163399011080 G-X-G motif; other site 1163399011081 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 1163399011082 Response regulator receiver domain; Region: Response_reg; pfam00072 1163399011083 active site 1163399011084 phosphorylation site [posttranslational modification] 1163399011085 intermolecular recognition site; other site 1163399011086 dimerization interface [polypeptide binding]; other site 1163399011087 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 1163399011088 putative binding surface; other site 1163399011089 active site 1163399011090 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1163399011091 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1163399011092 heme binding site [chemical binding]; other site 1163399011093 ferroxidase pore; other site 1163399011094 ferroxidase diiron center [ion binding]; other site 1163399011095 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1163399011096 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 1163399011097 putative active site [active] 1163399011098 Ap4A binding site [chemical binding]; other site 1163399011099 nudix motif; other site 1163399011100 putative metal binding site [ion binding]; other site 1163399011101 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1163399011102 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 1163399011103 23S rRNA interface [nucleotide binding]; other site 1163399011104 L3 interface [polypeptide binding]; other site 1163399011105 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1163399011106 diiron binding motif [ion binding]; other site 1163399011107 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1163399011108 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 1163399011109 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 1163399011110 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1163399011111 ligand binding site [chemical binding]; other site 1163399011112 flexible hinge region; other site 1163399011113 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 1163399011114 putative switch regulator; other site 1163399011115 non-specific DNA interactions [nucleotide binding]; other site 1163399011116 DNA binding site [nucleotide binding] 1163399011117 sequence specific DNA binding site [nucleotide binding]; other site 1163399011118 putative cAMP binding site [chemical binding]; other site 1163399011119 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1163399011120 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 1163399011121 active site 1163399011122 ribulose/triose binding site [chemical binding]; other site 1163399011123 phosphate binding site [ion binding]; other site 1163399011124 substrate (anthranilate) binding pocket [chemical binding]; other site 1163399011125 product (indole) binding pocket [chemical binding]; other site 1163399011126 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1163399011127 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1163399011128 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1163399011129 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1163399011130 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1163399011131 glutamine binding [chemical binding]; other site 1163399011132 catalytic triad [active] 1163399011133 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1163399011134 anthranilate synthase component I; Provisional; Region: PRK13565 1163399011135 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1163399011136 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1163399011137 lipid kinase; Reviewed; Region: PRK13054 1163399011138 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1163399011139 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163399011140 Coenzyme A binding pocket [chemical binding]; other site 1163399011141 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1163399011142 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 1163399011143 substrate binding site [chemical binding]; other site 1163399011144 hexamer interface [polypeptide binding]; other site 1163399011145 metal binding site [ion binding]; metal-binding site 1163399011146 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 1163399011147 HSP70 interaction site [polypeptide binding]; other site 1163399011148 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1163399011149 ATP binding site [chemical binding]; other site 1163399011150 active site 1163399011151 substrate binding site [chemical binding]; other site 1163399011152 Protein of unknown function (DUF962); Region: DUF962; cl01879 1163399011153 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1163399011154 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163399011155 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1163399011156 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1163399011157 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1163399011158 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1163399011159 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1163399011160 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163399011161 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1163399011162 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1163399011163 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1163399011164 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1163399011165 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1163399011166 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1163399011167 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1163399011168 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1163399011169 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1163399011170 dimer interface [polypeptide binding]; other site 1163399011171 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1163399011172 active site 1163399011173 Fe binding site [ion binding]; other site 1163399011174 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1163399011175 MarR family; Region: MarR_2; pfam12802 1163399011176 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 1163399011177 POT family; Region: PTR2; cl17359 1163399011178 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1163399011179 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 1163399011180 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1163399011181 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1163399011182 TPP-binding site [chemical binding]; other site 1163399011183 tetramer interface [polypeptide binding]; other site 1163399011184 heterodimer interface [polypeptide binding]; other site 1163399011185 phosphorylation loop region [posttranslational modification] 1163399011186 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1163399011187 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1163399011188 alpha subunit interface [polypeptide binding]; other site 1163399011189 TPP binding site [chemical binding]; other site 1163399011190 heterodimer interface [polypeptide binding]; other site 1163399011191 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163399011192 Variant SH3 domain; Region: SH3_2; pfam07653 1163399011193 Src Homology 3 domain superfamily; Region: SH3; cl17036 1163399011194 peptide ligand binding site [polypeptide binding]; other site 1163399011195 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1163399011196 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 1163399011197 E3 interaction surface; other site 1163399011198 lipoyl attachment site [posttranslational modification]; other site 1163399011199 e3 binding domain; Region: E3_binding; pfam02817 1163399011200 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1163399011201 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_11; cd07261 1163399011202 putative dimer interface [polypeptide binding]; other site 1163399011203 HTH domain; Region: HTH_11; pfam08279 1163399011204 Predicted transcriptional regulator [Transcription]; Region: COG2378 1163399011205 WYL domain; Region: WYL; pfam13280 1163399011206 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1163399011207 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1163399011208 NAD binding site [chemical binding]; other site 1163399011209 active site 1163399011210 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399011211 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399011212 metal binding site [ion binding]; metal-binding site 1163399011213 active site 1163399011214 I-site; other site 1163399011215 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1163399011216 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1163399011217 ABC1 family; Region: ABC1; cl17513 1163399011218 phosphoglycerol transferase I; Provisional; Region: PRK12363 1163399011219 Sulfatase; Region: Sulfatase; cl17466 1163399011220 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1163399011221 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1163399011222 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163399011223 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1163399011224 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1163399011225 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1163399011226 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1163399011227 Peptidase propeptide and YPEB domain; Region: PepSY_2; cl17877 1163399011228 Predicted membrane protein [Function unknown]; Region: COG3212 1163399011229 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1163399011230 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163399011231 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 1163399011232 active site 1163399011233 phosphorylation site [posttranslational modification] 1163399011234 intermolecular recognition site; other site 1163399011235 dimerization interface [polypeptide binding]; other site 1163399011236 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 1163399011237 DNA binding site [nucleotide binding] 1163399011238 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399011239 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 1163399011240 ATP binding site [chemical binding]; other site 1163399011241 Mg2+ binding site [ion binding]; other site 1163399011242 G-X-G motif; other site 1163399011243 arginine decarboxylase; Provisional; Region: PRK05354 1163399011244 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1163399011245 dimer interface [polypeptide binding]; other site 1163399011246 active site 1163399011247 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163399011248 catalytic residues [active] 1163399011249 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1163399011250 spermidine synthase; Provisional; Region: PRK00811 1163399011251 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 1163399011252 S-adenosylmethionine binding site [chemical binding]; other site 1163399011253 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1163399011254 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1163399011255 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 1163399011256 Walker A motif; other site 1163399011257 ATP binding site [chemical binding]; other site 1163399011258 Walker B motif; other site 1163399011259 arginine finger; other site 1163399011260 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1163399011261 Helix-turn-helix domain; Region: HTH_38; pfam13936 1163399011262 Helix-turn-helix domain; Region: HTH_17; pfam12728 1163399011263 Integrase core domain; Region: rve; pfam00665 1163399011264 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 1163399011265 active site 1163399011266 substrate binding site [chemical binding]; other site 1163399011267 ATP binding site [chemical binding]; other site 1163399011268 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1163399011269 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1163399011270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1163399011271 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 1163399011272 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 1163399011273 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1163399011274 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1163399011275 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1163399011276 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1163399011277 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1163399011278 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399011279 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 1163399011280 sugar phosphate phosphatase; Provisional; Region: PRK10513 1163399011281 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 1163399011282 active site 1163399011283 motif I; other site 1163399011284 motif II; other site 1163399011285 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 1163399011286 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1163399011287 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1163399011288 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1163399011289 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 1163399011290 calcium binding site 1 [ion binding]; other site 1163399011291 active site 1163399011292 catalytic triad [active] 1163399011293 calcium binding site 2 [ion binding]; other site 1163399011294 calcium binding site 3 [ion binding]; other site 1163399011295 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 1163399011296 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1163399011297 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1163399011298 Cu(I) binding site [ion binding]; other site 1163399011299 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1163399011300 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 1163399011301 Subunit I/III interface [polypeptide binding]; other site 1163399011302 Subunit III/IV interface [polypeptide binding]; other site 1163399011303 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1163399011304 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 1163399011305 D-pathway; other site 1163399011306 Putative ubiquinol binding site [chemical binding]; other site 1163399011307 Low-spin heme (heme b) binding site [chemical binding]; other site 1163399011308 Putative water exit pathway; other site 1163399011309 Binuclear center (heme o3/CuB) [ion binding]; other site 1163399011310 K-pathway; other site 1163399011311 Putative proton exit pathway; other site 1163399011312 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1163399011313 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1163399011314 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1163399011315 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 1163399011316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163399011317 DNA-binding site [nucleotide binding]; DNA binding site 1163399011318 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 1163399011319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399011320 homodimer interface [polypeptide binding]; other site 1163399011321 catalytic residue [active] 1163399011322 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 1163399011323 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1163399011324 DNA-binding site [nucleotide binding]; DNA binding site 1163399011325 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 1163399011326 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399011327 homodimer interface [polypeptide binding]; other site 1163399011328 catalytic residue [active] 1163399011329 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1163399011330 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 1163399011331 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163399011332 catalytic residue [active] 1163399011333 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1163399011334 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 1163399011335 N-terminal plug; other site 1163399011336 ligand-binding site [chemical binding]; other site 1163399011337 Helix-turn-helix domain; Region: HTH_18; pfam12833 1163399011338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1163399011339 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399011340 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1163399011341 active site 1163399011342 Repair protein; Region: Repair_PSII; pfam04536 1163399011343 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1163399011344 Zn binding site [ion binding]; other site 1163399011345 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; pfam05708 1163399011346 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1163399011347 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1163399011348 UbiA prenyltransferase family; Region: UbiA; pfam01040 1163399011349 RHS Repeat; Region: RHS_repeat; pfam05593 1163399011350 RHS Repeat; Region: RHS_repeat; pfam05593 1163399011351 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1163399011352 RHS Repeat; Region: RHS_repeat; pfam05593 1163399011353 RHS Repeat; Region: RHS_repeat; pfam05593 1163399011354 RHS Repeat; Region: RHS_repeat; pfam05593 1163399011355 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1163399011356 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1163399011357 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1163399011358 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 1163399011359 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163399011360 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 1163399011361 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1163399011362 CPE1046 is an uncharacterized Clostridium perfringens protein with a glycosyl hydrolase family 31 (GH31) domain. The domain architecture of CPE1046 and its orthologs includes a C-terminal fibronectin type 3 (FN3) domain and a coagulation factor 5/8 type...; Region: GH31_CPE1046; cd06596 1163399011363 putative active site [active] 1163399011364 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1163399011365 putative catalytic site [active] 1163399011366 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1163399011367 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 1163399011368 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 1163399011369 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 1163399011370 dimer interface [polypeptide binding]; other site 1163399011371 active site 1163399011372 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 1163399011373 putative active site [active] 1163399011374 fructokinase; Reviewed; Region: PRK09557 1163399011375 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1163399011376 nucleotide binding site [chemical binding]; other site 1163399011377 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 1163399011378 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 1163399011379 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1163399011380 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1163399011381 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1163399011382 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 1163399011383 active site 1163399011384 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1163399011385 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399011386 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399011387 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1163399011388 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1163399011389 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1163399011390 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163399011391 active site 1163399011392 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1163399011393 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 1163399011394 putative ion selectivity filter; other site 1163399011395 putative pore gating glutamate residue; other site 1163399011396 putative H+/Cl- coupling transport residue; other site 1163399011397 Protein of unknown function; Region: DUF3658; pfam12395 1163399011398 biotin synthase; Provisional; Region: PRK15108 1163399011399 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 1163399011400 FeS/SAM binding site; other site 1163399011401 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1163399011402 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1163399011403 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1163399011404 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163399011405 catalytic residue [active] 1163399011406 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1163399011407 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1163399011408 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1163399011409 putative NAD(P) binding site [chemical binding]; other site 1163399011410 putative active site [active] 1163399011411 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1163399011412 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 1163399011413 S-adenosylmethionine binding site [chemical binding]; other site 1163399011414 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1163399011415 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 1163399011416 putative active site [active] 1163399011417 serine racemase; Region: PLN02970 1163399011418 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 1163399011419 tetramer interface [polypeptide binding]; other site 1163399011420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163399011421 catalytic residue [active] 1163399011422 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1163399011423 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1163399011424 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1163399011425 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1163399011426 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1163399011427 Protein export membrane protein; Region: SecD_SecF; cl14618 1163399011428 Protein export membrane protein; Region: SecD_SecF; cl14618 1163399011429 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1163399011430 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399011431 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399011432 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 1163399011433 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1163399011434 dimerization interface [polypeptide binding]; other site 1163399011435 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 1163399011436 dimer interface [polypeptide binding]; other site 1163399011437 phosphorylation site [posttranslational modification] 1163399011438 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 1163399011439 ATP binding site [chemical binding]; other site 1163399011440 Mg2+ binding site [ion binding]; other site 1163399011441 G-X-G motif; other site 1163399011442 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 1163399011443 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 1163399011444 active site 1163399011445 phosphorylation site [posttranslational modification] 1163399011446 intermolecular recognition site; other site 1163399011447 dimerization interface [polypeptide binding]; other site 1163399011448 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 1163399011449 DNA binding site [nucleotide binding] 1163399011450 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 1163399011451 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1163399011452 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 1163399011453 trimer interface [polypeptide binding]; other site 1163399011454 putative metal binding site [ion binding]; other site 1163399011455 RDD family; Region: RDD; pfam06271 1163399011456 Integral membrane protein DUF95; Region: DUF95; pfam01944 1163399011457 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1163399011458 MoxR-like ATPases [General function prediction only]; Region: COG0714 1163399011459 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 1163399011460 Walker A motif; other site 1163399011461 ATP binding site [chemical binding]; other site 1163399011462 Walker B motif; other site 1163399011463 arginine finger; other site 1163399011464 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1163399011465 Protein of unknown function DUF58; Region: DUF58; pfam01882 1163399011466 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1163399011467 Protein of unknown function (DUF1190); Region: DUF1190; pfam06693 1163399011468 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1163399011469 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1163399011470 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1163399011471 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1163399011472 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1163399011473 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1163399011474 shikimate binding site; other site 1163399011475 NAD(P) binding site [chemical binding]; other site 1163399011476 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163399011477 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163399011478 Short C-terminal domain; Region: SHOCT; pfam09851 1163399011479 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_aspartate_rich; cd04823 1163399011480 dimer interface [polypeptide binding]; other site 1163399011481 allosteric magnesium binding site [ion binding]; other site 1163399011482 active site 1163399011483 aspartate-rich active site metal binding site; other site 1163399011484 Schiff base residues; other site 1163399011485 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1163399011486 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1163399011487 Cytochrome oxidase complex assembly protein 1; Region: Coa1; pfam08695 1163399011488 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1163399011489 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399011490 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1163399011491 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 1163399011492 C-terminal domain interface [polypeptide binding]; other site 1163399011493 GSH binding site (G-site) [chemical binding]; other site 1163399011494 dimer interface [polypeptide binding]; other site 1163399011495 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1163399011496 N-terminal domain interface [polypeptide binding]; other site 1163399011497 putative dimer interface [polypeptide binding]; other site 1163399011498 active site 1163399011499 hypothetical protein; Provisional; Region: PRK05208 1163399011500 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163399011501 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163399011502 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1163399011503 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1163399011504 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163399011505 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1163399011506 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1163399011507 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1163399011508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163399011509 Walker A/P-loop; other site 1163399011510 ATP binding site [chemical binding]; other site 1163399011511 Q-loop/lid; other site 1163399011512 ABC transporter signature motif; other site 1163399011513 Walker B; other site 1163399011514 D-loop; other site 1163399011515 H-loop/switch region; other site 1163399011516 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1163399011517 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399011518 TAP-like protein; Region: Abhydrolase_4; pfam08386 1163399011519 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 1163399011520 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 1163399011521 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1163399011522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 1163399011523 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1163399011524 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1163399011525 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 1163399011526 FAD binding pocket [chemical binding]; other site 1163399011527 FAD binding motif [chemical binding]; other site 1163399011528 phosphate binding motif [ion binding]; other site 1163399011529 beta-alpha-beta structure motif; other site 1163399011530 NAD binding pocket [chemical binding]; other site 1163399011531 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1163399011532 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1163399011533 Walker A/P-loop; other site 1163399011534 ATP binding site [chemical binding]; other site 1163399011535 Q-loop/lid; other site 1163399011536 ABC transporter signature motif; other site 1163399011537 Walker B; other site 1163399011538 D-loop; other site 1163399011539 H-loop/switch region; other site 1163399011540 inner membrane transport permease; Provisional; Region: PRK15066 1163399011541 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1163399011542 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 1163399011543 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1163399011544 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1163399011545 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1163399011546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163399011547 NAD(P) binding site [chemical binding]; other site 1163399011548 active site 1163399011549 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1163399011550 active site 1163399011551 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1163399011552 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 1163399011553 ATP binding site [chemical binding]; other site 1163399011554 putative Mg++ binding site [ion binding]; other site 1163399011555 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 1163399011556 nucleotide binding region [chemical binding]; other site 1163399011557 Helicase associated domain (HA2); Region: HA2; pfam04408 1163399011558 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1163399011559 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163399011560 pseudouridine synthase; Region: TIGR00093 1163399011561 active site 1163399011562 Predicted methyltransferase [General function prediction only]; Region: COG4798 1163399011563 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1163399011564 S-adenosylmethionine binding site [chemical binding]; other site 1163399011565 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 1163399011566 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1163399011567 active site 1163399011568 catalytic tetrad [active] 1163399011569 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1163399011570 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 1163399011571 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1163399011572 hypothetical protein; Reviewed; Region: PRK09588 1163399011573 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1163399011574 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163399011575 Transcriptional regulator; Region: Rrf2; pfam02082 1163399011576 Predicted transcriptional regulator [Transcription]; Region: COG1959 1163399011577 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163399011578 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399011579 dimer interface [polypeptide binding]; other site 1163399011580 putative CheW interface [polypeptide binding]; other site 1163399011581 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 1163399011582 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1163399011583 active site 1163399011584 catalytic tetrad [active] 1163399011585 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163399011586 TAP-like protein; Region: Abhydrolase_4; pfam08386 1163399011587 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1163399011588 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1163399011589 CoA binding domain; Region: CoA_binding_2; pfam13380 1163399011590 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1163399011591 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1163399011592 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1163399011593 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1163399011594 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1163399011595 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1163399011596 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1163399011597 Divalent cation transporter; Region: MgtE; pfam01769 1163399011598 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1163399011599 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1163399011600 TrkA-N domain; Region: TrkA_N; pfam02254 1163399011601 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 1163399011602 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1163399011603 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 1163399011604 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1163399011605 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 1163399011606 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1163399011607 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 1163399011608 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 1163399011609 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1163399011610 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 1163399011611 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1163399011612 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1163399011613 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 1163399011614 YcgL domain; Region: YcgL; pfam05166 1163399011615 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1163399011616 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 1163399011617 dimer interface [polypeptide binding]; other site 1163399011618 active site 1163399011619 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1163399011620 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1163399011621 NAD(P) binding site [chemical binding]; other site 1163399011622 homotetramer interface [polypeptide binding]; other site 1163399011623 homodimer interface [polypeptide binding]; other site 1163399011624 active site 1163399011625 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1163399011626 active site 2 [active] 1163399011627 active site 1 [active] 1163399011628 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1163399011629 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 1163399011630 dimer interface [polypeptide binding]; other site 1163399011631 active site 1163399011632 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 1163399011633 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1163399011634 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1163399011635 Predicted exporter [General function prediction only]; Region: COG4258 1163399011636 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1163399011637 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 1163399011638 active site 1163399011639 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1163399011640 active sites [active] 1163399011641 tetramer interface [polypeptide binding]; other site 1163399011642 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1163399011643 putative acyl-acceptor binding pocket; other site 1163399011644 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1163399011645 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1163399011646 Ligand binding site; other site 1163399011647 Putative Catalytic site; other site 1163399011648 DXD motif; other site 1163399011649 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1163399011650 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1163399011651 AMP binding site [chemical binding]; other site 1163399011652 active site 1163399011653 acyl-activating enzyme (AAE) consensus motif; other site 1163399011654 CoA binding site [chemical binding]; other site 1163399011655 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 1163399011656 active site 2 [active] 1163399011657 dimer interface [polypeptide binding]; other site 1163399011658 active site 1 [active] 1163399011659 Predicted membrane protein [Function unknown]; Region: COG4648 1163399011660 acyl carrier protein; Provisional; Region: PRK05350 1163399011661 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1163399011662 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1163399011663 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163399011664 putative acyl-acceptor binding pocket; other site 1163399011665 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1163399011666 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1163399011667 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1163399011668 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1163399011669 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1163399011670 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163399011671 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 1163399011672 DNA binding residues [nucleotide binding] 1163399011673 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1163399011674 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1163399011675 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_31; cd04690 1163399011676 nudix motif; other site 1163399011677 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1163399011678 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1163399011679 Predicted membrane protein [Function unknown]; Region: COG2323 1163399011680 DNA polymerase I; Provisional; Region: PRK05755 1163399011681 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1163399011682 active site 1163399011683 metal binding site 1 [ion binding]; metal-binding site 1163399011684 putative 5' ssDNA interaction site; other site 1163399011685 metal binding site 3; metal-binding site 1163399011686 metal binding site 2 [ion binding]; metal-binding site 1163399011687 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1163399011688 putative DNA binding site [nucleotide binding]; other site 1163399011689 putative metal binding site [ion binding]; other site 1163399011690 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 1163399011691 active site 1163399011692 catalytic site [active] 1163399011693 substrate binding site [chemical binding]; other site 1163399011694 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1163399011695 active site 1163399011696 DNA binding site [nucleotide binding] 1163399011697 catalytic site [active] 1163399011698 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 1163399011699 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 1163399011700 Ligand Binding Site [chemical binding]; other site 1163399011701 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 1163399011702 active site 1163399011703 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1163399011704 Part of AAA domain; Region: AAA_19; pfam13245 1163399011705 Family description; Region: UvrD_C_2; pfam13538 1163399011706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1163399011707 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1163399011708 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163399011709 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1163399011710 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 1163399011711 putative active site [active] 1163399011712 catalytic site [active] 1163399011713 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 1163399011714 putative active site [active] 1163399011715 catalytic site [active] 1163399011716 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1163399011717 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1163399011718 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1163399011719 homodimer interface [polypeptide binding]; other site 1163399011720 active site 1163399011721 TDP-binding site; other site 1163399011722 acceptor substrate-binding pocket; other site 1163399011723 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 1163399011724 active site 1163399011725 catalytic site [active] 1163399011726 substrate binding site [chemical binding]; other site 1163399011727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399011728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399011729 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 1163399011730 putative effector binding pocket; other site 1163399011731 putative dimerization interface [polypeptide binding]; other site 1163399011732 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 1163399011733 homotrimer interaction site [polypeptide binding]; other site 1163399011734 putative active site [active] 1163399011735 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1163399011736 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1163399011737 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1163399011738 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1163399011739 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 1163399011740 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1163399011741 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1163399011742 Ligand binding site; other site 1163399011743 Putative Catalytic site; other site 1163399011744 DXD motif; other site 1163399011745 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1163399011746 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1163399011747 putative NAD(P) binding site [chemical binding]; other site 1163399011748 active site 1163399011749 putative substrate binding site [chemical binding]; other site 1163399011750 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1163399011751 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1163399011752 ParB-like nuclease domain; Region: ParBc; pfam02195 1163399011753 KorB domain; Region: KorB; pfam08535 1163399011754 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1163399011755 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1163399011756 P-loop; other site 1163399011757 Magnesium ion binding site [ion binding]; other site 1163399011758 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1163399011759 Magnesium ion binding site [ion binding]; other site 1163399011760 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1163399011761 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1163399011762 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1163399011763 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1163399011764 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 1163399011765 putative catalytic site [active] 1163399011766 putative phosphate binding site [ion binding]; other site 1163399011767 active site 1163399011768 metal binding site A [ion binding]; metal-binding site 1163399011769 DNA binding site [nucleotide binding] 1163399011770 putative AP binding site [nucleotide binding]; other site 1163399011771 putative metal binding site B [ion binding]; other site 1163399011772 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1163399011773 NAD(P) binding site [chemical binding]; other site 1163399011774 catalytic residues [active] 1163399011775 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1163399011776 putative substrate translocation pore; other site 1163399011777 acetyl-CoA synthetase; Provisional; Region: PRK00174 1163399011778 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1163399011779 active site 1163399011780 CoA binding site [chemical binding]; other site 1163399011781 acyl-activating enzyme (AAE) consensus motif; other site 1163399011782 AMP binding site [chemical binding]; other site 1163399011783 acetate binding site [chemical binding]; other site 1163399011784 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1163399011785 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 1163399011786 active site 1163399011787 phosphorylation site [posttranslational modification] 1163399011788 intermolecular recognition site; other site 1163399011789 dimerization interface [polypeptide binding]; other site 1163399011790 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 1163399011791 DNA binding residues [nucleotide binding] 1163399011792 dimerization interface [polypeptide binding]; other site 1163399011793 Predicted membrane protein [Function unknown]; Region: COG1971 1163399011794 Domain of unknown function DUF; Region: DUF204; pfam02659 1163399011795 Domain of unknown function DUF; Region: DUF204; pfam02659 1163399011796 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1163399011797 Na binding site [ion binding]; other site 1163399011798 PAS fold; Region: PAS_7; pfam12860 1163399011799 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 1163399011800 putative active site [active] 1163399011801 heme pocket [chemical binding]; other site 1163399011802 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163399011803 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 1163399011804 dimer interface [polypeptide binding]; other site 1163399011805 phosphorylation site [posttranslational modification] 1163399011806 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 1163399011807 ATP binding site [chemical binding]; other site 1163399011808 Mg2+ binding site [ion binding]; other site 1163399011809 G-X-G motif; other site 1163399011810 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163399011811 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 1163399011812 active site 1163399011813 phosphorylation site [posttranslational modification] 1163399011814 intermolecular recognition site; other site 1163399011815 dimerization interface [polypeptide binding]; other site 1163399011816 Peptidase S46; Region: Peptidase_S46; pfam10459 1163399011817 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1163399011818 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1163399011819 Hsp70 protein; Region: HSP70; pfam00012 1163399011820 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 1163399011821 nucleotide binding site [chemical binding]; other site 1163399011822 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1163399011823 SBD interface [polypeptide binding]; other site 1163399011824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1163399011825 Family of unknown function (DUF490); Region: DUF490; pfam04357 1163399011826 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1163399011827 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163399011828 Surface antigen; Region: Bac_surface_Ag; pfam01103 1163399011829 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1163399011830 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1163399011831 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 1163399011832 dimer interface [polypeptide binding]; other site 1163399011833 motif 1; other site 1163399011834 active site 1163399011835 motif 2; other site 1163399011836 motif 3; other site 1163399011837 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1163399011838 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1163399011839 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 1163399011840 Walker A motif; other site 1163399011841 ATP binding site [chemical binding]; other site 1163399011842 Walker B motif; other site 1163399011843 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1163399011844 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1163399011845 catalytic triad [active] 1163399011846 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1163399011847 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1163399011848 twin arginine translocase protein A; Provisional; Region: tatA; PRK04561 1163399011849 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1163399011850 putative amphipathic alpha helix; other site 1163399011851 ferrochelatase; Reviewed; Region: hemH; PRK00035 1163399011852 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 1163399011853 C-terminal domain interface [polypeptide binding]; other site 1163399011854 active site 1163399011855 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 1163399011856 active site 1163399011857 N-terminal domain interface [polypeptide binding]; other site 1163399011858 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1163399011859 PAS fold; Region: PAS; pfam00989 1163399011860 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163399011861 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163399011862 dimer interface [polypeptide binding]; other site 1163399011863 putative CheW interface [polypeptide binding]; other site 1163399011864 Benzoate membrane transport protein; Region: BenE; pfam03594 1163399011865 benzoate transporter; Region: benE; TIGR00843 1163399011866 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1163399011867 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1163399011868 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1163399011869 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1163399011870 active site 1163399011871 phosphate binding residues; other site 1163399011872 catalytic residues [active] 1163399011873 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1163399011874 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 1163399011875 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163399011876 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1163399011877 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1163399011878 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1163399011879 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1163399011880 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1163399011881 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1163399011882 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1163399011883 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1163399011884 metal binding site [ion binding]; metal-binding site 1163399011885 active site 1163399011886 I-site; other site 1163399011887 hypothetical protein; Provisional; Region: PRK04233 1163399011888 hypothetical protein; Provisional; Region: PRK10621 1163399011889 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1163399011890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 1163399011891 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 1163399011892 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1163399011893 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1163399011894 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 1163399011895 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1163399011896 GTP cyclohydrolase I; Provisional; Region: PLN03044 1163399011897 active site 1163399011898 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1163399011899 MarR family; Region: MarR_2; pfam12802 1163399011900 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1163399011901 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1163399011902 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163399011903 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163399011904 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1163399011905 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1163399011906 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1163399011907 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1163399011908 AAA domain; Region: AAA_30; pfam13604 1163399011909 Family description; Region: UvrD_C_2; pfam13538 1163399011910 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1163399011911 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1163399011912 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1163399011913 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1163399011914 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1163399011915 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1163399011916 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1163399011917 Walker A/P-loop; other site 1163399011918 ATP binding site [chemical binding]; other site 1163399011919 Q-loop/lid; other site 1163399011920 ABC transporter signature motif; other site 1163399011921 Walker B; other site 1163399011922 D-loop; other site 1163399011923 H-loop/switch region; other site 1163399011924 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1163399011925 Permease; Region: Permease; pfam02405 1163399011926 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1163399011927 mce related protein; Region: MCE; pfam02470 1163399011928 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1163399011929 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 1163399011930 VacJ like lipoprotein; Region: VacJ; cl01073 1163399011931 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 1163399011932 catalytic residues [active] 1163399011933 dimer interface [polypeptide binding]; other site 1163399011934 RmuC family; Region: RmuC; pfam02646 1163399011935 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163399011936 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1163399011937 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1163399011938 putative N-terminal domain interface [polypeptide binding]; other site 1163399011939 putative dimer interface [polypeptide binding]; other site 1163399011940 putative substrate binding pocket (H-site) [chemical binding]; other site 1163399011941 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1163399011942 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1163399011943 putative NAD(P) binding site [chemical binding]; other site 1163399011944 dimer interface [polypeptide binding]; other site 1163399011945 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399011946 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399011947 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 1163399011948 putative effector binding pocket; other site 1163399011949 dimerization interface [polypeptide binding]; other site 1163399011950 LysE type translocator; Region: LysE; cl00565 1163399011951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1163399011952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1163399011953 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 1163399011954 putative effector binding pocket; other site 1163399011955 putative dimerization interface [polypeptide binding]; other site 1163399011956 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 1163399011957 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1163399011958 active site 1163399011959 catalytic tetrad [active] 1163399011960 amino acid transporter; Region: 2A0306; TIGR00909 1163399011961 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1163399011962 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1163399011963 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1163399011964 active site 1163399011965 dimer interface [polypeptide binding]; other site 1163399011966 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1163399011967 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1163399011968 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1163399011969 putative RNA binding site [nucleotide binding]; other site 1163399011970 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 1163399011971 S-adenosylmethionine binding site [chemical binding]; other site 1163399011972 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1163399011973 Rhomboid family; Region: Rhomboid; cl11446 1163399011974 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1163399011975 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 1163399011976 putative active site [active] 1163399011977 catalytic site [active] 1163399011978 putative metal binding site [ion binding]; other site 1163399011979 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1163399011980 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1163399011981 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1163399011982 G1 box; other site 1163399011983 GTP/Mg2+ binding site [chemical binding]; other site 1163399011984 Switch I region; other site 1163399011985 G2 box; other site 1163399011986 Switch II region; other site 1163399011987 G3 box; other site 1163399011988 G4 box; other site 1163399011989 G5 box; other site 1163399011990 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1163399011991 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 1163399011992 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1163399011993 NodB motif; other site 1163399011994 active site 1163399011995 catalytic site [active] 1163399011996 metal binding site [ion binding]; metal-binding site 1163399011997 Uncharacterized protein containing caspase domain [General function prediction only]; Region: COG4249 1163399011998 Caspase domain; Region: Peptidase_C14; pfam00656 1163399011999 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1163399012000 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 1163399012001 TPR motif; other site 1163399012002 binding surface 1163399012003 membrane protein insertase, YidC/Oxa1 family, N-terminal domain; Region: yidC_nterm; TIGR03593 1163399012004 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1163399012005 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1163399012006 Ribonuclease P; Region: Ribonuclease_P; cl00457 1163399012007 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399