-- dump date 20140619_063018 -- class Genbank::misc_feature -- table misc_feature_note -- id note 96561000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 96561000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 96561000003 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 96561000004 Walker A motif; other site 96561000005 ATP binding site [chemical binding]; other site 96561000006 Walker B motif; other site 96561000007 arginine finger; other site 96561000008 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 96561000009 DnaA box-binding interface [nucleotide binding]; other site 96561000010 FAD binding domain; Region: FAD_binding_4; pfam01565 96561000011 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 96561000012 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 96561000013 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 96561000014 active site 96561000015 dimerization interface [polypeptide binding]; other site 96561000016 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 96561000017 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 96561000018 HflX GTPase family; Region: HflX; cd01878 96561000019 G1 box; other site 96561000020 GTP/Mg2+ binding site [chemical binding]; other site 96561000021 Switch I region; other site 96561000022 G2 box; other site 96561000023 G3 box; other site 96561000024 Switch II region; other site 96561000025 G4 box; other site 96561000026 G5 box; other site 96561000027 replicative DNA helicase; Region: DnaB; TIGR00665 96561000028 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 96561000029 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 96561000030 Walker A motif; other site 96561000031 ATP binding site [chemical binding]; other site 96561000032 Walker B motif; other site 96561000033 DNA binding loops [nucleotide binding] 96561000034 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 96561000035 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 96561000036 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 96561000037 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 96561000038 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 96561000039 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 96561000040 Family description; Region: VCBS; pfam13517 96561000041 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 96561000042 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 96561000043 GatB domain; Region: GatB_Yqey; smart00845 96561000044 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 96561000045 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 96561000046 Uncharacterized conserved protein [Function unknown]; Region: COG2128 96561000047 hypothetical protein; Provisional; Region: PRK13665 96561000048 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 96561000049 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 96561000050 dimer interface [polypeptide binding]; other site 96561000051 active site residues [active] 96561000052 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 96561000053 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 96561000054 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 96561000055 motif II; other site 96561000056 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 96561000057 active site 96561000058 metal binding site [ion binding]; metal-binding site 96561000059 homotetramer interface [polypeptide binding]; other site 96561000060 primosome assembly protein PriA; Validated; Region: PRK05580 96561000061 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 96561000062 ATP binding site [chemical binding]; other site 96561000063 putative Mg++ binding site [ion binding]; other site 96561000064 helicase superfamily c-terminal domain; Region: HELICc; smart00490 96561000065 ATP-binding site [chemical binding]; other site 96561000066 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 96561000067 dimer interface [polypeptide binding]; other site 96561000068 Citrate synthase; Region: Citrate_synt; pfam00285 96561000069 active site 96561000070 citrylCoA binding site [chemical binding]; other site 96561000071 NADH binding [chemical binding]; other site 96561000072 cationic pore residues; other site 96561000073 oxalacetate/citrate binding site [chemical binding]; other site 96561000074 coenzyme A binding site [chemical binding]; other site 96561000075 catalytic triad [active] 96561000076 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 96561000077 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561000078 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 96561000079 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 96561000080 active site 96561000081 phosphorylation site [posttranslational modification] 96561000082 intermolecular recognition site; other site 96561000083 dimerization interface [polypeptide binding]; other site 96561000084 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 96561000085 dimerization interface [polypeptide binding]; other site 96561000086 DNA binding residues [nucleotide binding] 96561000087 Catalytic domain of Protein Kinases; Region: PKc; cd00180 96561000088 active site 96561000089 substrate binding site [chemical binding]; other site 96561000090 ATP binding site [chemical binding]; other site 96561000091 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 96561000092 activation loop (A-loop); other site 96561000093 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 96561000094 AAA ATPase domain; Region: AAA_16; pfam13191 96561000095 Predicted ATPase [General function prediction only]; Region: COG3899 96561000096 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 96561000097 TPR motif; other site 96561000098 binding surface 96561000099 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96561000100 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 96561000101 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 96561000102 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 96561000103 ATP binding site [chemical binding]; other site 96561000104 Mg2+ binding site [ion binding]; other site 96561000105 G-X-G motif; other site 96561000106 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 96561000107 mce related protein; Region: MCE; pfam02470 96561000108 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 96561000109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96561000110 Q-loop/lid; other site 96561000111 Walker B; other site 96561000112 D-loop; other site 96561000113 H-loop/switch region; other site 96561000114 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 96561000115 Permease; Region: Permease; pfam02405 96561000116 CHASE2 domain; Region: CHASE2; pfam05226 96561000117 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 96561000118 cyclase homology domain; Region: CHD; cd07302 96561000119 nucleotidyl binding site; other site 96561000120 metal binding site [ion binding]; metal-binding site 96561000121 dimer interface [polypeptide binding]; other site 96561000122 TPR repeat; Region: TPR_11; pfam13414 96561000123 Tetratricopeptide repeat; Region: TPR_2; pfam07719 96561000124 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 96561000125 binding surface 96561000126 TPR motif; other site 96561000127 Stage II sporulation protein; Region: SpoIID; pfam08486 96561000128 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 96561000129 LPP20 lipoprotein; Region: LPP20; pfam02169 96561000130 TPR repeat; Region: TPR_11; pfam13414 96561000131 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 96561000132 TPR motif; other site 96561000133 binding surface 96561000134 S-layer homology domain; Region: SLH; pfam00395 96561000135 FecR protein; Region: FecR; pfam04773 96561000136 Nitroreductase family; Region: Nitroreductase; pfam00881 96561000137 FMN binding site [chemical binding]; other site 96561000138 dimer interface [polypeptide binding]; other site 96561000139 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561000140 4Fe-4S binding domain; Region: Fer4; pfam00037 96561000141 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 96561000142 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561000143 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 96561000144 acyl-activating enzyme (AAE) consensus motif; other site 96561000145 acyl-activating enzyme (AAE) consensus motif; other site 96561000146 putative AMP binding site [chemical binding]; other site 96561000147 putative active site [active] 96561000148 putative CoA binding site [chemical binding]; other site 96561000149 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561000150 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561000151 active site 96561000152 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561000153 active site 96561000154 Pantoate-beta-alanine ligase; Region: PanC; cd00560 96561000155 pantoate--beta-alanine ligase; Region: panC; TIGR00018 96561000156 active site 96561000157 ATP-binding site [chemical binding]; other site 96561000158 pantoate-binding site; other site 96561000159 HXXH motif; other site 96561000160 Uncharacterized conserved protein [Function unknown]; Region: COG5276 96561000161 Uncharacterized conserved protein [Function unknown]; Region: COG5276 96561000162 LVIVD repeat; Region: LVIVD; pfam08309 96561000163 LVIVD repeat; Region: LVIVD; pfam08309 96561000164 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 96561000165 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 96561000166 dimer interface [polypeptide binding]; other site 96561000167 ssDNA binding site [nucleotide binding]; other site 96561000168 tetramer (dimer of dimers) interface [polypeptide binding]; other site 96561000169 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 96561000170 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 96561000171 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 96561000172 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 96561000173 Walker A motif; other site 96561000174 ATP binding site [chemical binding]; other site 96561000175 Walker B motif; other site 96561000176 arginine finger; other site 96561000177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 96561000178 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 96561000179 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 96561000180 active site 96561000181 phosphorylation site [posttranslational modification] 96561000182 intermolecular recognition site; other site 96561000183 dimerization interface [polypeptide binding]; other site 96561000184 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 96561000185 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 96561000186 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 96561000187 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 96561000188 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 96561000189 DEAD-like helicases superfamily; Region: DEXDc; smart00487 96561000190 ATP binding site [chemical binding]; other site 96561000191 Mg++ binding site [ion binding]; other site 96561000192 motif III; other site 96561000193 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 96561000194 nucleotide binding region [chemical binding]; other site 96561000195 ATP-binding site [chemical binding]; other site 96561000196 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 96561000197 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 96561000198 alanine racemase; Reviewed; Region: alr; PRK00053 96561000199 active site 96561000200 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 96561000201 dimer interface [polypeptide binding]; other site 96561000202 substrate binding site [chemical binding]; other site 96561000203 catalytic residues [active] 96561000204 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 96561000205 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 96561000206 RNA binding surface [nucleotide binding]; other site 96561000207 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 96561000208 active site 96561000209 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 96561000210 heterotetramer interface [polypeptide binding]; other site 96561000211 active site pocket [active] 96561000212 cleavage site 96561000213 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 96561000214 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561000215 B12 binding site [chemical binding]; other site 96561000216 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 96561000217 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 96561000218 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 96561000219 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 96561000220 dimer interface [polypeptide binding]; other site 96561000221 putative functional site; other site 96561000222 putative MPT binding site; other site 96561000223 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 96561000224 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 96561000225 ligand binding site [chemical binding]; other site 96561000226 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 96561000227 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 96561000228 Ligand Binding Site [chemical binding]; other site 96561000229 TilS substrate C-terminal domain; Region: TilS_C; smart00977 96561000230 GrpE; Region: GrpE; pfam01025 96561000231 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 96561000232 dimer interface [polypeptide binding]; other site 96561000233 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 96561000234 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 96561000235 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 96561000236 nucleotide binding site [chemical binding]; other site 96561000237 NEF interaction site [polypeptide binding]; other site 96561000238 SBD interface [polypeptide binding]; other site 96561000239 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 96561000240 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 96561000241 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 96561000242 CoA binding domain; Region: CoA_binding; smart00881 96561000243 CoA-ligase; Region: Ligase_CoA; pfam00549 96561000244 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 96561000245 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 96561000246 CoA-ligase; Region: Ligase_CoA; pfam00549 96561000247 pyruvate carboxylase subunit B; Validated; Region: PRK09282 96561000248 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 96561000249 active site 96561000250 catalytic residues [active] 96561000251 metal binding site [ion binding]; metal-binding site 96561000252 homodimer binding site [polypeptide binding]; other site 96561000253 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 96561000254 carboxyltransferase (CT) interaction site; other site 96561000255 biotinylation site [posttranslational modification]; other site 96561000256 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 96561000257 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 96561000258 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 96561000259 membrane ATPase/protein kinase; Provisional; Region: PRK09435 96561000260 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 96561000261 Walker A; other site 96561000262 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 96561000263 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 96561000264 active site 96561000265 substrate binding site [chemical binding]; other site 96561000266 coenzyme B12 binding site [chemical binding]; other site 96561000267 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 96561000268 B12 binding site [chemical binding]; other site 96561000269 cobalt ligand [ion binding]; other site 96561000270 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96561000271 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 96561000272 dimer interface [polypeptide binding]; other site 96561000273 substrate binding site [chemical binding]; other site 96561000274 metal binding site [ion binding]; metal-binding site 96561000275 aspartate aminotransferase; Provisional; Region: PRK06836 96561000276 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 96561000277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561000278 homodimer interface [polypeptide binding]; other site 96561000279 catalytic residue [active] 96561000280 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 96561000281 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 96561000282 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 96561000283 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 96561000284 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 96561000285 NifU-like domain; Region: NifU; pfam01106 96561000286 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 96561000287 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 96561000288 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 96561000289 GTPase CgtA; Reviewed; Region: obgE; PRK12299 96561000290 GTP1/OBG; Region: GTP1_OBG; pfam01018 96561000291 Obg GTPase; Region: Obg; cd01898 96561000292 G1 box; other site 96561000293 GTP/Mg2+ binding site [chemical binding]; other site 96561000294 Switch I region; other site 96561000295 G2 box; other site 96561000296 G3 box; other site 96561000297 Switch II region; other site 96561000298 G4 box; other site 96561000299 G5 box; other site 96561000300 gamma-glutamyl kinase; Provisional; Region: PRK05429 96561000301 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 96561000302 nucleotide binding site [chemical binding]; other site 96561000303 homotetrameric interface [polypeptide binding]; other site 96561000304 putative phosphate binding site [ion binding]; other site 96561000305 putative allosteric binding site; other site 96561000306 PUA domain; Region: PUA; pfam01472 96561000307 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 96561000308 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 96561000309 putative catalytic cysteine [active] 96561000310 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 96561000311 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 96561000312 active site 96561000313 (T/H)XGH motif; other site 96561000314 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 96561000315 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 96561000316 phosphoglyceromutase; Provisional; Region: PRK05434 96561000317 DNA polymerase III subunit beta; Validated; Region: PRK05643 96561000318 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 96561000319 putative DNA binding surface [nucleotide binding]; other site 96561000320 dimer interface [polypeptide binding]; other site 96561000321 beta-clamp/clamp loader binding surface; other site 96561000322 beta-clamp/translesion DNA polymerase binding surface; other site 96561000323 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 96561000324 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 96561000325 ATP binding site [chemical binding]; other site 96561000326 Mg2+ binding site [ion binding]; other site 96561000327 G-X-G motif; other site 96561000328 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 96561000329 anchoring element; other site 96561000330 dimer interface [polypeptide binding]; other site 96561000331 ATP binding site [chemical binding]; other site 96561000332 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 96561000333 active site 96561000334 putative metal-binding site [ion binding]; other site 96561000335 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 96561000336 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 96561000337 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 96561000338 putative dimer interface [polypeptide binding]; other site 96561000339 putative anticodon binding site; other site 96561000340 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 96561000341 homodimer interface [polypeptide binding]; other site 96561000342 motif 1; other site 96561000343 motif 2; other site 96561000344 active site 96561000345 motif 3; other site 96561000346 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 96561000347 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 96561000348 FeS/SAM binding site; other site 96561000349 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 96561000350 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 96561000351 ribonuclease G; Provisional; Region: PRK11712 96561000352 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 96561000353 homodimer interface [polypeptide binding]; other site 96561000354 oligonucleotide binding site [chemical binding]; other site 96561000355 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 96561000356 Ribonuclease P; Region: Ribonuclease_P; pfam00825 96561000357 Haemolytic domain; Region: Haemolytic; pfam01809 96561000358 membrane protein insertase, YidC/Oxa1 family, N-terminal domain; Region: yidC_nterm; TIGR03593 96561000359 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 96561000360 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 96561000361 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 96561000362 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 96561000363 G-X-X-G motif; other site 96561000364 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 96561000365 RxxxH motif; other site 96561000366 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 96561000367 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 96561000368 trmE is a tRNA modification GTPase; Region: trmE; cd04164 96561000369 G1 box; other site 96561000370 GTP/Mg2+ binding site [chemical binding]; other site 96561000371 Switch I region; other site 96561000372 G2 box; other site 96561000373 Switch II region; other site 96561000374 G3 box; other site 96561000375 G4 box; other site 96561000376 G5 box; other site 96561000377 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 96561000378 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 96561000379 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 96561000380 S-adenosylmethionine binding site [chemical binding]; other site 96561000381 HEAT repeats; Region: HEAT_2; pfam13646 96561000382 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 96561000383 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96561000384 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561000385 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 96561000386 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561000387 acyl-activating enzyme (AAE) consensus motif; other site 96561000388 acyl-activating enzyme (AAE) consensus motif; other site 96561000389 AMP binding site [chemical binding]; other site 96561000390 active site 96561000391 CoA binding site [chemical binding]; other site 96561000392 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 96561000393 active site 96561000394 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 96561000395 active site 96561000396 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96561000397 DNA-binding site [nucleotide binding]; DNA binding site 96561000398 Transcriptional regulators [Transcription]; Region: FadR; COG2186 96561000399 short chain dehydrogenase; Provisional; Region: PRK05650 96561000400 classical (c) SDRs; Region: SDR_c; cd05233 96561000401 NAD(P) binding site [chemical binding]; other site 96561000402 active site 96561000403 Nitroreductase family; Region: Nitroreductase; pfam00881 96561000404 FMN binding site [chemical binding]; other site 96561000405 dimer interface [polypeptide binding]; other site 96561000406 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561000407 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561000408 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96561000409 Coenzyme A binding pocket [chemical binding]; other site 96561000410 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 96561000411 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 96561000412 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 96561000413 catalytic site [active] 96561000414 subunit interface [polypeptide binding]; other site 96561000415 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 96561000416 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 96561000417 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 96561000418 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 96561000419 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 96561000420 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96561000421 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 96561000422 IMP binding site; other site 96561000423 dimer interface [polypeptide binding]; other site 96561000424 interdomain contacts; other site 96561000425 partial ornithine binding site; other site 96561000426 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 96561000427 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 96561000428 active site 96561000429 tetramer interface [polypeptide binding]; other site 96561000430 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96561000431 active site 96561000432 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561000433 Transcriptional regulators [Transcription]; Region: MarR; COG1846 96561000434 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 96561000435 putative DNA binding site [nucleotide binding]; other site 96561000436 putative Zn2+ binding site [ion binding]; other site 96561000437 Trm112p-like protein; Region: Trm112p; pfam03966 96561000438 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 96561000439 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 96561000440 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 96561000441 putative [Fe4-S4] binding site [ion binding]; other site 96561000442 putative molybdopterin cofactor binding site [chemical binding]; other site 96561000443 Molydopterin dinucleotide binding domain; Region: Molydop_binding; pfam01568 96561000444 molybdopterin cofactor binding site; other site 96561000445 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 96561000446 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 96561000447 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 96561000448 putative acyl-acceptor binding pocket; other site 96561000449 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 96561000450 pyrroline-5-carboxylate reductase; Region: PLN02688 96561000451 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 96561000452 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 96561000453 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 96561000454 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 96561000455 putative active site [active] 96561000456 putative CoA binding site [chemical binding]; other site 96561000457 nudix motif; other site 96561000458 metal binding site [ion binding]; metal-binding site 96561000459 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 96561000460 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96561000461 Coenzyme A binding pocket [chemical binding]; other site 96561000462 Transglycosylase; Region: Transgly; pfam00912 96561000463 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 96561000464 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 96561000465 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 96561000466 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 96561000467 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 96561000468 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 96561000469 CoA binding domain; Region: CoA_binding_2; pfam13380 96561000470 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 96561000471 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 96561000472 putative binding surface; other site 96561000473 active site 96561000474 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 96561000475 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 96561000476 active site 96561000477 phosphorylation site [posttranslational modification] 96561000478 intermolecular recognition site; other site 96561000479 dimerization interface [polypeptide binding]; other site 96561000480 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 96561000481 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 96561000482 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 96561000483 Mg2+ binding site [ion binding]; other site 96561000484 G-X-G motif; other site 96561000485 GTP-binding protein YchF; Reviewed; Region: PRK09601 96561000486 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 96561000487 G1 box; other site 96561000488 GTP/Mg2+ binding site [chemical binding]; other site 96561000489 Switch I region; other site 96561000490 Switch II region; other site 96561000491 G4 box; other site 96561000492 G5 box; other site 96561000493 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 96561000494 Amidohydrolase; Region: Amidohydro_2; pfam04909 96561000495 active site 96561000496 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 96561000497 Phospholipid methyltransferase; Region: PEMT; cl17370 96561000498 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 96561000499 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 96561000500 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 96561000501 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 96561000502 ATP binding site [chemical binding]; other site 96561000503 Mg2+ binding site [ion binding]; other site 96561000504 G-X-G motif; other site 96561000505 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 96561000506 ATP binding site [chemical binding]; other site 96561000507 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 96561000508 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 96561000509 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 96561000510 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 96561000511 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 96561000512 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 96561000513 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96561000514 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96561000515 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 96561000516 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96561000517 substrate binding site [chemical binding]; other site 96561000518 oxyanion hole (OAH) forming residues; other site 96561000519 trimer interface [polypeptide binding]; other site 96561000520 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 96561000521 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 96561000522 dimer interface [polypeptide binding]; other site 96561000523 active site 96561000524 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 96561000525 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 96561000526 putative NAD(P) binding site [chemical binding]; other site 96561000527 putative active site [active] 96561000528 Ligand-binding SRPBCC domain of Streptococcus mutans Smu.440 and related proteins; Region: SRPBCC_Smu440-like; cd08862 96561000529 putative hydrophobic ligand binding site [chemical binding]; other site 96561000530 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 96561000531 Ligand Binding Site [chemical binding]; other site 96561000532 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 96561000533 Ligand Binding Site [chemical binding]; other site 96561000534 Ion transport protein; Region: Ion_trans; pfam00520 96561000535 Ion channel; Region: Ion_trans_2; pfam07885 96561000536 TrkA-N domain; Region: TrkA_N; pfam02254 96561000537 TrkA-C domain; Region: TrkA_C; pfam02080 96561000538 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 96561000539 TrkA-N domain; Region: TrkA_N; pfam02254 96561000540 TrkA-C domain; Region: TrkA_C; pfam02080 96561000541 CoA binding domain; Region: CoA_binding_2; pfam13380 96561000542 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 96561000543 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 96561000544 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 96561000545 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 96561000546 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 96561000547 RNA binding site [nucleotide binding]; other site 96561000548 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 96561000549 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561000550 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 96561000551 acyl-activating enzyme (AAE) consensus motif; other site 96561000552 acyl-activating enzyme (AAE) consensus motif; other site 96561000553 putative AMP binding site [chemical binding]; other site 96561000554 putative active site [active] 96561000555 putative CoA binding site [chemical binding]; other site 96561000556 TfoX N-terminal domain; Region: TfoX_N; pfam04993 96561000557 amidase; Provisional; Region: PRK07869 96561000558 Amidase; Region: Amidase; pfam01425 96561000559 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561000560 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561000561 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96561000562 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 96561000563 substrate binding site [chemical binding]; other site 96561000564 oxyanion hole (OAH) forming residues; other site 96561000565 trimer interface [polypeptide binding]; other site 96561000566 short chain dehydrogenase; Validated; Region: PRK06182 96561000567 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 96561000568 NADP binding site [chemical binding]; other site 96561000569 active site 96561000570 steroid binding site; other site 96561000571 Nitrogen permease regulator 2; Region: NPR2; pfam06218 96561000572 ABC transporter ATPase component; Reviewed; Region: PRK11147 96561000573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96561000574 Walker A/P-loop; other site 96561000575 ATP binding site [chemical binding]; other site 96561000576 ABC transporter signature motif; other site 96561000577 Walker B; other site 96561000578 D-loop; other site 96561000579 H-loop/switch region; other site 96561000580 ABC transporter; Region: ABC_tran_2; pfam12848 96561000581 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 96561000582 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96561000583 putative hydrolase; Provisional; Region: PRK10985 96561000584 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561000585 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 96561000586 FeS/SAM binding site; other site 96561000587 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 96561000588 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 96561000589 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 96561000590 RNA binding site [nucleotide binding]; other site 96561000591 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561000592 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561000593 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 96561000594 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 96561000595 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 96561000596 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 96561000597 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 96561000598 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 96561000599 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 96561000600 homotrimer interaction site [polypeptide binding]; other site 96561000601 putative active site [active] 96561000602 4Fe-4S binding domain; Region: Fer4; pfam00037 96561000603 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 96561000604 4Fe-4S binding domain; Region: Fer4; pfam00037 96561000605 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561000606 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 96561000607 4Fe-4S binding domain; Region: Fer4; pfam00037 96561000608 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561000609 4Fe-4S binding domain; Region: Fer4; pfam00037 96561000610 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 96561000611 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561000612 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 96561000613 Domain of unknown function (DUF364); Region: DUF364; pfam04016 96561000614 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 96561000615 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 96561000616 DNA binding residues [nucleotide binding] 96561000617 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 96561000618 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 96561000619 FeS/SAM binding site; other site 96561000620 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 96561000621 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 96561000622 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 96561000623 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 96561000624 DNA binding residues [nucleotide binding] 96561000625 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 96561000626 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 96561000627 Hypothetical protein; Provisional; Region: PHA03058 96561000628 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 96561000629 iron-sulfur cluster [ion binding]; other site 96561000630 [2Fe-2S] cluster binding site [ion binding]; other site 96561000631 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 96561000632 DMSO reductase family type II enzyme, molybdopterin subunit; Region: DMSO_red_II_alp; TIGR03479 96561000633 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 96561000634 molybdopterin cofactor binding site; other site 96561000635 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 96561000636 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 96561000637 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 96561000638 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; cl09929 96561000639 molybdopterin cofactor binding site; other site 96561000640 Heme-binding domain of bacterial ethylbenzene dehydrogenase; Region: DOMON_EBDH; cd09623 96561000641 heme binding site [chemical binding]; other site 96561000642 beta subunit binding site [polypeptide binding]; other site 96561000643 DMSO reductase family type II enzyme, iron-sulfur subunit; Region: DMSO_red_II_bet; TIGR03478 96561000644 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561000645 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 96561000646 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 96561000647 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; cl00859 96561000648 heme bH binding site [chemical binding]; other site 96561000649 intrachain domain interface; other site 96561000650 Qi binding site; other site 96561000651 heme bL binding site [chemical binding]; other site 96561000652 interchain domain interface [polypeptide binding]; other site 96561000653 Qo binding site; other site 96561000654 Cytochrome c; Region: Cytochrom_C; pfam00034 96561000655 Cytochrome c; Region: Cytochrom_C; pfam00034 96561000656 Cytochrome c; Region: Cytochrom_C; cl11414 96561000657 Right handed beta helix region; Region: Beta_helix; pfam13229 96561000658 Right handed beta helix region; Region: Beta_helix; pfam13229 96561000659 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 96561000660 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 96561000661 dimer interface [polypeptide binding]; other site 96561000662 putative functional site; other site 96561000663 putative MPT binding site; other site 96561000664 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561000665 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561000666 active site 96561000667 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561000668 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561000669 active site 96561000670 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 96561000671 dimerization interface [polypeptide binding]; other site 96561000672 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96561000673 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96561000674 dimer interface [polypeptide binding]; other site 96561000675 putative CheW interface [polypeptide binding]; other site 96561000676 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 96561000677 Walker A motif; other site 96561000678 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 96561000679 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 96561000680 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 96561000681 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 96561000682 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 96561000683 dimer interface [polypeptide binding]; other site 96561000684 conserved gate region; other site 96561000685 putative PBP binding loops; other site 96561000686 ABC-ATPase subunit interface; other site 96561000687 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 96561000688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96561000689 Walker A/P-loop; other site 96561000690 ATP binding site [chemical binding]; other site 96561000691 Q-loop/lid; other site 96561000692 ABC transporter signature motif; other site 96561000693 Walker B; other site 96561000694 D-loop; other site 96561000695 H-loop/switch region; other site 96561000696 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 96561000697 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 96561000698 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 96561000699 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 96561000700 dimer interface [polypeptide binding]; other site 96561000701 conserved gate region; other site 96561000702 putative PBP binding loops; other site 96561000703 ABC-ATPase subunit interface; other site 96561000704 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 96561000705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96561000706 Walker A/P-loop; other site 96561000707 ATP binding site [chemical binding]; other site 96561000708 Q-loop/lid; other site 96561000709 ABC transporter signature motif; other site 96561000710 Walker B; other site 96561000711 D-loop; other site 96561000712 H-loop/switch region; other site 96561000713 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 96561000714 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 96561000715 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 96561000716 putative lipid binding site [chemical binding]; other site 96561000717 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561000718 B12 binding site [chemical binding]; other site 96561000719 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 96561000720 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561000721 FeS/SAM binding site; other site 96561000722 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 96561000723 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 96561000724 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 96561000725 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 96561000726 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 96561000727 Response regulator receiver domain; Region: Response_reg; pfam00072 96561000728 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 96561000729 active site 96561000730 phosphorylation site [posttranslational modification] 96561000731 intermolecular recognition site; other site 96561000732 dimerization interface [polypeptide binding]; other site 96561000733 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 96561000734 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 96561000735 dimer interface [polypeptide binding]; other site 96561000736 active site 96561000737 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 96561000738 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561000739 acyl-activating enzyme (AAE) consensus motif; other site 96561000740 AMP binding site [chemical binding]; other site 96561000741 active site 96561000742 CoA binding site [chemical binding]; other site 96561000743 SCP-2 sterol transfer family; Region: SCP2; pfam02036 96561000744 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561000745 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561000746 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 96561000747 active site 96561000748 DNA polymerase IV; Validated; Region: PRK02406 96561000749 DNA binding site [nucleotide binding] 96561000750 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561000751 NRDE protein; Region: NRDE; pfam05742 96561000752 LexA repressor; Validated; Region: PRK00215 96561000753 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 96561000754 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 96561000755 Catalytic site [active] 96561000756 Protein of unknown function DUF72; Region: DUF72; pfam01904 96561000757 DNA polymerase IV; Provisional; Region: PRK02794 96561000758 Y-family of DNA polymerases; Region: PolY; cl12025 96561000759 active site 96561000760 DNA binding site [nucleotide binding] 96561000761 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 96561000762 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 96561000763 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 96561000764 active site 96561000765 PHP Thumb interface [polypeptide binding]; other site 96561000766 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 96561000767 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 96561000768 generic binding surface I; other site 96561000769 generic binding surface II; other site 96561000770 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 96561000771 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 96561000772 putative active site [active] 96561000773 catalytic site [active] 96561000774 Predicted transcriptional regulator [Transcription]; Region: COG2378 96561000775 WYL domain; Region: WYL; pfam13280 96561000776 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 96561000777 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 96561000778 Walker A motif; other site 96561000779 ATP binding site [chemical binding]; other site 96561000780 Walker B motif; other site 96561000781 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 96561000782 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 96561000783 Walker A motif; other site 96561000784 ATP binding site [chemical binding]; other site 96561000785 Walker B motif; other site 96561000786 arginine finger; other site 96561000787 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 96561000788 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 96561000789 Virulence protein [General function prediction only]; Region: COG3943 96561000790 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 96561000791 Protein of unknown function DUF45; Region: DUF45; pfam01863 96561000792 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 96561000793 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 96561000794 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 96561000795 ATP binding site [chemical binding]; other site 96561000796 putative Mg++ binding site [ion binding]; other site 96561000797 Uncharacterized conserved protein [Function unknown]; Region: COG1479 96561000798 Protein of unknown function DUF262; Region: DUF262; pfam03235 96561000799 Uncharacterized conserved protein [Function unknown]; Region: COG3472 96561000800 Protein of unknown function DUF262; Region: DUF262; pfam03235 96561000801 Uncharacterized conserved protein [Function unknown]; Region: COG1479 96561000802 Protein of unknown function DUF262; Region: DUF262; pfam03235 96561000803 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 96561000804 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 96561000805 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561000806 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 96561000807 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 96561000808 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 96561000809 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 96561000810 HsdM N-terminal domain; Region: HsdM_N; pfam12161 96561000811 Methyltransferase domain; Region: Methyltransf_26; pfam13659 96561000812 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 96561000813 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 96561000814 nucleotide binding site [chemical binding]; other site 96561000815 HEAT repeats; Region: HEAT_2; pfam13646 96561000816 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 96561000817 Tubulin/FtsZ family, GTPase domain; Region: Tubulin; pfam00091 96561000818 nucleotide binding site [chemical binding]; other site 96561000819 restriction alleviation protein, Lar family; Region: anti_R_Lar; TIGR03655 96561000820 restriction alleviation protein, Lar family; Region: anti_R_Lar; TIGR03655 96561000821 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 96561000822 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 96561000823 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 96561000824 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 96561000825 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 96561000826 active site 96561000827 PHP Thumb interface [polypeptide binding]; other site 96561000828 metal binding site [ion binding]; metal-binding site 96561000829 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 96561000830 generic binding surface I; other site 96561000831 generic binding surface II; other site 96561000832 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 96561000833 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 96561000834 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 96561000835 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 96561000836 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96561000837 Coenzyme A binding pocket [chemical binding]; other site 96561000838 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 96561000839 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 96561000840 active site 96561000841 catalytic residues [active] 96561000842 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96561000843 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 96561000844 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561000845 heme-binding residues [chemical binding]; other site 96561000846 periplasmic folding chaperone; Provisional; Region: PRK10788 96561000847 SurA N-terminal domain; Region: SurA_N_3; cl07813 96561000848 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 96561000849 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 96561000850 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 96561000851 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 96561000852 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 96561000853 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96561000854 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 96561000855 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561000856 TPR repeat; Region: TPR_11; pfam13414 96561000857 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 96561000858 TPR repeat; Region: TPR_11; pfam13414 96561000859 binding surface 96561000860 TPR motif; other site 96561000861 TPR repeat; Region: TPR_11; pfam13414 96561000862 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 96561000863 binding surface 96561000864 TPR motif; other site 96561000865 TPR repeat; Region: TPR_11; pfam13414 96561000866 HsdM N-terminal domain; Region: HsdM_N; pfam12161 96561000867 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 96561000868 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 96561000869 S-adenosylmethionine binding site [chemical binding]; other site 96561000870 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561000871 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 96561000872 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561000873 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 96561000874 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 96561000875 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 96561000876 ATP binding site [chemical binding]; other site 96561000877 putative Mg++ binding site [ion binding]; other site 96561000878 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 96561000879 FeS/SAM binding site; other site 96561000880 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 96561000881 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 96561000882 Domain of unknown function (DUF932); Region: DUF932; cl12129 96561000883 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 96561000884 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 96561000885 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 96561000886 active site 96561000887 DNA binding site [nucleotide binding] 96561000888 Int/Topo IB signature motif; other site 96561000889 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 96561000890 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 96561000891 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 96561000892 motif II; other site 96561000893 homoserine dehydrogenase; Provisional; Region: PRK06349 96561000894 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 96561000895 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 96561000896 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 96561000897 aminotransferase; Validated; Region: PRK08175 96561000898 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 96561000899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561000900 homodimer interface [polypeptide binding]; other site 96561000901 catalytic residue [active] 96561000902 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 96561000903 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 96561000904 dimerization interface [polypeptide binding]; other site 96561000905 putative ATP binding site [chemical binding]; other site 96561000906 UGMP family protein; Validated; Region: PRK09604 96561000907 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 96561000908 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 96561000909 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 96561000910 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 96561000911 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 96561000912 active site 2 [active] 96561000913 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 96561000914 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 96561000915 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 96561000916 putative ligand binding pocket/active site [active] 96561000917 putative metal binding site [ion binding]; other site 96561000918 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 96561000919 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 96561000920 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 96561000921 Cysteine-rich domain; Region: CCG; pfam02754 96561000922 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 96561000923 translocation protein TolB; Provisional; Region: tolB; PRK04922 96561000924 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561000925 heme-binding residues [chemical binding]; other site 96561000926 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561000927 heme-binding residues [chemical binding]; other site 96561000928 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 96561000929 SLBB domain; Region: SLBB; pfam10531 96561000930 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561000931 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 96561000932 FMN-binding domain; Region: FMN_bind; cl01081 96561000933 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; pfam02508 96561000934 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 96561000935 ferredoxin; Validated; Region: PRK07118 96561000936 Putative Fe-S cluster; Region: FeS; cl17515 96561000937 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 96561000938 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 96561000939 putative [Fe4-S4] binding site [ion binding]; other site 96561000940 putative molybdopterin cofactor binding site [chemical binding]; other site 96561000941 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 96561000942 putative molybdopterin cofactor binding site; other site 96561000943 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 96561000944 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561000945 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561000946 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 96561000947 acyl-activating enzyme (AAE) consensus motif; other site 96561000948 acyl-activating enzyme (AAE) consensus motif; other site 96561000949 putative AMP binding site [chemical binding]; other site 96561000950 putative active site [active] 96561000951 putative CoA binding site [chemical binding]; other site 96561000952 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 96561000953 active site 96561000954 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 96561000955 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 96561000956 FAD binding pocket [chemical binding]; other site 96561000957 FAD binding motif [chemical binding]; other site 96561000958 phosphate binding motif [ion binding]; other site 96561000959 beta-alpha-beta structure motif; other site 96561000960 NAD binding pocket [chemical binding]; other site 96561000961 Iron coordination center [ion binding]; other site 96561000962 putative oxidoreductase; Provisional; Region: PRK12831 96561000963 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561000964 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96561000965 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 96561000966 active site 96561000967 trimerization site [polypeptide binding]; other site 96561000968 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 96561000969 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 96561000970 Catalytic site [active] 96561000971 TPR repeat; Region: TPR_11; pfam13414 96561000972 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 96561000973 TPR motif; other site 96561000974 binding surface 96561000975 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561000976 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 96561000977 TPR repeat; Region: TPR_11; pfam13414 96561000978 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 96561000979 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 96561000980 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 96561000981 active site 96561000982 metal binding site [ion binding]; metal-binding site 96561000983 homotetramer interface [polypeptide binding]; other site 96561000984 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561000985 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561000986 metal binding site [ion binding]; metal-binding site 96561000987 active site 96561000988 I-site; other site 96561000989 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 96561000990 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 96561000991 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 96561000992 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 96561000993 AMIN domain; Region: AMIN; pfam11741 96561000994 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 96561000995 Secretin and TonB N terminus short domain; Region: STN; pfam07660 96561000996 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 96561000997 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 96561000998 Pilus assembly protein, PilP; Region: PilP; pfam04351 96561000999 Pilus assembly protein, PilO; Region: PilO; pfam04350 96561001000 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 96561001001 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 96561001002 Competence protein A; Region: Competence_A; pfam11104 96561001003 Cell division protein FtsA; Region: FtsA; pfam14450 96561001004 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 96561001005 sequence-specific DNA binding site [nucleotide binding]; other site 96561001006 salt bridge; other site 96561001007 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561001008 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 96561001009 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 96561001010 acyl-activating enzyme (AAE) consensus motif; other site 96561001011 putative AMP binding site [chemical binding]; other site 96561001012 putative active site [active] 96561001013 putative CoA binding site [chemical binding]; other site 96561001014 enolase; Provisional; Region: eno; PRK00077 96561001015 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 96561001016 dimer interface [polypeptide binding]; other site 96561001017 metal binding site [ion binding]; metal-binding site 96561001018 substrate binding pocket [chemical binding]; other site 96561001019 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 96561001020 CTP synthetase; Validated; Region: pyrG; PRK05380 96561001021 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 96561001022 Catalytic site [active] 96561001023 active site 96561001024 UTP binding site [chemical binding]; other site 96561001025 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 96561001026 active site 96561001027 putative oxyanion hole; other site 96561001028 catalytic triad [active] 96561001029 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 96561001030 metal binding site 2 [ion binding]; metal-binding site 96561001031 putative DNA binding helix; other site 96561001032 metal binding site 1 [ion binding]; metal-binding site 96561001033 dimer interface [polypeptide binding]; other site 96561001034 structural Zn2+ binding site [ion binding]; other site 96561001035 FeoA domain; Region: FeoA; pfam04023 96561001036 FeoA domain; Region: FeoA; pfam04023 96561001037 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 96561001038 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 96561001039 G1 box; other site 96561001040 GTP/Mg2+ binding site [chemical binding]; other site 96561001041 Switch I region; other site 96561001042 G2 box; other site 96561001043 G3 box; other site 96561001044 Switch II region; other site 96561001045 G4 box; other site 96561001046 G5 box; other site 96561001047 Nucleoside recognition; Region: Gate; pfam07670 96561001048 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 96561001049 Nucleoside recognition; Region: Gate; pfam07670 96561001050 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 96561001051 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 96561001052 active site 96561001053 metal binding site [ion binding]; metal-binding site 96561001054 Bacterial SH3 domain; Region: SH3_4; pfam06347 96561001055 Bacterial SH3 domain; Region: SH3_4; pfam06347 96561001056 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 96561001057 4Fe-4S binding domain; Region: Fer4_5; pfam12801 96561001058 4Fe-4S binding domain; Region: Fer4_5; pfam12801 96561001059 ferredoxin-type protein NapF; Region: napF; TIGR00402 96561001060 Uncharacterized conserved protein [Function unknown]; Region: COG2006 96561001061 Domain of unknown function (DUF362); Region: DUF362; pfam04015 96561001062 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 96561001063 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 96561001064 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 96561001065 S-adenosylmethionine binding site [chemical binding]; other site 96561001066 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 96561001067 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96561001068 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 96561001069 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 96561001070 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 96561001071 MFS/sugar transport protein; Region: MFS_2; pfam13347 96561001072 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 96561001073 dimerization interface [polypeptide binding]; other site 96561001074 putative DNA binding site [nucleotide binding]; other site 96561001075 putative Zn2+ binding site [ion binding]; other site 96561001076 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 96561001077 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 96561001078 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 96561001079 homotetramer interface [polypeptide binding]; other site 96561001080 ligand binding site [chemical binding]; other site 96561001081 catalytic site [active] 96561001082 NAD binding site [chemical binding]; other site 96561001083 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 96561001084 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 96561001085 putative active site [active] 96561001086 catalytic triad [active] 96561001087 putative dimer interface [polypeptide binding]; other site 96561001088 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 96561001089 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 96561001090 Lipase (class 2); Region: Lipase_2; pfam01674 96561001091 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 96561001092 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 96561001093 Walker A motif; other site 96561001094 ATP binding site [chemical binding]; other site 96561001095 Walker B motif; other site 96561001096 arginine finger; other site 96561001097 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561001098 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 96561001099 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96561001100 putative substrate translocation pore; other site 96561001101 Right handed beta helix region; Region: Beta_helix; pfam13229 96561001102 Right handed beta helix region; Region: Beta_helix; pfam13229 96561001103 Right handed beta helix region; Region: Beta_helix; pfam13229 96561001104 Uncharacterized conserved protein [Function unknown]; Region: COG2006 96561001105 Domain of unknown function (DUF362); Region: DUF362; pfam04015 96561001106 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561001107 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 96561001108 FeS/SAM binding site; other site 96561001109 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 96561001110 four helix bundle protein; Region: TIGR02436 96561001111 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 96561001112 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 96561001113 TPP-binding site [chemical binding]; other site 96561001114 dimer interface [polypeptide binding]; other site 96561001115 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 96561001116 PYR/PP interface [polypeptide binding]; other site 96561001117 dimer interface [polypeptide binding]; other site 96561001118 TPP binding site [chemical binding]; other site 96561001119 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 96561001120 Methyltransferase domain; Region: Methyltransf_11; pfam08241 96561001121 Helix-turn-helix domain; Region: HTH_17; pfam12728 96561001122 PBP superfamily domain; Region: PBP_like; pfam12727 96561001123 DHH family; Region: DHH; pfam01368 96561001124 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 96561001125 hypothetical protein; Validated; Region: PRK00110 96561001126 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 96561001127 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 96561001128 DNA repair protein RadA; Provisional; Region: PRK11823 96561001129 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 96561001130 Walker A motif/ATP binding site; other site 96561001131 ATP binding site [chemical binding]; other site 96561001132 Walker B motif; other site 96561001133 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 96561001134 active site 96561001135 dimerization interface [polypeptide binding]; other site 96561001136 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 96561001137 FMN binding site [chemical binding]; other site 96561001138 dimer interface [polypeptide binding]; other site 96561001139 phosphoenolpyruvate carboxykinase; Provisional; Region: PRK04210 96561001140 active site 96561001141 metal-binding site [ion binding] 96561001142 nucleotide-binding site [chemical binding]; other site 96561001143 muropeptide transporter; Validated; Region: ampG; cl17669 96561001144 muropeptide transporter; Validated; Region: ampG; cl17669 96561001145 Quinolinate synthetase A protein; Region: NadA; pfam02445 96561001146 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 96561001147 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 96561001148 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 96561001149 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 96561001150 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 96561001151 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 96561001152 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 96561001153 UbiA prenyltransferase family; Region: UbiA; pfam01040 96561001154 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 96561001155 Smr domain; Region: Smr; pfam01713 96561001156 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 96561001157 CoenzymeA binding site [chemical binding]; other site 96561001158 subunit interaction site [polypeptide binding]; other site 96561001159 PHB binding site; other site 96561001160 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 96561001161 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 96561001162 active site 96561001163 Transglycosylase SLT domain; Region: SLT_2; pfam13406 96561001164 murein hydrolase B; Provisional; Region: PRK10760; cl17906 96561001165 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 96561001166 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96561001167 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 96561001168 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 96561001169 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 96561001170 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 96561001171 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family; Region: 2A067; TIGR00921 96561001172 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 96561001173 GH3 auxin-responsive promoter; Region: GH3; pfam03321 96561001174 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 96561001175 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 96561001176 active site 96561001177 catalytic tetrad [active] 96561001178 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 96561001179 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 96561001180 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 96561001181 putative metal binding residues [ion binding]; other site 96561001182 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 96561001183 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 96561001184 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 96561001185 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 96561001186 ABC-ATPase subunit interface; other site 96561001187 dimer interface [polypeptide binding]; other site 96561001188 putative PBP binding regions; other site 96561001189 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 96561001190 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 96561001191 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 96561001192 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 96561001193 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 96561001194 active site 96561001195 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 96561001196 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 96561001197 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 96561001198 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 96561001199 ABC1 family; Region: ABC1; pfam03109 96561001200 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 96561001201 active site 96561001202 ATP binding site [chemical binding]; other site 96561001203 substrate binding site [chemical binding]; other site 96561001204 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 96561001205 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 96561001206 putative active site [active] 96561001207 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 96561001208 MgtE intracellular N domain; Region: MgtE_N; pfam03448 96561001209 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 96561001210 Divalent cation transporter; Region: MgtE; pfam01769 96561001211 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 96561001212 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 96561001213 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 96561001214 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 96561001215 G1 box; other site 96561001216 putative GEF interaction site [polypeptide binding]; other site 96561001217 GTP/Mg2+ binding site [chemical binding]; other site 96561001218 Switch I region; other site 96561001219 G2 box; other site 96561001220 G3 box; other site 96561001221 Switch II region; other site 96561001222 G4 box; other site 96561001223 G5 box; other site 96561001224 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 96561001225 Fic family protein [Function unknown]; Region: COG3177 96561001226 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 96561001227 Fic/DOC family; Region: Fic; pfam02661 96561001228 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 96561001229 Fic family protein [Function unknown]; Region: COG3177 96561001230 Fic/DOC family; Region: Fic; pfam02661 96561001231 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 96561001232 MgtE intracellular N domain; Region: MgtE_N; pfam03448 96561001233 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 96561001234 Divalent cation transporter; Region: MgtE; pfam01769 96561001235 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 96561001236 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 96561001237 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 96561001238 metal-binding site [ion binding] 96561001239 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 96561001240 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 96561001241 active site 96561001242 motif I; other site 96561001243 motif II; other site 96561001244 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 96561001245 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 96561001246 active site 96561001247 metal binding site [ion binding]; metal-binding site 96561001248 Protein kinase domain; Region: Pkinase; pfam00069 96561001249 Catalytic domain of Protein Kinases; Region: PKc; cd00180 96561001250 active site 96561001251 ATP binding site [chemical binding]; other site 96561001252 substrate binding site [chemical binding]; other site 96561001253 activation loop (A-loop); other site 96561001254 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 96561001255 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 96561001256 dimer interface [polypeptide binding]; other site 96561001257 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 96561001258 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 96561001259 putative active site [active] 96561001260 heme pocket [chemical binding]; other site 96561001261 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 96561001262 dimer interface [polypeptide binding]; other site 96561001263 phosphorylation site [posttranslational modification] 96561001264 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 96561001265 ATP binding site [chemical binding]; other site 96561001266 Mg2+ binding site [ion binding]; other site 96561001267 G-X-G motif; other site 96561001268 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96561001269 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 96561001270 active site 96561001271 phosphorylation site [posttranslational modification] 96561001272 intermolecular recognition site; other site 96561001273 dimerization interface [polypeptide binding]; other site 96561001274 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 96561001275 Walker A motif; other site 96561001276 ATP binding site [chemical binding]; other site 96561001277 Walker B motif; other site 96561001278 arginine finger; other site 96561001279 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561001280 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 96561001281 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 96561001282 dimer interface [polypeptide binding]; other site 96561001283 Predicted membrane protein [Function unknown]; Region: COG3462 96561001284 Short C-terminal domain; Region: SHOCT; pfam09851 96561001285 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 96561001286 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 96561001287 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 96561001288 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 96561001289 ATP binding site [chemical binding]; other site 96561001290 putative Mg++ binding site [ion binding]; other site 96561001291 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 96561001292 nucleotide binding region [chemical binding]; other site 96561001293 ATP-binding site [chemical binding]; other site 96561001294 PglZ domain; Region: PglZ; pfam08665 96561001295 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 96561001296 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 96561001297 Flagellin N-methylase; Region: FliB; pfam03692 96561001298 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 96561001299 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561001300 Zn2+ binding site [ion binding]; other site 96561001301 Mg2+ binding site [ion binding]; other site 96561001302 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 96561001303 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 96561001304 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 96561001305 dimer interface [polypeptide binding]; other site 96561001306 PYR/PP interface [polypeptide binding]; other site 96561001307 TPP binding site [chemical binding]; other site 96561001308 substrate binding site [chemical binding]; other site 96561001309 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 96561001310 TPP-binding site; other site 96561001311 4Fe-4S binding domain; Region: Fer4_6; pfam12837 96561001312 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 96561001313 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 96561001314 YcfA-like protein; Region: YcfA; cl00752 96561001315 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 96561001316 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 96561001317 HicB family; Region: HicB; pfam05534 96561001318 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 96561001319 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 96561001320 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 96561001321 RNB domain; Region: RNB; pfam00773 96561001322 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 96561001323 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 96561001324 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 96561001325 Cysteine-rich domain; Region: CCG; pfam02754 96561001326 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 96561001327 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 96561001328 4Fe-4S binding domain; Region: Fer4; cl02805 96561001329 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 96561001330 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 96561001331 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 96561001332 S-adenosylmethionine binding site [chemical binding]; other site 96561001333 4Fe-4S binding domain; Region: Fer4; pfam00037 96561001334 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561001335 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561001336 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561001337 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 96561001338 FAD binding site [chemical binding]; other site 96561001339 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 96561001340 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 96561001341 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 96561001342 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561001343 heme-binding residues [chemical binding]; other site 96561001344 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 96561001345 DsrC like protein; Region: DsrC; pfam04358 96561001346 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 96561001347 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 96561001348 putative DNA binding site [nucleotide binding]; other site 96561001349 putative Zn2+ binding site [ion binding]; other site 96561001350 Predicted amidohydrolase [General function prediction only]; Region: COG0388 96561001351 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 96561001352 putative active site [active] 96561001353 catalytic triad [active] 96561001354 putative dimer interface [polypeptide binding]; other site 96561001355 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 96561001356 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 96561001357 dimerization interface 3.5A [polypeptide binding]; other site 96561001358 active site 96561001359 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 96561001360 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 96561001361 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 96561001362 adenylate kinase; Provisional; Region: PRK14529 96561001363 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 96561001364 AMP-binding site [chemical binding]; other site 96561001365 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 96561001366 transcription termination factor Rho; Provisional; Region: rho; PRK09376 96561001367 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 96561001368 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 96561001369 RNA binding site [nucleotide binding]; other site 96561001370 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 96561001371 multimer interface [polypeptide binding]; other site 96561001372 Walker A motif; other site 96561001373 ATP binding site [chemical binding]; other site 96561001374 Walker B motif; other site 96561001375 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 96561001376 peptide chain release factor 1; Validated; Region: prfA; PRK00591 96561001377 This domain is found in peptide chain release factors; Region: PCRF; smart00937 96561001378 RF-1 domain; Region: RF-1; pfam00472 96561001379 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 96561001380 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 96561001381 S-adenosylmethionine binding site [chemical binding]; other site 96561001382 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 96561001383 rRNA interaction site [nucleotide binding]; other site 96561001384 S8 interaction site; other site 96561001385 putative laminin-1 binding site; other site 96561001386 elongation factor Ts; Reviewed; Region: tsf; PRK12332 96561001387 UBA/TS-N domain; Region: UBA; pfam00627 96561001388 Elongation factor TS; Region: EF_TS; pfam00889 96561001389 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 96561001390 putative nucleotide binding site [chemical binding]; other site 96561001391 uridine monophosphate binding site [chemical binding]; other site 96561001392 homohexameric interface [polypeptide binding]; other site 96561001393 ribosome recycling factor; Reviewed; Region: frr; PRK00083 96561001394 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 96561001395 hinge region; other site 96561001396 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 96561001397 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 96561001398 catalytic residue [active] 96561001399 putative FPP diphosphate binding site; other site 96561001400 putative FPP binding hydrophobic cleft; other site 96561001401 dimer interface [polypeptide binding]; other site 96561001402 putative IPP diphosphate binding site; other site 96561001403 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 96561001404 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 96561001405 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 96561001406 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 96561001407 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 96561001408 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 96561001409 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 96561001410 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 96561001411 active site 96561001412 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 96561001413 protein binding site [polypeptide binding]; other site 96561001414 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 96561001415 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 96561001416 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 96561001417 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 96561001418 dimerization interface [polypeptide binding]; other site 96561001419 ATP binding site [chemical binding]; other site 96561001420 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 96561001421 dimerization interface [polypeptide binding]; other site 96561001422 ATP binding site [chemical binding]; other site 96561001423 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 96561001424 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 96561001425 putative active site [active] 96561001426 catalytic triad [active] 96561001427 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 96561001428 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 96561001429 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 96561001430 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 96561001431 PilX N-terminal; Region: PilX_N; pfam14341 96561001432 Protein metal binding site; Region: Cu-binding_MopE; pfam11617 96561001433 Protein metal binding site; Region: Cu-binding_MopE; pfam11617 96561001434 Protein metal binding site; Region: Cu-binding_MopE; pfam11617 96561001435 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 96561001436 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 96561001437 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 96561001438 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 96561001439 Class I aldolases; Region: Aldolase_Class_I; cl17187 96561001440 Peptidase family M48; Region: Peptidase_M48; pfam01435 96561001441 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 96561001442 Ligand Binding Site [chemical binding]; other site 96561001443 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 96561001444 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 96561001445 FeS/SAM binding site; other site 96561001446 Preprotein translocase SecG subunit; Region: SecG; pfam03840 96561001447 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 96561001448 triosephosphate isomerase; Provisional; Region: PRK14565 96561001449 substrate binding site [chemical binding]; other site 96561001450 dimer interface [polypeptide binding]; other site 96561001451 catalytic triad [active] 96561001452 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 96561001453 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 96561001454 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 96561001455 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 96561001456 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96561001457 Coenzyme A binding pocket [chemical binding]; other site 96561001458 hypothetical protein; Provisional; Region: PRK13683 96561001459 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 96561001460 active pocket/dimerization site; other site 96561001461 active site 96561001462 phosphorylation site [posttranslational modification] 96561001463 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 96561001464 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 96561001465 active site 96561001466 phosphorylation site [posttranslational modification] 96561001467 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 96561001468 30S subunit binding site; other site 96561001469 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 96561001470 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 96561001471 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 96561001472 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 96561001473 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 96561001474 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 96561001475 Walker A/P-loop; other site 96561001476 ATP binding site [chemical binding]; other site 96561001477 Q-loop/lid; other site 96561001478 ABC transporter signature motif; other site 96561001479 Walker B; other site 96561001480 D-loop; other site 96561001481 H-loop/switch region; other site 96561001482 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 96561001483 OstA-like protein; Region: OstA; cl00844 96561001484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 96561001485 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 96561001486 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 96561001487 motif II; other site 96561001488 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 96561001489 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 96561001490 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 96561001491 Peptidase family M23; Region: Peptidase_M23; pfam01551 96561001492 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 96561001493 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 96561001494 Catalytic site [active] 96561001495 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 96561001496 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 96561001497 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 96561001498 dihydroorotase; Validated; Region: pyrC; PRK09357 96561001499 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 96561001500 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 96561001501 active site 96561001502 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96561001503 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 96561001504 active site 96561001505 phosphorylation site [posttranslational modification] 96561001506 intermolecular recognition site; other site 96561001507 dimerization interface [polypeptide binding]; other site 96561001508 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 96561001509 Walker A motif; other site 96561001510 ATP binding site [chemical binding]; other site 96561001511 Walker B motif; other site 96561001512 arginine finger; other site 96561001513 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561001514 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 96561001515 Vitamin K epoxide reductase family in bacteria; Region: VKOR_3; cd12920 96561001516 putative active site [active] 96561001517 redox center [active] 96561001518 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 96561001519 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 96561001520 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96561001521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561001522 NAD(P) binding site [chemical binding]; other site 96561001523 active site 96561001524 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 96561001525 active site 96561001526 Substrate binding site; other site 96561001527 Mg++ binding site; other site 96561001528 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 96561001529 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561001530 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96561001531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561001532 NAD(P) binding site [chemical binding]; other site 96561001533 active site 96561001534 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 96561001535 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 96561001536 Probable Catalytic site; other site 96561001537 metal-binding site 96561001538 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 96561001539 metal-binding site 96561001540 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 96561001541 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 96561001542 metal-binding site 96561001543 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 96561001544 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561001545 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 96561001546 Methyltransferase domain; Region: Methyltransf_11; pfam08241 96561001547 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 96561001548 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 96561001549 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 96561001550 putative DNA binding site [nucleotide binding]; other site 96561001551 dimerization interface [polypeptide binding]; other site 96561001552 putative Zn2+ binding site [ion binding]; other site 96561001553 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 96561001554 Ligand binding site; other site 96561001555 Putative Catalytic site; other site 96561001556 DXD motif; other site 96561001557 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 96561001558 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 96561001559 Ligand binding site; other site 96561001560 Putative Catalytic site; other site 96561001561 DXD motif; other site 96561001562 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 96561001563 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 96561001564 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 96561001565 Walker A motif; other site 96561001566 ATP binding site [chemical binding]; other site 96561001567 Walker B motif; other site 96561001568 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96561001569 glutamate racemase; Provisional; Region: PRK00865 96561001570 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 96561001571 recombination protein RecR; Reviewed; Region: recR; PRK00076 96561001572 RecR protein; Region: RecR; pfam02132 96561001573 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 96561001574 putative active site [active] 96561001575 putative metal-binding site [ion binding]; other site 96561001576 tetramer interface [polypeptide binding]; other site 96561001577 hypothetical protein; Validated; Region: PRK00153 96561001578 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 96561001579 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 96561001580 Walker A motif; other site 96561001581 ATP binding site [chemical binding]; other site 96561001582 Walker B motif; other site 96561001583 arginine finger; other site 96561001584 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 96561001585 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 96561001586 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 96561001587 S-adenosylmethionine binding site [chemical binding]; other site 96561001588 Protein of unknown function (DUF721); Region: DUF721; pfam05258 96561001589 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 96561001590 HflK protein; Region: hflK; TIGR01933 96561001591 HflC protein; Region: hflC; TIGR01932 96561001592 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 96561001593 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 96561001594 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 96561001595 oligomerisation interface [polypeptide binding]; other site 96561001596 mobile loop; other site 96561001597 roof hairpin; other site 96561001598 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 96561001599 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 96561001600 ring oligomerisation interface [polypeptide binding]; other site 96561001601 ATP/Mg binding site [chemical binding]; other site 96561001602 stacking interactions; other site 96561001603 hinge regions; other site 96561001604 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 96561001605 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 96561001606 Nitrogen regulatory protein P-II; Region: P-II; smart00938 96561001607 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 96561001608 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 96561001609 phosphopeptide binding site; other site 96561001610 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 96561001611 Catalytic domain of Protein Kinases; Region: PKc; cd00180 96561001612 active site 96561001613 ATP binding site [chemical binding]; other site 96561001614 substrate binding site [chemical binding]; other site 96561001615 activation loop (A-loop); other site 96561001616 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 96561001617 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 96561001618 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561001619 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 96561001620 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 96561001621 putative FMN binding site [chemical binding]; other site 96561001622 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 96561001623 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 96561001624 DNA binding residues [nucleotide binding] 96561001625 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561001626 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561001627 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 96561001628 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 96561001629 active site 96561001630 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 96561001631 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561001632 acyl-activating enzyme (AAE) consensus motif; other site 96561001633 AMP binding site [chemical binding]; other site 96561001634 active site 96561001635 CoA binding site [chemical binding]; other site 96561001636 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 96561001637 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96561001638 putative NAD(P) binding site [chemical binding]; other site 96561001639 active site 96561001640 putative substrate binding site [chemical binding]; other site 96561001641 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561001642 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561001643 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 96561001644 4Fe-4S binding domain; Region: Fer4; pfam00037 96561001645 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 96561001646 Nitrogen regulatory protein P-II; Region: P-II; smart00938 96561001647 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 96561001648 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 96561001649 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 96561001650 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 96561001651 metal binding triad; other site 96561001652 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 96561001653 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561001654 Zn2+ binding site [ion binding]; other site 96561001655 Mg2+ binding site [ion binding]; other site 96561001656 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 96561001657 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 96561001658 NAD synthetase; Provisional; Region: PRK13980 96561001659 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 96561001660 homodimer interface [polypeptide binding]; other site 96561001661 NAD binding pocket [chemical binding]; other site 96561001662 ATP binding pocket [chemical binding]; other site 96561001663 Mg binding site [ion binding]; other site 96561001664 active-site loop [active] 96561001665 Uncharacterized conserved protein [Function unknown]; Region: COG0432 96561001666 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 96561001667 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 96561001668 motif II; other site 96561001669 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 96561001670 PAS domain; Region: PAS_9; pfam13426 96561001671 putative active site [active] 96561001672 heme pocket [chemical binding]; other site 96561001673 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 96561001674 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 96561001675 Walker A motif; other site 96561001676 ATP binding site [chemical binding]; other site 96561001677 Walker B motif; other site 96561001678 arginine finger; other site 96561001679 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 96561001680 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 96561001681 phosphorylation site [posttranslational modification] 96561001682 intermolecular recognition site; other site 96561001683 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 96561001684 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 96561001685 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 96561001686 switch II; other site 96561001687 4Fe-4S binding domain; Region: Fer4; pfam00037 96561001688 Ferredoxin [Energy production and conversion]; Region: COG1146 96561001689 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 96561001690 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 96561001691 switch II; other site 96561001692 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 96561001693 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 96561001694 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561001695 Predicted metal-binding protein [Function unknown]; Region: COG5561 96561001696 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 96561001697 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 96561001698 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561001699 acyl-activating enzyme (AAE) consensus motif; other site 96561001700 active site 96561001701 AMP binding site [chemical binding]; other site 96561001702 CoA binding site [chemical binding]; other site 96561001703 Methyltransferase domain; Region: Methyltransf_23; pfam13489 96561001704 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 96561001705 S-adenosylmethionine binding site [chemical binding]; other site 96561001706 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 96561001707 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 96561001708 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 96561001709 CoA binding domain; Region: CoA_binding_2; pfam13380 96561001710 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 96561001711 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 96561001712 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 96561001713 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 96561001714 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 96561001715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561001716 homodimer interface [polypeptide binding]; other site 96561001717 catalytic residue [active] 96561001718 Uncharacterized conserved protein [Function unknown]; Region: COG2006 96561001719 Domain of unknown function (DUF362); Region: DUF362; pfam04015 96561001720 4Fe-4S binding domain; Region: Fer4; pfam00037 96561001721 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561001722 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 96561001723 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 96561001724 dimer interface [polypeptide binding]; other site 96561001725 catalytic triad [active] 96561001726 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 96561001727 Beta-lactamase; Region: Beta-lactamase; pfam00144 96561001728 rod shape-determining protein MreB; Provisional; Region: PRK13927 96561001729 MreB and similar proteins; Region: MreB_like; cd10225 96561001730 nucleotide binding site [chemical binding]; other site 96561001731 Mg binding site [ion binding]; other site 96561001732 putative protofilament interaction site [polypeptide binding]; other site 96561001733 RodZ interaction site [polypeptide binding]; other site 96561001734 rod shape-determining protein MreC; Provisional; Region: PRK13922 96561001735 rod shape-determining protein MreC; Region: MreC; pfam04085 96561001736 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 96561001737 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 96561001738 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 96561001739 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 96561001740 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 96561001741 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 96561001742 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 96561001743 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 96561001744 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 96561001745 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 96561001746 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 96561001747 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 96561001748 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 96561001749 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 96561001750 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 96561001751 beta subunit interaction interface [polypeptide binding]; other site 96561001752 Walker A motif; other site 96561001753 ATP binding site [chemical binding]; other site 96561001754 Walker B motif; other site 96561001755 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 96561001756 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 96561001757 core domain interface [polypeptide binding]; other site 96561001758 delta subunit interface [polypeptide binding]; other site 96561001759 epsilon subunit interface [polypeptide binding]; other site 96561001760 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 96561001761 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 96561001762 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 96561001763 alpha subunit interaction interface [polypeptide binding]; other site 96561001764 Walker A motif; other site 96561001765 ATP binding site [chemical binding]; other site 96561001766 Walker B motif; other site 96561001767 inhibitor binding site; inhibition site 96561001768 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 96561001769 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 96561001770 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 96561001771 gamma subunit interface [polypeptide binding]; other site 96561001772 epsilon subunit interface [polypeptide binding]; other site 96561001773 LBP interface [polypeptide binding]; other site 96561001774 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 96561001775 Substrate binding site; other site 96561001776 Mg++ binding site; other site 96561001777 Cell division protein ZapA; Region: ZapA; pfam05164 96561001778 phosphodiesterase; Provisional; Region: PRK12704 96561001779 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 96561001780 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561001781 Zn2+ binding site [ion binding]; other site 96561001782 Mg2+ binding site [ion binding]; other site 96561001783 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 96561001784 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 96561001785 active site 96561001786 HIGH motif; other site 96561001787 dimer interface [polypeptide binding]; other site 96561001788 KMSKS motif; other site 96561001789 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 96561001790 RNA binding surface [nucleotide binding]; other site 96561001791 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 96561001792 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 96561001793 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 96561001794 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 96561001795 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 96561001796 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 96561001797 FeS/SAM binding site; other site 96561001798 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 96561001799 S-adenosylmethionine binding site [chemical binding]; other site 96561001800 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 96561001801 GAF domain; Region: GAF; pfam01590 96561001802 GAF domain; Region: GAF_2; pfam13185 96561001803 HlyD family secretion protein; Region: HlyD_3; pfam13437 96561001804 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 96561001805 active site 96561001806 putative substrate binding region [chemical binding]; other site 96561001807 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12898 96561001808 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 96561001809 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 96561001810 nucleotide binding region [chemical binding]; other site 96561001811 ATP-binding site [chemical binding]; other site 96561001812 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96561001813 HlyD family secretion protein; Region: HlyD_3; pfam13437 96561001814 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 96561001815 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 96561001816 active site 96561001817 phosphorylation site [posttranslational modification] 96561001818 intermolecular recognition site; other site 96561001819 dimerization interface [polypeptide binding]; other site 96561001820 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 96561001821 DNA binding site [nucleotide binding] 96561001822 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561001823 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 96561001824 dimer interface [polypeptide binding]; other site 96561001825 phosphorylation site [posttranslational modification] 96561001826 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 96561001827 ATP binding site [chemical binding]; other site 96561001828 Mg2+ binding site [ion binding]; other site 96561001829 G-X-G motif; other site 96561001830 YceG-like family; Region: YceG; pfam02618 96561001831 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 96561001832 dimerization interface [polypeptide binding]; other site 96561001833 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561001834 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561001835 active site 96561001836 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 96561001837 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 96561001838 FAD binding pocket [chemical binding]; other site 96561001839 FAD binding motif [chemical binding]; other site 96561001840 phosphate binding motif [ion binding]; other site 96561001841 beta-alpha-beta structure motif; other site 96561001842 NAD binding pocket [chemical binding]; other site 96561001843 Iron coordination center [ion binding]; other site 96561001844 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 96561001845 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 96561001846 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 96561001847 ATP synthase subunit C; Region: ATP-synt_C; cl00466 96561001848 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 96561001849 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 96561001850 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 96561001851 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 96561001852 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 96561001853 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 96561001854 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 96561001855 DHH family; Region: DHH; pfam01368 96561001856 FOG: CBS domain [General function prediction only]; Region: COG0517 96561001857 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 96561001858 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 96561001859 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 96561001860 active site 96561001861 DNA binding site [nucleotide binding] 96561001862 Int/Topo IB signature motif; other site 96561001863 Protein of unknown function (DUF805); Region: DUF805; pfam05656 96561001864 AAA domain; Region: AAA_14; pfam13173 96561001865 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 96561001866 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 96561001867 Catalytic domain of Protein Kinases; Region: PKc; cd00180 96561001868 active site 96561001869 ATP binding site [chemical binding]; other site 96561001870 substrate binding site [chemical binding]; other site 96561001871 activation loop (A-loop); other site 96561001872 AAA ATPase domain; Region: AAA_16; pfam13191 96561001873 Predicted ATPase [General function prediction only]; Region: COG3899 96561001874 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96561001875 GAF domain; Region: GAF; pfam01590 96561001876 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561001877 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561001878 metal binding site [ion binding]; metal-binding site 96561001879 active site 96561001880 I-site; other site 96561001881 Uncharacterized conserved protein [Function unknown]; Region: COG3937 96561001882 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 96561001883 ABC1 family; Region: ABC1; cl17513 96561001884 ABC1 family; Region: ABC1; cl17513 96561001885 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96561001886 dimer interface [polypeptide binding]; other site 96561001887 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 96561001888 putative CheW interface [polypeptide binding]; other site 96561001889 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 96561001890 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 96561001891 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 96561001892 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 96561001893 putative ADP-binding pocket [chemical binding]; other site 96561001894 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 96561001895 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 96561001896 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 96561001897 active site 96561001898 homodimer interface [polypeptide binding]; other site 96561001899 catalytic site [active] 96561001900 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 96561001901 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 96561001902 G1 box; other site 96561001903 putative GEF interaction site [polypeptide binding]; other site 96561001904 GTP/Mg2+ binding site [chemical binding]; other site 96561001905 Switch I region; other site 96561001906 G2 box; other site 96561001907 G3 box; other site 96561001908 Switch II region; other site 96561001909 G4 box; other site 96561001910 G5 box; other site 96561001911 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 96561001912 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 96561001913 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 96561001914 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 96561001915 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 96561001916 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 96561001917 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 96561001918 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 96561001919 Protein of unknown function (DUF497); Region: DUF497; pfam04365 96561001920 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 96561001921 Transposase domain (DUF772); Region: DUF772; pfam05598 96561001922 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96561001923 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 96561001924 LysE type translocator; Region: LysE; pfam01810 96561001925 Nitroreductase family; Region: Nitroreductase; pfam00881 96561001926 FMN binding site [chemical binding]; other site 96561001927 dimer interface [polypeptide binding]; other site 96561001928 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96561001929 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 96561001930 substrate binding site [chemical binding]; other site 96561001931 oxyanion hole (OAH) forming residues; other site 96561001932 trimer interface [polypeptide binding]; other site 96561001933 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 96561001934 putative ADP-ribose binding site [chemical binding]; other site 96561001935 putative active site [active] 96561001936 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 96561001937 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 96561001938 dimer interface [polypeptide binding]; other site 96561001939 motif 1; other site 96561001940 active site 96561001941 motif 2; other site 96561001942 motif 3; other site 96561001943 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 96561001944 anticodon binding site; other site 96561001945 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 96561001946 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 96561001947 dimer interface [polypeptide binding]; other site 96561001948 anticodon binding site; other site 96561001949 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 96561001950 homodimer interface [polypeptide binding]; other site 96561001951 motif 1; other site 96561001952 active site 96561001953 motif 2; other site 96561001954 GAD domain; Region: GAD; pfam02938 96561001955 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 96561001956 motif 3; other site 96561001957 putative acyltransferase; Provisional; Region: PRK05790 96561001958 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 96561001959 dimer interface [polypeptide binding]; other site 96561001960 active site 96561001961 DNA gyrase subunit A; Validated; Region: PRK05560 96561001962 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 96561001963 CAP-like domain; other site 96561001964 active site 96561001965 primary dimer interface [polypeptide binding]; other site 96561001966 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 96561001967 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 96561001968 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 96561001969 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 96561001970 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 96561001971 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 96561001972 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 96561001973 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 96561001974 hypothetical protein; Reviewed; Region: PRK00024 96561001975 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 96561001976 MPN+ (JAMM) motif; other site 96561001977 Zinc-binding site [ion binding]; other site 96561001978 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 96561001979 Phosphoglycerate kinase; Region: PGK; pfam00162 96561001980 substrate binding site [chemical binding]; other site 96561001981 hinge regions; other site 96561001982 ADP binding site [chemical binding]; other site 96561001983 catalytic site [active] 96561001984 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 96561001985 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 96561001986 inhibitor-cofactor binding pocket; inhibition site 96561001987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561001988 catalytic residue [active] 96561001989 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 96561001990 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 96561001991 substrate-cofactor binding pocket; other site 96561001992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561001993 catalytic residue [active] 96561001994 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 96561001995 AAA domain; Region: AAA_26; pfam13500 96561001996 biotin synthase; Region: bioB; TIGR00433 96561001997 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 96561001998 FeS/SAM binding site; other site 96561001999 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 96561002000 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 96561002001 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 96561002002 dimer interface [polypeptide binding]; other site 96561002003 putative functional site; other site 96561002004 putative MPT binding site; other site 96561002005 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 96561002006 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 96561002007 dimer interface [polypeptide binding]; other site 96561002008 putative functional site; other site 96561002009 putative MPT binding site; other site 96561002010 PBP superfamily domain; Region: PBP_like; pfam12727 96561002011 Virulence protein [General function prediction only]; Region: COG3943 96561002012 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 96561002013 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 96561002014 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 96561002015 O-Antigen ligase; Region: Wzy_C; pfam04932 96561002016 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 96561002017 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 96561002018 V4R domain; Region: V4R; pfam02830 96561002019 fumarate hydratase; Provisional; Region: PRK15389 96561002020 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 96561002021 Fumarase C-terminus; Region: Fumerase_C; pfam05683 96561002022 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 96561002023 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96561002024 catalytic residue [active] 96561002025 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96561002026 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96561002027 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96561002028 elongation factor Tu; Reviewed; Region: PRK00049 96561002029 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 96561002030 G1 box; other site 96561002031 GEF interaction site [polypeptide binding]; other site 96561002032 GTP/Mg2+ binding site [chemical binding]; other site 96561002033 Switch I region; other site 96561002034 G2 box; other site 96561002035 G3 box; other site 96561002036 Switch II region; other site 96561002037 G4 box; other site 96561002038 G5 box; other site 96561002039 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 96561002040 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 96561002041 Antibiotic Binding Site [chemical binding]; other site 96561002042 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 96561002043 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 96561002044 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 96561002045 putative homodimer interface [polypeptide binding]; other site 96561002046 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 96561002047 heterodimer interface [polypeptide binding]; other site 96561002048 homodimer interface [polypeptide binding]; other site 96561002049 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 96561002050 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 96561002051 23S rRNA interface [nucleotide binding]; other site 96561002052 L7/L12 interface [polypeptide binding]; other site 96561002053 putative thiostrepton binding site; other site 96561002054 L25 interface [polypeptide binding]; other site 96561002055 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 96561002056 mRNA/rRNA interface [nucleotide binding]; other site 96561002057 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 96561002058 23S rRNA interface [nucleotide binding]; other site 96561002059 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 96561002060 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 96561002061 L11 interface [polypeptide binding]; other site 96561002062 putative EF-Tu interaction site [polypeptide binding]; other site 96561002063 putative EF-G interaction site [polypeptide binding]; other site 96561002064 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 96561002065 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 96561002066 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 96561002067 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 96561002068 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 96561002069 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 96561002070 RPB3 interaction site [polypeptide binding]; other site 96561002071 RPB1 interaction site [polypeptide binding]; other site 96561002072 RPB11 interaction site [polypeptide binding]; other site 96561002073 RPB10 interaction site [polypeptide binding]; other site 96561002074 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 96561002075 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 96561002076 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 96561002077 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 96561002078 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 96561002079 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 96561002080 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 96561002081 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 96561002082 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 96561002083 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 96561002084 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 96561002085 DNA binding site [nucleotide binding] 96561002086 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 96561002087 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 96561002088 S17 interaction site [polypeptide binding]; other site 96561002089 S8 interaction site; other site 96561002090 16S rRNA interaction site [nucleotide binding]; other site 96561002091 streptomycin interaction site [chemical binding]; other site 96561002092 23S rRNA interaction site [nucleotide binding]; other site 96561002093 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 96561002094 30S ribosomal protein S7; Validated; Region: PRK05302 96561002095 elongation factor Tu; Reviewed; Region: PRK00049 96561002096 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 96561002097 G1 box; other site 96561002098 GEF interaction site [polypeptide binding]; other site 96561002099 GTP/Mg2+ binding site [chemical binding]; other site 96561002100 Switch I region; other site 96561002101 G2 box; other site 96561002102 G3 box; other site 96561002103 Switch II region; other site 96561002104 G4 box; other site 96561002105 G5 box; other site 96561002106 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 96561002107 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 96561002108 Antibiotic Binding Site [chemical binding]; other site 96561002109 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 96561002110 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 96561002111 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 96561002112 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 96561002113 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 96561002114 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 96561002115 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 96561002116 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 96561002117 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 96561002118 putative translocon binding site; other site 96561002119 protein-rRNA interface [nucleotide binding]; other site 96561002120 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 96561002121 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 96561002122 G-X-X-G motif; other site 96561002123 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 96561002124 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 96561002125 23S rRNA interface [nucleotide binding]; other site 96561002126 5S rRNA interface [nucleotide binding]; other site 96561002127 putative antibiotic binding site [chemical binding]; other site 96561002128 L25 interface [polypeptide binding]; other site 96561002129 L27 interface [polypeptide binding]; other site 96561002130 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 96561002131 putative translocon interaction site; other site 96561002132 23S rRNA interface [nucleotide binding]; other site 96561002133 signal recognition particle (SRP54) interaction site; other site 96561002134 L23 interface [polypeptide binding]; other site 96561002135 trigger factor interaction site; other site 96561002136 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 96561002137 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 96561002138 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 96561002139 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 96561002140 RNA binding site [nucleotide binding]; other site 96561002141 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 96561002142 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 96561002143 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 96561002144 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 96561002145 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 96561002146 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 96561002147 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 96561002148 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 96561002149 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 96561002150 5S rRNA interface [nucleotide binding]; other site 96561002151 23S rRNA interface [nucleotide binding]; other site 96561002152 L5 interface [polypeptide binding]; other site 96561002153 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 96561002154 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 96561002155 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 96561002156 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 96561002157 23S rRNA binding site [nucleotide binding]; other site 96561002158 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 96561002159 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 96561002160 SecY translocase; Region: SecY; pfam00344 96561002161 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 96561002162 rRNA binding site [nucleotide binding]; other site 96561002163 predicted 30S ribosome binding site; other site 96561002164 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 96561002165 30S ribosomal protein S13; Region: bact_S13; TIGR03631 96561002166 30S ribosomal protein S11; Validated; Region: PRK05309 96561002167 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 96561002168 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 96561002169 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 96561002170 RNA binding surface [nucleotide binding]; other site 96561002171 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 96561002172 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 96561002173 alphaNTD homodimer interface [polypeptide binding]; other site 96561002174 alphaNTD - beta interaction site [polypeptide binding]; other site 96561002175 alphaNTD - beta' interaction site [polypeptide binding]; other site 96561002176 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 96561002177 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 96561002178 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96561002179 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 96561002180 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561002181 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561002182 metal binding site [ion binding]; metal-binding site 96561002183 active site 96561002184 I-site; other site 96561002185 WYL domain; Region: WYL; pfam13280 96561002186 Nuclease-related domain; Region: NERD; pfam08378 96561002187 Part of AAA domain; Region: AAA_19; pfam13245 96561002188 Family description; Region: UvrD_C_2; pfam13538 96561002189 CRISPR-associated protein (Cas_Cas02710); Region: Cas_Cas02710; pfam09670 96561002190 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09747 96561002191 CRISPR/Cas system-associated RAMP superfamily protein Csm5; Region: Csm5_III-A; cl17437 96561002192 CRISPR/Cas system-associated RAMP superfamily protein Csm4; Region: Csm4_III-A; cl17438 96561002193 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 96561002194 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 96561002195 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 96561002196 CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE; Region: cas_TM1811_Csm1; TIGR02578 96561002197 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cd09742 96561002198 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09741 96561002199 Uncharacterized conserved protein (DUF2276); Region: DUF2276; pfam10040 96561002200 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 96561002201 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 96561002202 substrate binding site [chemical binding]; other site 96561002203 multimerization interface [polypeptide binding]; other site 96561002204 ATP binding site [chemical binding]; other site 96561002205 MOSC domain; Region: MOSC; pfam03473 96561002206 Methyltransferase domain; Region: Methyltransf_23; pfam13489 96561002207 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 96561002208 S-adenosylmethionine binding site [chemical binding]; other site 96561002209 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 96561002210 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 96561002211 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 96561002212 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 96561002213 homodimer interface [polypeptide binding]; other site 96561002214 substrate-cofactor binding pocket; other site 96561002215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561002216 catalytic residue [active] 96561002217 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 96561002218 salt bridge; other site 96561002219 non-specific DNA binding site [nucleotide binding]; other site 96561002220 sequence-specific DNA binding site [nucleotide binding]; other site 96561002221 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 96561002222 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 96561002223 trimerization site [polypeptide binding]; other site 96561002224 active site 96561002225 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 96561002226 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 96561002227 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 96561002228 catalytic residue [active] 96561002229 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 96561002230 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 96561002231 CoenzymeA binding site [chemical binding]; other site 96561002232 subunit interaction site [polypeptide binding]; other site 96561002233 PHB binding site; other site 96561002234 Hemerythrin-like domain; Region: Hr-like; cd12108 96561002235 Fe binding site [ion binding]; other site 96561002236 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 96561002237 Methyltransferase domain; Region: Methyltransf_31; pfam13847 96561002238 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 96561002239 S-adenosylmethionine binding site [chemical binding]; other site 96561002240 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 96561002241 metabolite-proton symporter; Region: 2A0106; TIGR00883 96561002242 putative substrate translocation pore; other site 96561002243 PilZ domain; Region: PilZ; pfam07238 96561002244 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 96561002245 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 96561002246 Competence protein; Region: Competence; pfam03772 96561002247 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 96561002248 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 96561002249 Cysteine-rich domain; Region: CCG; pfam02754 96561002250 Cysteine-rich domain; Region: CCG; pfam02754 96561002251 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 96561002252 FAD binding domain; Region: FAD_binding_4; pfam01565 96561002253 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 96561002254 Cysteine-rich domain; Region: CCG; pfam02754 96561002255 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 96561002256 HSP70 interaction site [polypeptide binding]; other site 96561002257 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 96561002258 FOG: WD40 repeat [General function prediction only]; Region: COG2319 96561002259 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 96561002260 structural tetrad; other site 96561002261 Caspase domain; Region: Peptidase_C14; pfam00656 96561002262 aspartate kinase; Reviewed; Region: PRK06635 96561002263 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 96561002264 putative nucleotide binding site [chemical binding]; other site 96561002265 putative catalytic residues [active] 96561002266 putative Mg ion binding site [ion binding]; other site 96561002267 putative aspartate binding site [chemical binding]; other site 96561002268 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 96561002269 putative allosteric regulatory site; other site 96561002270 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 96561002271 putative allosteric regulatory residue; other site 96561002272 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 96561002273 putative carbohydrate kinase; Provisional; Region: PRK10565 96561002274 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 96561002275 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 96561002276 putative substrate binding site [chemical binding]; other site 96561002277 putative ATP binding site [chemical binding]; other site 96561002278 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 96561002279 active site 96561002280 hydrophilic channel; other site 96561002281 dimerization interface [polypeptide binding]; other site 96561002282 catalytic residues [active] 96561002283 active site lid [active] 96561002284 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 96561002285 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 96561002286 HlyD family secretion protein; Region: HlyD_3; pfam13437 96561002287 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 96561002288 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561002289 Zn2+ binding site [ion binding]; other site 96561002290 Mg2+ binding site [ion binding]; other site 96561002291 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 96561002292 PhoH-like protein; Region: PhoH; pfam02562 96561002293 Colicin V production protein; Region: Colicin_V; pfam02674 96561002294 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 96561002295 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 96561002296 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 96561002297 homodimer interface [polypeptide binding]; other site 96561002298 metal binding site [ion binding]; metal-binding site 96561002299 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 96561002300 homodimer interface [polypeptide binding]; other site 96561002301 active site 96561002302 putative chemical substrate binding site [chemical binding]; other site 96561002303 metal binding site [ion binding]; metal-binding site 96561002304 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 96561002305 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 96561002306 putative active site [active] 96561002307 oxyanion strand; other site 96561002308 catalytic triad [active] 96561002309 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 96561002310 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 96561002311 substrate binding site [chemical binding]; other site 96561002312 glutamase interaction surface [polypeptide binding]; other site 96561002313 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 96561002314 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 96561002315 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 96561002316 catalytic motif [active] 96561002317 Catalytic residue [active] 96561002318 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 96561002319 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 96561002320 CGGC domain; Region: CGGC; pfam08821 96561002321 Transposase IS200 like; Region: Y1_Tnp; cl00848 96561002322 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; cl07055 96561002323 DnaA box-binding interface [nucleotide binding]; other site 96561002324 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 96561002325 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 96561002326 transmembrane helices; other site 96561002327 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 96561002328 TIGR03545 family protein; Region: TIGR03545 96561002329 TIGR03546 family protein; Region: TIGR03546 96561002330 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 96561002331 ATP synthase I chain; Region: ATP_synt_I; pfam03899 96561002332 ATP synthase subunit C; Region: ATP-synt_C; cl00466 96561002333 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 96561002334 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 96561002335 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 96561002336 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 96561002337 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 96561002338 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 96561002339 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 96561002340 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561002341 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 96561002342 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 96561002343 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96561002344 HlyD family secretion protein; Region: HlyD_3; pfam13437 96561002345 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 96561002346 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 96561002347 Walker A/P-loop; other site 96561002348 ATP binding site [chemical binding]; other site 96561002349 Q-loop/lid; other site 96561002350 ABC transporter signature motif; other site 96561002351 Walker B; other site 96561002352 D-loop; other site 96561002353 H-loop/switch region; other site 96561002354 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 96561002355 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 96561002356 Walker A/P-loop; other site 96561002357 ATP binding site [chemical binding]; other site 96561002358 Q-loop/lid; other site 96561002359 ABC transporter signature motif; other site 96561002360 Walker B; other site 96561002361 D-loop; other site 96561002362 H-loop/switch region; other site 96561002363 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 96561002364 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 96561002365 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 96561002366 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 96561002367 ORF6N domain; Region: ORF6N; pfam10543 96561002368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561002369 active site 96561002370 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 96561002371 WYL domain; Region: WYL; pfam13280 96561002372 Predicted transcriptional regulator [Transcription]; Region: COG5340 96561002373 Penicillinase repressor; Region: Pencillinase_R; cl17580 96561002374 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 96561002375 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561002376 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561002377 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 96561002378 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561002379 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 96561002380 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561002381 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561002382 active site 96561002383 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561002384 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561002385 active site 96561002386 DGQHR domain; Region: DGQHR; TIGR03187 96561002387 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 96561002388 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 96561002389 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 96561002390 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561002391 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 96561002392 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561002393 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 96561002394 HsdM N-terminal domain; Region: HsdM_N; pfam12161 96561002395 Methyltransferase domain; Region: Methyltransf_26; pfam13659 96561002396 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 96561002397 DEAD-like helicases superfamily; Region: DEXDc; smart00487 96561002398 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 96561002399 ATP binding site [chemical binding]; other site 96561002400 putative Mg++ binding site [ion binding]; other site 96561002401 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 96561002402 Uncharacterized conserved protein [Function unknown]; Region: COG4127 96561002403 Restriction endonuclease; Region: Mrr_cat; pfam04471 96561002404 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 96561002405 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 96561002406 Fic family protein [Function unknown]; Region: COG3177 96561002407 Fic/DOC family; Region: Fic; pfam02661 96561002408 AAA domain; Region: AAA_14; pfam13173 96561002409 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 96561002410 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 96561002411 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 96561002412 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96561002413 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 96561002414 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 96561002415 catalytic residue [active] 96561002416 ACT domain-containing protein [General function prediction only]; Region: COG4747 96561002417 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 96561002418 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 96561002419 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 96561002420 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 96561002421 putative ligand binding site [chemical binding]; other site 96561002422 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 96561002423 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 96561002424 TM-ABC transporter signature motif; other site 96561002425 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 96561002426 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 96561002427 TM-ABC transporter signature motif; other site 96561002428 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 96561002429 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 96561002430 Walker A/P-loop; other site 96561002431 ATP binding site [chemical binding]; other site 96561002432 Q-loop/lid; other site 96561002433 ABC transporter signature motif; other site 96561002434 Walker B; other site 96561002435 D-loop; other site 96561002436 H-loop/switch region; other site 96561002437 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 96561002438 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 96561002439 Walker A/P-loop; other site 96561002440 ATP binding site [chemical binding]; other site 96561002441 Q-loop/lid; other site 96561002442 ABC transporter signature motif; other site 96561002443 Walker B; other site 96561002444 D-loop; other site 96561002445 H-loop/switch region; other site 96561002446 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 96561002447 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561002448 acyl-activating enzyme (AAE) consensus motif; other site 96561002449 AMP binding site [chemical binding]; other site 96561002450 active site 96561002451 CoA binding site [chemical binding]; other site 96561002452 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; cl00083 96561002453 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 96561002454 dimer interface [polypeptide binding]; other site 96561002455 catalytic triad [active] 96561002456 peroxidatic and resolving cysteines [active] 96561002457 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 96561002458 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 96561002459 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 96561002460 NHL repeat; Region: NHL; pfam01436 96561002461 NHL repeat; Region: NHL; pfam01436 96561002462 RHS Repeat; Region: RHS_repeat; cl11982 96561002463 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 96561002464 RHS Repeat; Region: RHS_repeat; pfam05593 96561002465 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 96561002466 Transposase IS200 like; Region: Y1_Tnp; cl00848 96561002467 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 96561002468 DnaA box-binding interface [nucleotide binding]; other site 96561002469 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 96561002470 catalytic loop [active] 96561002471 iron binding site [ion binding]; other site 96561002472 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 96561002473 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561002474 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 96561002475 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 96561002476 molybdopterin cofactor binding site; other site 96561002477 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 96561002478 molybdopterin cofactor binding site; other site 96561002479 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 96561002480 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 96561002481 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 96561002482 active site 96561002483 catalytic site [active] 96561002484 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 96561002485 glycogen synthase; Provisional; Region: glgA; PRK00654 96561002486 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 96561002487 ADP-binding pocket [chemical binding]; other site 96561002488 homodimer interface [polypeptide binding]; other site 96561002489 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 96561002490 putative homodimer interface [polypeptide binding]; other site 96561002491 putative active site pocket [active] 96561002492 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 96561002493 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 96561002494 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 96561002495 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 96561002496 active site 96561002497 catalytic site [active] 96561002498 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 96561002499 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 96561002500 Bacterial SH3 domain; Region: SH3_3; pfam08239 96561002501 PilZ domain; Region: PilZ; pfam07238 96561002502 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 96561002503 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 96561002504 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 96561002505 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 96561002506 TrkA-N domain; Region: TrkA_N; pfam02254 96561002507 TrkA-C domain; Region: TrkA_C; pfam02080 96561002508 zinc transporter ZupT; Provisional; Region: PRK04201 96561002509 ZIP Zinc transporter; Region: Zip; pfam02535 96561002510 hypothetical protein; Provisional; Region: PRK09272 96561002511 Protein of unknown function, DUF486; Region: DUF486; pfam04342 96561002512 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 96561002513 Domain of unknown function DUF21; Region: DUF21; pfam01595 96561002514 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 96561002515 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 96561002516 phosphofructokinase; Region: PFK_mixed; TIGR02483 96561002517 active site 96561002518 ADP/pyrophosphate binding site [chemical binding]; other site 96561002519 dimerization interface [polypeptide binding]; other site 96561002520 allosteric effector site; other site 96561002521 fructose-1,6-bisphosphate binding site; other site 96561002522 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 96561002523 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561002524 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 96561002525 PAS domain S-box; Region: sensory_box; TIGR00229 96561002526 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 96561002527 putative active site [active] 96561002528 heme pocket [chemical binding]; other site 96561002529 PAS domain S-box; Region: sensory_box; TIGR00229 96561002530 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 96561002531 putative active site [active] 96561002532 heme pocket [chemical binding]; other site 96561002533 PAS domain; Region: PAS; smart00091 96561002534 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561002535 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 96561002536 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 96561002537 putative active site [active] 96561002538 heme pocket [chemical binding]; other site 96561002539 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 96561002540 dimer interface [polypeptide binding]; other site 96561002541 phosphorylation site [posttranslational modification] 96561002542 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 96561002543 ATP binding site [chemical binding]; other site 96561002544 Mg2+ binding site [ion binding]; other site 96561002545 G-X-G motif; other site 96561002546 Response regulator receiver domain; Region: Response_reg; pfam00072 96561002547 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 96561002548 active site 96561002549 phosphorylation site [posttranslational modification] 96561002550 intermolecular recognition site; other site 96561002551 dimerization interface [polypeptide binding]; other site 96561002552 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96561002553 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 96561002554 active site 96561002555 phosphorylation site [posttranslational modification] 96561002556 intermolecular recognition site; other site 96561002557 dimerization interface [polypeptide binding]; other site 96561002558 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 96561002559 Walker A motif; other site 96561002560 ATP binding site [chemical binding]; other site 96561002561 Walker B motif; other site 96561002562 arginine finger; other site 96561002563 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 96561002564 anti sigma factor interaction site; other site 96561002565 regulatory phosphorylation site [posttranslational modification]; other site 96561002566 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 96561002567 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 96561002568 putative binding surface; other site 96561002569 active site 96561002570 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 96561002571 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 96561002572 ATP binding site [chemical binding]; other site 96561002573 Mg2+ binding site [ion binding]; other site 96561002574 G-X-G motif; other site 96561002575 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 96561002576 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96561002577 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 96561002578 dimerization interface [polypeptide binding]; other site 96561002579 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96561002580 dimer interface [polypeptide binding]; other site 96561002581 putative CheW interface [polypeptide binding]; other site 96561002582 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96561002583 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96561002584 dimer interface [polypeptide binding]; other site 96561002585 putative CheW interface [polypeptide binding]; other site 96561002586 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 96561002587 putative CheA interaction surface; other site 96561002588 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 96561002589 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 96561002590 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 96561002591 Response regulator receiver domain; Region: Response_reg; pfam00072 96561002592 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 96561002593 active site 96561002594 phosphorylation site [posttranslational modification] 96561002595 intermolecular recognition site; other site 96561002596 dimerization interface [polypeptide binding]; other site 96561002597 CheD chemotactic sensory transduction; Region: CheD; cl00810 96561002598 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 96561002599 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 96561002600 active site 96561002601 phosphorylation site [posttranslational modification] 96561002602 intermolecular recognition site; other site 96561002603 dimerization interface [polypeptide binding]; other site 96561002604 CheB methylesterase; Region: CheB_methylest; pfam01339 96561002605 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96561002606 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96561002607 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 96561002608 active site 96561002609 phosphorylation site [posttranslational modification] 96561002610 intermolecular recognition site; other site 96561002611 dimerization interface [polypeptide binding]; other site 96561002612 PAS domain S-box; Region: sensory_box; TIGR00229 96561002613 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 96561002614 putative active site [active] 96561002615 heme pocket [chemical binding]; other site 96561002616 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561002617 Zn2+ binding site [ion binding]; other site 96561002618 Mg2+ binding site [ion binding]; other site 96561002619 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 96561002620 PilZ domain; Region: PilZ; pfam07238 96561002621 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 96561002622 Response regulator receiver domain; Region: Response_reg; pfam00072 96561002623 active site 96561002624 phosphorylation site [posttranslational modification] 96561002625 intermolecular recognition site; other site 96561002626 dimerization interface [polypeptide binding]; other site 96561002627 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 96561002628 Response regulator receiver domain; Region: Response_reg; pfam00072 96561002629 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 96561002630 active site 96561002631 phosphorylation site [posttranslational modification] 96561002632 intermolecular recognition site; other site 96561002633 dimerization interface [polypeptide binding]; other site 96561002634 Response regulator receiver domain; Region: Response_reg; pfam00072 96561002635 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 96561002636 active site 96561002637 phosphorylation site [posttranslational modification] 96561002638 intermolecular recognition site; other site 96561002639 dimerization interface [polypeptide binding]; other site 96561002640 Response regulator receiver domain; Region: Response_reg; pfam00072 96561002641 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 96561002642 active site 96561002643 phosphorylation site [posttranslational modification] 96561002644 intermolecular recognition site; other site 96561002645 dimerization interface [polypeptide binding]; other site 96561002646 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 96561002647 dimerization interface [polypeptide binding]; other site 96561002648 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 96561002649 dimer interface [polypeptide binding]; other site 96561002650 phosphorylation site [posttranslational modification] 96561002651 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 96561002652 ATP binding site [chemical binding]; other site 96561002653 Mg2+ binding site [ion binding]; other site 96561002654 G-X-G motif; other site 96561002655 selenobiotic family peptide radical SAM maturase; Region: rSAM_for_selen; TIGR04082 96561002656 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 96561002657 FeS/SAM binding site; other site 96561002658 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 96561002659 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 96561002660 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 96561002661 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 96561002662 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 96561002663 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 96561002664 non-specific DNA binding site [nucleotide binding]; other site 96561002665 salt bridge; other site 96561002666 sequence-specific DNA binding site [nucleotide binding]; other site 96561002667 HipA N-terminal domain; Region: Couple_hipA; cl11853 96561002668 HipA-like N-terminal domain; Region: HipA_N; pfam07805 96561002669 HipA-like C-terminal domain; Region: HipA_C; pfam07804 96561002670 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96561002671 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 96561002672 substrate binding site [chemical binding]; other site 96561002673 oxyanion hole (OAH) forming residues; other site 96561002674 trimer interface [polypeptide binding]; other site 96561002675 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 96561002676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96561002677 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96561002678 Walker A/P-loop; other site 96561002679 Walker A/P-loop; other site 96561002680 ATP binding site [chemical binding]; other site 96561002681 ATP binding site [chemical binding]; other site 96561002682 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96561002683 Walker B; other site 96561002684 D-loop; other site 96561002685 H-loop/switch region; other site 96561002686 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 96561002687 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 96561002688 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 96561002689 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 96561002690 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 96561002691 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 96561002692 TPR repeat; Region: TPR_11; pfam13414 96561002693 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 96561002694 TPR motif; other site 96561002695 binding surface 96561002696 Transglycosylase; Region: Transgly; pfam00912 96561002697 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 96561002698 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 96561002699 TPR repeat; Region: TPR_11; pfam13414 96561002700 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 96561002701 binding surface 96561002702 TPR motif; other site 96561002703 TPR repeat; Region: TPR_11; pfam13414 96561002704 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 96561002705 tellurite resistance protein TehB; Provisional; Region: PRK11207 96561002706 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 96561002707 S-adenosylmethionine binding site [chemical binding]; other site 96561002708 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 96561002709 CoenzymeA binding site [chemical binding]; other site 96561002710 subunit interaction site [polypeptide binding]; other site 96561002711 PHB binding site; other site 96561002712 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 96561002713 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 96561002714 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96561002715 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 96561002716 active site 96561002717 phosphorylation site [posttranslational modification] 96561002718 intermolecular recognition site; other site 96561002719 dimerization interface [polypeptide binding]; other site 96561002720 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 96561002721 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 96561002722 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 96561002723 FtsX-like permease family; Region: FtsX; pfam02687 96561002724 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 96561002725 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 96561002726 Walker A/P-loop; other site 96561002727 ATP binding site [chemical binding]; other site 96561002728 Q-loop/lid; other site 96561002729 ABC transporter signature motif; other site 96561002730 Walker B; other site 96561002731 D-loop; other site 96561002732 H-loop/switch region; other site 96561002733 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 96561002734 active site 96561002735 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 96561002736 CAAX protease self-immunity; Region: Abi; pfam02517 96561002737 PIN domain; Region: PIN_3; cl17397 96561002738 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 96561002739 CoenzymeA binding site [chemical binding]; other site 96561002740 subunit interaction site [polypeptide binding]; other site 96561002741 PHB binding site; other site 96561002742 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 96561002743 S-adenosylmethionine binding site [chemical binding]; other site 96561002744 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 96561002745 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561002746 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561002747 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561002748 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561002749 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561002750 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561002751 active site 96561002752 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 96561002753 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 96561002754 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 96561002755 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 96561002756 lipid-transfer protein; Provisional; Region: PRK08256 96561002757 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 96561002758 active site 96561002759 Nitronate monooxygenase; Region: NMO; pfam03060 96561002760 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 96561002761 FMN binding site [chemical binding]; other site 96561002762 substrate binding site [chemical binding]; other site 96561002763 putative catalytic residue [active] 96561002764 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561002765 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561002766 active site 96561002767 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 96561002768 non-specific DNA binding site [nucleotide binding]; other site 96561002769 salt bridge; other site 96561002770 sequence-specific DNA binding site [nucleotide binding]; other site 96561002771 Restriction endonuclease BamHI; Region: BamHI; pfam02923 96561002772 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 96561002773 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 96561002774 DNA methylase; Region: N6_N4_Mtase; pfam01555 96561002775 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 96561002776 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 96561002777 Walker A/P-loop; other site 96561002778 ATP binding site [chemical binding]; other site 96561002779 Q-loop/lid; other site 96561002780 ABC transporter signature motif; other site 96561002781 Walker B; other site 96561002782 D-loop; other site 96561002783 H-loop/switch region; other site 96561002784 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 96561002785 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 96561002786 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 96561002787 Walker A/P-loop; other site 96561002788 ATP binding site [chemical binding]; other site 96561002789 Q-loop/lid; other site 96561002790 ABC transporter signature motif; other site 96561002791 Walker B; other site 96561002792 D-loop; other site 96561002793 H-loop/switch region; other site 96561002794 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 96561002795 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 96561002796 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 96561002797 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 96561002798 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 96561002799 dimer interface [polypeptide binding]; other site 96561002800 conserved gate region; other site 96561002801 putative PBP binding loops; other site 96561002802 ABC-ATPase subunit interface; other site 96561002803 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 96561002804 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 96561002805 dimer interface [polypeptide binding]; other site 96561002806 conserved gate region; other site 96561002807 putative PBP binding loops; other site 96561002808 ABC-ATPase subunit interface; other site 96561002809 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 96561002810 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 96561002811 23S rRNA interface [nucleotide binding]; other site 96561002812 L3 interface [polypeptide binding]; other site 96561002813 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 96561002814 PGAP1-like protein; Region: PGAP1; pfam07819 96561002815 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 96561002816 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 96561002817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96561002818 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 96561002819 MgtE intracellular N domain; Region: MgtE_N; cl15244 96561002820 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 96561002821 binding surface 96561002822 TPR repeat; Region: TPR_11; pfam13414 96561002823 TPR motif; other site 96561002824 TPR repeat; Region: TPR_11; pfam13414 96561002825 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 96561002826 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 96561002827 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 96561002828 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 96561002829 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 96561002830 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 96561002831 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 96561002832 Uncharacterized conserved protein [Function unknown]; Region: COG1284 96561002833 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 96561002834 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 96561002835 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 96561002836 aspartate kinase; Validated; Region: PRK09181 96561002837 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 96561002838 nucleotide binding site [chemical binding]; other site 96561002839 substrate binding site [chemical binding]; other site 96561002840 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 96561002841 allosteric regulatory residue; other site 96561002842 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 96561002843 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 96561002844 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 96561002845 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 96561002846 inhibitor-cofactor binding pocket; inhibition site 96561002847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561002848 catalytic residue [active] 96561002849 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 96561002850 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96561002851 Coenzyme A binding pocket [chemical binding]; other site 96561002852 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 96561002853 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 96561002854 domain interfaces; other site 96561002855 active site 96561002856 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 96561002857 Dodecin; Region: Dodecin; pfam07311 96561002858 GMP synthase; Reviewed; Region: guaA; PRK00074 96561002859 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 96561002860 AMP/PPi binding site [chemical binding]; other site 96561002861 candidate oxyanion hole; other site 96561002862 catalytic triad [active] 96561002863 potential glutamine specificity residues [chemical binding]; other site 96561002864 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 96561002865 ATP Binding subdomain [chemical binding]; other site 96561002866 Ligand Binding sites [chemical binding]; other site 96561002867 Dimerization subdomain; other site 96561002868 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 96561002869 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 96561002870 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 96561002871 Ligand binding site; other site 96561002872 oligomer interface; other site 96561002873 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 96561002874 AIR carboxylase; Region: AIRC; smart01001 96561002875 HEAT repeats; Region: HEAT_2; pfam13646 96561002876 CAAX protease self-immunity; Region: Abi; pfam02517 96561002877 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 96561002878 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 96561002879 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 96561002880 metal binding triad [ion binding]; metal-binding site 96561002881 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 96561002882 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 96561002883 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 96561002884 Cation efflux family; Region: Cation_efflux; pfam01545 96561002885 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 96561002886 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 96561002887 putative active site [active] 96561002888 putative metal binding site [ion binding]; other site 96561002889 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 96561002890 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 96561002891 SET domain; Region: SET; pfam00856 96561002892 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 96561002893 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 96561002894 ATP binding site [chemical binding]; other site 96561002895 putative Mg++ binding site [ion binding]; other site 96561002896 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 96561002897 nucleotide binding region [chemical binding]; other site 96561002898 ATP-binding site [chemical binding]; other site 96561002899 Helicase associated domain (HA2); Region: HA2; pfam04408 96561002900 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 96561002901 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 96561002902 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 96561002903 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561002904 putative active site [active] 96561002905 heme pocket [chemical binding]; other site 96561002906 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561002907 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 96561002908 putative active site [active] 96561002909 heme pocket [chemical binding]; other site 96561002910 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561002911 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 96561002912 putative active site [active] 96561002913 heme pocket [chemical binding]; other site 96561002914 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 96561002915 putative active site [active] 96561002916 heme pocket [chemical binding]; other site 96561002917 PAS domain S-box; Region: sensory_box; TIGR00229 96561002918 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 96561002919 putative active site [active] 96561002920 heme pocket [chemical binding]; other site 96561002921 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561002922 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 96561002923 putative active site [active] 96561002924 heme pocket [chemical binding]; other site 96561002925 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 96561002926 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561002927 putative active site [active] 96561002928 heme pocket [chemical binding]; other site 96561002929 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561002930 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 96561002931 putative active site [active] 96561002932 heme pocket [chemical binding]; other site 96561002933 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 96561002934 putative active site [active] 96561002935 heme pocket [chemical binding]; other site 96561002936 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 96561002937 dimer interface [polypeptide binding]; other site 96561002938 phosphorylation site [posttranslational modification] 96561002939 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 96561002940 ATP binding site [chemical binding]; other site 96561002941 Mg2+ binding site [ion binding]; other site 96561002942 G-X-G motif; other site 96561002943 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96561002944 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 96561002945 active site 96561002946 phosphorylation site [posttranslational modification] 96561002947 intermolecular recognition site; other site 96561002948 dimerization interface [polypeptide binding]; other site 96561002949 aldehyde dehydrogenase, Rv0768 family; Region: aldehy_Rv0768; TIGR04284 96561002950 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 96561002951 NAD(P) binding site [chemical binding]; other site 96561002952 catalytic residues [active] 96561002953 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 96561002954 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 96561002955 putative acyl-acceptor binding pocket; other site 96561002956 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 96561002957 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561002958 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 96561002959 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 96561002960 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 96561002961 active site 96561002962 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561002963 B12 binding site [chemical binding]; other site 96561002964 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561002965 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 96561002966 FeS/SAM binding site; other site 96561002967 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 96561002968 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 96561002969 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 96561002970 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 96561002971 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 96561002972 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 96561002973 active site 96561002974 phosphorylation site [posttranslational modification] 96561002975 intermolecular recognition site; other site 96561002976 dimerization interface [polypeptide binding]; other site 96561002977 CheB methylesterase; Region: CheB_methylest; pfam01339 96561002978 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 96561002979 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 96561002980 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 96561002981 putative binding surface; other site 96561002982 active site 96561002983 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 96561002984 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 96561002985 ATP binding site [chemical binding]; other site 96561002986 Mg2+ binding site [ion binding]; other site 96561002987 G-X-G motif; other site 96561002988 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; cl00256 96561002989 CheW-like domain; Region: CheW; pfam01584 96561002990 Response regulator receiver domain; Region: Response_reg; pfam00072 96561002991 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 96561002992 active site 96561002993 phosphorylation site [posttranslational modification] 96561002994 intermolecular recognition site; other site 96561002995 dimerization interface [polypeptide binding]; other site 96561002996 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 96561002997 Peptidase family U32; Region: Peptidase_U32; pfam01136 96561002998 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 96561002999 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 96561003000 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 96561003001 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561003002 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 96561003003 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 96561003004 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561003005 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 96561003006 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96561003007 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561003008 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 96561003009 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561003010 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 96561003011 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 96561003012 ATP-sulfurylase; Region: ATPS; cd00517 96561003013 active site 96561003014 HXXH motif; other site 96561003015 flexible loop; other site 96561003016 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 96561003017 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 96561003018 substrate binding site [chemical binding]; other site 96561003019 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 96561003020 substrate binding site [chemical binding]; other site 96561003021 ligand binding site [chemical binding]; other site 96561003022 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 96561003023 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 96561003024 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561003025 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 96561003026 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 96561003027 Helix-hairpin-helix motif; Region: HHH; pfam00633 96561003028 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 96561003029 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 96561003030 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 96561003031 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 96561003032 NAD(P) binding site [chemical binding]; other site 96561003033 homodimer interface [polypeptide binding]; other site 96561003034 substrate binding site [chemical binding]; other site 96561003035 active site 96561003036 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 96561003037 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 96561003038 NAD binding site [chemical binding]; other site 96561003039 substrate binding site [chemical binding]; other site 96561003040 homodimer interface [polypeptide binding]; other site 96561003041 active site 96561003042 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 96561003043 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 96561003044 substrate binding site; other site 96561003045 tetramer interface; other site 96561003046 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 96561003047 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 96561003048 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 96561003049 active site 96561003050 nucleotide binding site [chemical binding]; other site 96561003051 HIGH motif; other site 96561003052 KMSKS motif; other site 96561003053 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 96561003054 ligand-binding site [chemical binding]; other site 96561003055 Protein of unknown function (DUF330); Region: DUF330; cl01135 96561003056 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 96561003057 mce related protein; Region: MCE; pfam02470 96561003058 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 96561003059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96561003060 Walker A/P-loop; other site 96561003061 ATP binding site [chemical binding]; other site 96561003062 Q-loop/lid; other site 96561003063 ABC transporter signature motif; other site 96561003064 Walker B; other site 96561003065 D-loop; other site 96561003066 H-loop/switch region; other site 96561003067 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 96561003068 Permease; Region: Permease; pfam02405 96561003069 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 96561003070 Cysteine-rich domain; Region: CCG; pfam02754 96561003071 Cysteine-rich domain; Region: CCG; pfam02754 96561003072 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 96561003073 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 96561003074 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 96561003075 hydroxyglutarate oxidase; Provisional; Region: PRK11728 96561003076 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 96561003077 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561003078 conserved hypothetical protein; Region: TIGR02231 96561003079 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 96561003080 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 96561003081 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 96561003082 Na2 binding site [ion binding]; other site 96561003083 putative substrate binding site 1 [chemical binding]; other site 96561003084 Na binding site 1 [ion binding]; other site 96561003085 putative substrate binding site 2 [chemical binding]; other site 96561003086 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 96561003087 putative catalytic site [active] 96561003088 putative metal binding site [ion binding]; other site 96561003089 putative phosphate binding site [ion binding]; other site 96561003090 DEAD-like helicases superfamily; Region: DEXDc; smart00487 96561003091 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 96561003092 ATP binding site [chemical binding]; other site 96561003093 putative Mg++ binding site [ion binding]; other site 96561003094 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 96561003095 nucleotide binding region [chemical binding]; other site 96561003096 ATP-binding site [chemical binding]; other site 96561003097 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 96561003098 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 96561003099 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 96561003100 P-loop; other site 96561003101 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 96561003102 Peptidase family U32; Region: Peptidase_U32; pfam01136 96561003103 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 96561003104 IHF dimer interface [polypeptide binding]; other site 96561003105 IHF - DNA interface [nucleotide binding]; other site 96561003106 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 96561003107 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 96561003108 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 96561003109 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 96561003110 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 96561003111 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 96561003112 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 96561003113 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 96561003114 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 96561003115 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 96561003116 type II secretion system protein D; Region: type_II_gspD; TIGR02517 96561003117 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 96561003118 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 96561003119 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 96561003120 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 96561003121 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 96561003122 type II secretion system protein E; Region: type_II_gspE; TIGR02533 96561003123 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 96561003124 Walker A motif; other site 96561003125 ATP binding site [chemical binding]; other site 96561003126 Walker B motif; other site 96561003127 Haemolytic domain; Region: Haemolytic; pfam01809 96561003128 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 96561003129 binding surface 96561003130 TPR motif; other site 96561003131 type II secretion system protein F; Region: GspF; TIGR02120 96561003132 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 96561003133 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 96561003134 Response regulator receiver domain; Region: Response_reg; pfam00072 96561003135 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 96561003136 active site 96561003137 phosphorylation site [posttranslational modification] 96561003138 intermolecular recognition site; other site 96561003139 dimerization interface [polypeptide binding]; other site 96561003140 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 96561003141 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 96561003142 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 96561003143 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1810 96561003144 Thymidylate synthase; Region: dTMP_synthase; pfam02593 96561003145 PilZ domain; Region: PilZ; pfam07238 96561003146 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 96561003147 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96561003148 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96561003149 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 96561003150 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 96561003151 active site residue [active] 96561003152 Uncharacterized conserved protein [Function unknown]; Region: COG2128 96561003153 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 96561003154 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 96561003155 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 96561003156 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 96561003157 Family description; Region: UvrD_C_2; pfam13538 96561003158 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 96561003159 AAA domain; Region: AAA_30; pfam13604 96561003160 Family description; Region: UvrD_C_2; pfam13538 96561003161 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 96561003162 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 96561003163 CheC-like family; Region: CheC; pfam04509 96561003164 Response regulator receiver domain; Region: Response_reg; pfam00072 96561003165 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 96561003166 active site 96561003167 phosphorylation site [posttranslational modification] 96561003168 intermolecular recognition site; other site 96561003169 dimerization interface [polypeptide binding]; other site 96561003170 Peptidase family M23; Region: Peptidase_M23; pfam01551 96561003171 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 96561003172 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 96561003173 cyclase homology domain; Region: CHD; cd07302 96561003174 nucleotidyl binding site; other site 96561003175 metal binding site [ion binding]; metal-binding site 96561003176 dimer interface [polypeptide binding]; other site 96561003177 Bacillus subtilis (Bs) citrate synthase (CS)-II_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). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 96561003178 dimer interface [polypeptide binding]; other site 96561003179 Citrate synthase; Region: Citrate_synt; pfam00285 96561003180 active site 96561003181 citrylCoA binding site [chemical binding]; other site 96561003182 oxalacetate/citrate binding site [chemical binding]; other site 96561003183 coenzyme A binding site [chemical binding]; other site 96561003184 catalytic triad [active] 96561003185 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 96561003186 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 96561003187 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 96561003188 PYR/PP interface [polypeptide binding]; other site 96561003189 TPP binding site [chemical binding]; other site 96561003190 dimer interface [polypeptide binding]; other site 96561003191 substrate binding site [chemical binding]; other site 96561003192 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 96561003193 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 96561003194 TPP-binding site [chemical binding]; other site 96561003195 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 96561003196 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561003197 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561003198 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 96561003199 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 96561003200 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 96561003201 hexamer interface [polypeptide binding]; other site 96561003202 ligand binding site [chemical binding]; other site 96561003203 putative active site [active] 96561003204 NAD(P) binding site [chemical binding]; other site 96561003205 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; cd01292 96561003206 active site 96561003207 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 96561003208 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 96561003209 inhibitor-cofactor binding pocket; inhibition site 96561003210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561003211 catalytic residue [active] 96561003212 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 96561003213 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 96561003214 inhibitor-cofactor binding pocket; inhibition site 96561003215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561003216 catalytic residue [active] 96561003217 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 96561003218 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 96561003219 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 96561003220 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 96561003221 molybdopterin cofactor binding site; other site 96561003222 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 96561003223 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 96561003224 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; cl09929 96561003225 molybdopterin cofactor binding site; other site 96561003226 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 96561003227 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 96561003228 putative [Fe4-S4] binding site [ion binding]; other site 96561003229 putative molybdopterin cofactor binding site [chemical binding]; other site 96561003230 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; cl09929 96561003231 molybdopterin cofactor binding site; other site 96561003232 TPR repeat; Region: TPR_11; pfam13414 96561003233 amidase; Provisional; Region: PRK07869 96561003234 Amidase; Region: Amidase; pfam01425 96561003235 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 96561003236 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561003237 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561003238 metal binding site [ion binding]; metal-binding site 96561003239 active site 96561003240 I-site; other site 96561003241 Protein of unknown function (DUF401); Region: DUF401; cl00830 96561003242 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 96561003243 Dynamin family; Region: Dynamin_N; pfam00350 96561003244 G1 box; other site 96561003245 GTP/Mg2+ binding site [chemical binding]; other site 96561003246 G2 box; other site 96561003247 Switch I region; other site 96561003248 G3 box; other site 96561003249 Switch II region; other site 96561003250 G4 box; other site 96561003251 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 96561003252 oligomerization interface [polypeptide binding]; other site 96561003253 active site 96561003254 metal binding site [ion binding]; metal-binding site 96561003255 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 96561003256 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 96561003257 S-adenosylmethionine binding site [chemical binding]; other site 96561003258 enoyl-CoA hydratase; Provisional; Region: PRK06688 96561003259 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 96561003260 substrate binding site [chemical binding]; other site 96561003261 oxyanion hole (OAH) forming residues; other site 96561003262 trimer interface [polypeptide binding]; other site 96561003263 TPR repeat; Region: TPR_11; pfam13414 96561003264 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 96561003265 binding surface 96561003266 TPR motif; other site 96561003267 TPR repeat; Region: TPR_11; pfam13414 96561003268 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 96561003269 TPR motif; other site 96561003270 binding surface 96561003271 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 96561003272 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 96561003273 binding surface 96561003274 TPR motif; other site 96561003275 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 96561003276 binding surface 96561003277 TPR motif; other site 96561003278 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 96561003279 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 96561003280 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 96561003281 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 96561003282 Response regulator receiver domain; Region: Response_reg; pfam00072 96561003283 active site 96561003284 phosphorylation site [posttranslational modification] 96561003285 intermolecular recognition site; other site 96561003286 dimerization interface [polypeptide binding]; other site 96561003287 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 96561003288 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 96561003289 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 96561003290 Walker A motif; other site 96561003291 ATP binding site [chemical binding]; other site 96561003292 Walker B motif; other site 96561003293 Response regulator receiver domain; Region: Response_reg; pfam00072 96561003294 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 96561003295 active site 96561003296 phosphorylation site [posttranslational modification] 96561003297 intermolecular recognition site; other site 96561003298 dimerization interface [polypeptide binding]; other site 96561003299 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; cl00086 96561003300 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 96561003301 Response regulator receiver domain; Region: Response_reg; pfam00072 96561003302 active site 96561003303 phosphorylation site [posttranslational modification] 96561003304 intermolecular recognition site; other site 96561003305 dimerization interface [polypeptide binding]; other site 96561003306 Cache domain; Region: Cache_2; cl07034 96561003307 CHASE domain; Region: CHASE; pfam03924 96561003308 PAS domain S-box; Region: sensory_box; TIGR00229 96561003309 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 96561003310 putative active site [active] 96561003311 heme pocket [chemical binding]; other site 96561003312 PAS domain S-box; Region: sensory_box; TIGR00229 96561003313 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 96561003314 putative active site [active] 96561003315 heme pocket [chemical binding]; other site 96561003316 PAS domain; Region: PAS_9; pfam13426 96561003317 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96561003318 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 96561003319 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 96561003320 dimer interface [polypeptide binding]; other site 96561003321 phosphorylation site [posttranslational modification] 96561003322 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 96561003323 ATP binding site [chemical binding]; other site 96561003324 Mg2+ binding site [ion binding]; other site 96561003325 G-X-G motif; other site 96561003326 Response regulator receiver domain; Region: Response_reg; pfam00072 96561003327 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 96561003328 active site 96561003329 phosphorylation site [posttranslational modification] 96561003330 intermolecular recognition site; other site 96561003331 dimerization interface [polypeptide binding]; other site 96561003332 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 96561003333 TrkA-C domain; Region: TrkA_C; pfam02080 96561003334 TrkA-C domain; Region: TrkA_C; pfam02080 96561003335 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 96561003336 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 96561003337 Nuclease-related domain; Region: NERD; pfam08378 96561003338 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 96561003339 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561003340 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561003341 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 96561003342 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561003343 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561003344 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 96561003345 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561003346 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 96561003347 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561003348 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 96561003349 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 96561003350 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561003351 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561003352 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 96561003353 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 96561003354 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 96561003355 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561003356 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 96561003357 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 96561003358 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 96561003359 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 96561003360 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 96561003361 homodimer interface [polypeptide binding]; other site 96561003362 substrate-cofactor binding pocket; other site 96561003363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561003364 catalytic residue [active] 96561003365 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 96561003366 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 96561003367 glutamine binding [chemical binding]; other site 96561003368 catalytic triad [active] 96561003369 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 96561003370 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 96561003371 Walker A motif; other site 96561003372 ATP binding site [chemical binding]; other site 96561003373 Walker B motif; other site 96561003374 arginine finger; other site 96561003375 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 96561003376 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 96561003377 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 96561003378 putative dimer interface [polypeptide binding]; other site 96561003379 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 96561003380 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 96561003381 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 96561003382 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 96561003383 ResB-like family; Region: ResB; pfam05140 96561003384 Predicted methyltransferases [General function prediction only]; Region: COG0313 96561003385 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 96561003386 putative SAM binding site [chemical binding]; other site 96561003387 putative homodimer interface [polypeptide binding]; other site 96561003388 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 96561003389 asparagine synthetase B; Provisional; Region: asnB; PRK09431 96561003390 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 96561003391 active site 96561003392 dimer interface [polypeptide binding]; other site 96561003393 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 96561003394 Ligand Binding Site [chemical binding]; other site 96561003395 Molecular Tunnel; other site 96561003396 putative hydrolase; Provisional; Region: PRK02113 96561003397 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 96561003398 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 96561003399 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 96561003400 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 96561003401 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561003402 B12 binding site [chemical binding]; other site 96561003403 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 96561003404 Predicted amidohydrolase [General function prediction only]; Region: COG0388 96561003405 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 96561003406 active site 96561003407 catalytic triad [active] 96561003408 dimer interface [polypeptide binding]; other site 96561003409 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 96561003410 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 96561003411 dimerization interface [polypeptide binding]; other site 96561003412 putative Zn2+ binding site [ion binding]; other site 96561003413 putative DNA binding site [nucleotide binding]; other site 96561003414 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 96561003415 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 96561003416 active site 96561003417 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96561003418 GTPase Era; Reviewed; Region: era; PRK00089 96561003419 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 96561003420 G1 box; other site 96561003421 GTP/Mg2+ binding site [chemical binding]; other site 96561003422 Switch I region; other site 96561003423 G2 box; other site 96561003424 Switch II region; other site 96561003425 G3 box; other site 96561003426 G4 box; other site 96561003427 G5 box; other site 96561003428 KH domain; Region: KH_2; pfam07650 96561003429 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 96561003430 G1 box; other site 96561003431 GTP/Mg2+ binding site [chemical binding]; other site 96561003432 Switch I region; other site 96561003433 G2 box; other site 96561003434 G3 box; other site 96561003435 Switch II region; other site 96561003436 G4 box; other site 96561003437 G5 box; other site 96561003438 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 96561003439 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 96561003440 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 96561003441 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 96561003442 Short C-terminal domain; Region: SHOCT; pfam09851 96561003443 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96561003444 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96561003445 dimer interface [polypeptide binding]; other site 96561003446 putative CheW interface [polypeptide binding]; other site 96561003447 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561003448 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561003449 metal binding site [ion binding]; metal-binding site 96561003450 active site 96561003451 I-site; other site 96561003452 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 96561003453 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561003454 Zn2+ binding site [ion binding]; other site 96561003455 Mg2+ binding site [ion binding]; other site 96561003456 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 96561003457 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 96561003458 MutS domain I; Region: MutS_I; pfam01624 96561003459 MutS domain II; Region: MutS_II; pfam05188 96561003460 MutS domain III; Region: MutS_III; pfam05192 96561003461 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 96561003462 Walker A/P-loop; other site 96561003463 ATP binding site [chemical binding]; other site 96561003464 Q-loop/lid; other site 96561003465 ABC transporter signature motif; other site 96561003466 Walker B; other site 96561003467 D-loop; other site 96561003468 H-loop/switch region; other site 96561003469 AMIN domain; Region: AMIN; pfam11741 96561003470 AMIN domain; Region: AMIN; pfam11741 96561003471 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 96561003472 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 96561003473 active site 96561003474 metal binding site [ion binding]; metal-binding site 96561003475 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 96561003476 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 96561003477 PYR/PP interface [polypeptide binding]; other site 96561003478 dimer interface [polypeptide binding]; other site 96561003479 TPP binding site [chemical binding]; other site 96561003480 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 96561003481 transketolase; Reviewed; Region: PRK05899 96561003482 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 96561003483 TPP-binding site [chemical binding]; other site 96561003484 dimer interface [polypeptide binding]; other site 96561003485 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 96561003486 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 96561003487 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 96561003488 catalytic residue [active] 96561003489 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 96561003490 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 96561003491 hexamer interface [polypeptide binding]; other site 96561003492 ligand binding site [chemical binding]; other site 96561003493 putative active site [active] 96561003494 NAD(P) binding site [chemical binding]; other site 96561003495 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561003496 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561003497 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 96561003498 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 96561003499 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 96561003500 active site 96561003501 phosphorylation site [posttranslational modification] 96561003502 intermolecular recognition site; other site 96561003503 dimerization interface [polypeptide binding]; other site 96561003504 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561003505 Zn2+ binding site [ion binding]; other site 96561003506 Mg2+ binding site [ion binding]; other site 96561003507 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561003508 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561003509 metal binding site [ion binding]; metal-binding site 96561003510 active site 96561003511 I-site; other site 96561003512 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 96561003513 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 96561003514 putative active site [active] 96561003515 metal binding site [ion binding]; metal-binding site 96561003516 Carboxylesterase family; Region: COesterase; pfam00135 96561003517 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 96561003518 substrate binding pocket [chemical binding]; other site 96561003519 catalytic triad [active] 96561003520 lipase chaperone; Provisional; Region: PRK01294 96561003521 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 96561003522 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 96561003523 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 96561003524 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 96561003525 putative active site [active] 96561003526 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 96561003527 putative catalytic site [active] 96561003528 adenylate kinase, isozyme 1 subfamily; Region: aden_kin_iso1; TIGR01360 96561003529 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 96561003530 active site 96561003531 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 96561003532 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 96561003533 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 96561003534 Response regulator receiver domain; Region: Response_reg; pfam00072 96561003535 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 96561003536 active site 96561003537 phosphorylation site [posttranslational modification] 96561003538 intermolecular recognition site; other site 96561003539 dimerization interface [polypeptide binding]; other site 96561003540 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 96561003541 4Fe-4S binding domain; Region: Fer4; cl02805 96561003542 coenzyme F420-reducing hydrogenase subunit beta; Validated; Region: PRK09325 96561003543 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 96561003544 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 96561003545 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 96561003546 FAD binding site [chemical binding]; other site 96561003547 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 96561003548 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561003549 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 96561003550 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 96561003551 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561003552 Nicotine adenine dinucleotide glycohydrolase (NADase); Region: NADase_NGA; pfam07461 96561003553 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 96561003554 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 96561003555 RHS Repeat; Region: RHS_repeat; pfam05593 96561003556 RHS Repeat; Region: RHS_repeat; cl11982 96561003557 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 96561003558 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 96561003559 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 96561003560 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 96561003561 4Fe-4S binding domain; Region: Fer4; pfam00037 96561003562 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 96561003563 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561003564 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 96561003565 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 96561003566 Cysteine-rich domain; Region: CCG; pfam02754 96561003567 Cysteine-rich domain; Region: CCG; pfam02754 96561003568 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 96561003569 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 96561003570 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 96561003571 putative acyl-acceptor binding pocket; other site 96561003572 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 96561003573 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 96561003574 generic binding surface II; other site 96561003575 generic binding surface I; other site 96561003576 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561003577 Zn2+ binding site [ion binding]; other site 96561003578 Mg2+ binding site [ion binding]; other site 96561003579 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 96561003580 thymidylate kinase; Validated; Region: tmk; PRK00698 96561003581 TMP-binding site; other site 96561003582 ATP-binding site [chemical binding]; other site 96561003583 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 96561003584 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 96561003585 dimer interface [polypeptide binding]; other site 96561003586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561003587 catalytic residue [active] 96561003588 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 96561003589 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 96561003590 active site 96561003591 HIGH motif; other site 96561003592 nucleotide binding site [chemical binding]; other site 96561003593 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 96561003594 KMSKS motif; other site 96561003595 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 96561003596 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561003597 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 96561003598 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 96561003599 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 96561003600 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 96561003601 DNA binding site [nucleotide binding] 96561003602 active site 96561003603 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 96561003604 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 96561003605 Part of AAA domain; Region: AAA_19; pfam13245 96561003606 Family description; Region: UvrD_C_2; pfam13538 96561003607 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 96561003608 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 96561003609 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 96561003610 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96561003611 catalytic residue [active] 96561003612 Bacitracin resistance protein BacA; Region: BacA; pfam02673 96561003613 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 96561003614 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 96561003615 active site 96561003616 substrate binding site [chemical binding]; other site 96561003617 metal binding site [ion binding]; metal-binding site 96561003618 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 96561003619 homotrimer interaction site [polypeptide binding]; other site 96561003620 putative active site [active] 96561003621 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 96561003622 Maf-like protein; Region: Maf; pfam02545 96561003623 active site 96561003624 dimer interface [polypeptide binding]; other site 96561003625 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 96561003626 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561003627 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 96561003628 FeS/SAM binding site; other site 96561003629 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 96561003630 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 96561003631 catalytic residue [active] 96561003632 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 96561003633 Protein of unknown function (DUF456); Region: DUF456; pfam04306 96561003634 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 96561003635 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 96561003636 FMN binding site [chemical binding]; other site 96561003637 substrate binding site [chemical binding]; other site 96561003638 putative catalytic residue [active] 96561003639 Soluble P-type ATPase [General function prediction only]; Region: COG4087 96561003640 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 96561003641 binding surface 96561003642 TPR motif; other site 96561003643 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 96561003644 binding surface 96561003645 TPR motif; other site 96561003646 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 96561003647 binding surface 96561003648 TPR motif; other site 96561003649 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 96561003650 binding surface 96561003651 TPR motif; other site 96561003652 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 96561003653 binding surface 96561003654 TPR motif; other site 96561003655 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 96561003656 binding surface 96561003657 TPR motif; other site 96561003658 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 96561003659 binding surface 96561003660 TPR motif; other site 96561003661 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 96561003662 binding surface 96561003663 TPR motif; other site 96561003664 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 96561003665 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 96561003666 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 96561003667 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 96561003668 lipoprotein signal peptidase; Provisional; Region: PRK14787 96561003669 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 96561003670 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 96561003671 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 96561003672 active site 96561003673 HIGH motif; other site 96561003674 nucleotide binding site [chemical binding]; other site 96561003675 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 96561003676 active site 96561003677 KMSKS motif; other site 96561003678 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 96561003679 tRNA binding surface [nucleotide binding]; other site 96561003680 anticodon binding site; other site 96561003681 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 96561003682 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 96561003683 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 96561003684 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 96561003685 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 96561003686 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 96561003687 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 96561003688 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96561003689 Coenzyme A binding pocket [chemical binding]; other site 96561003690 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 96561003691 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 96561003692 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 96561003693 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 96561003694 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 96561003695 FeS/SAM binding site; other site 96561003696 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561003697 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 96561003698 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 96561003699 NAD binding site [chemical binding]; other site 96561003700 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 96561003701 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561003702 acyl-activating enzyme (AAE) consensus motif; other site 96561003703 active site 96561003704 AMP binding site [chemical binding]; other site 96561003705 CoA binding site [chemical binding]; other site 96561003706 FOG: CBS domain [General function prediction only]; Region: COG0517 96561003707 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 96561003708 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 96561003709 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 96561003710 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 96561003711 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 96561003712 trimer interface [polypeptide binding]; other site 96561003713 putative metal binding site [ion binding]; other site 96561003714 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 96561003715 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 96561003716 acyl-activating enzyme (AAE) consensus motif; other site 96561003717 putative AMP binding site [chemical binding]; other site 96561003718 putative active site [active] 96561003719 putative CoA binding site [chemical binding]; other site 96561003720 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 96561003721 hypothetical protein; Validated; Region: PRK00124 96561003722 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 96561003723 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 96561003724 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 96561003725 putative transposase OrfB; Reviewed; Region: PHA02517 96561003726 HTH-like domain; Region: HTH_21; pfam13276 96561003727 Integrase core domain; Region: rve; pfam00665 96561003728 Integrase core domain; Region: rve_3; pfam13683 96561003729 Transposase; Region: HTH_Tnp_1; cl17663 96561003730 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 96561003731 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 96561003732 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96561003733 HlyD family secretion protein; Region: HlyD_3; pfam13437 96561003734 Outer membrane efflux protein; Region: OEP; pfam02321 96561003735 Outer membrane efflux protein; Region: OEP; pfam02321 96561003736 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561003737 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561003738 Transposase domain (DUF772); Region: DUF772; pfam05598 96561003739 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96561003740 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 96561003741 Family description; Region: VCBS; pfam13517 96561003742 Family description; Region: VCBS; pfam13517 96561003743 Family description; Region: VCBS; pfam13517 96561003744 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 96561003745 Cysteine-rich domain; Region: CCG; pfam02754 96561003746 Cysteine-rich domain; Region: CCG; pfam02754 96561003747 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 96561003748 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 96561003749 FeS/SAM binding site; other site 96561003750 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 96561003751 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 96561003752 dimer interface [polypeptide binding]; other site 96561003753 active site 96561003754 Schiff base residues; other site 96561003755 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 96561003756 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 96561003757 FeS/SAM binding site; other site 96561003758 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 96561003759 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 96561003760 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 96561003761 Walker A motif; other site 96561003762 ATP binding site [chemical binding]; other site 96561003763 Walker B motif; other site 96561003764 PilZ domain; Region: PilZ; pfam07238 96561003765 PAS domain S-box; Region: sensory_box; TIGR00229 96561003766 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 96561003767 putative active site [active] 96561003768 heme pocket [chemical binding]; other site 96561003769 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561003770 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561003771 metal binding site [ion binding]; metal-binding site 96561003772 active site 96561003773 I-site; other site 96561003774 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 96561003775 Walker A motif; other site 96561003776 ATP binding site [chemical binding]; other site 96561003777 Walker B motif; other site 96561003778 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 96561003779 homotrimer interface [polypeptide binding]; other site 96561003780 Walker A motif; other site 96561003781 GTP binding site [chemical binding]; other site 96561003782 Walker B motif; other site 96561003783 cobalamin synthase; Reviewed; Region: cobS; PRK00235 96561003784 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 96561003785 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 96561003786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561003787 homodimer interface [polypeptide binding]; other site 96561003788 catalytic residue [active] 96561003789 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 96561003790 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 96561003791 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 96561003792 TAP-like protein; Region: Abhydrolase_4; pfam08386 96561003793 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 96561003794 YcaO-like family; Region: YcaO; pfam02624 96561003795 Tetratricopeptide repeat; Region: TPR_2; pfam07719 96561003796 TPR repeat; Region: TPR_11; pfam13414 96561003797 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 96561003798 binding surface 96561003799 TPR motif; other site 96561003800 TPR repeat; Region: TPR_11; pfam13414 96561003801 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561003802 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561003803 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 96561003804 GAF domain; Region: GAF_2; pfam13185 96561003805 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 96561003806 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 96561003807 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 96561003808 Walker A motif; other site 96561003809 ATP binding site [chemical binding]; other site 96561003810 Walker B motif; other site 96561003811 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 96561003812 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 96561003813 CoA binding domain; Region: CoA_binding_2; pfam13380 96561003814 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 96561003815 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 96561003816 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 96561003817 acyl-activating enzyme (AAE) consensus motif; other site 96561003818 putative AMP binding site [chemical binding]; other site 96561003819 putative active site [active] 96561003820 putative CoA binding site [chemical binding]; other site 96561003821 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 96561003822 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 96561003823 active site 96561003824 homodimer interface [polypeptide binding]; other site 96561003825 catalytic site [active] 96561003826 short chain dehydrogenase; Provisional; Region: PRK07825 96561003827 classical (c) SDRs; Region: SDR_c; cd05233 96561003828 NAD(P) binding site [chemical binding]; other site 96561003829 active site 96561003830 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 96561003831 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 96561003832 active site 96561003833 NTP binding site [chemical binding]; other site 96561003834 metal binding triad [ion binding]; metal-binding site 96561003835 antibiotic binding site [chemical binding]; other site 96561003836 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 96561003837 PQ loop repeat; Region: PQ-loop; pfam04193 96561003838 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 96561003839 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 96561003840 Walker A motif; other site 96561003841 ATP binding site [chemical binding]; other site 96561003842 Walker B motif; other site 96561003843 arginine finger; other site 96561003844 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561003845 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 96561003846 DEAD-like helicases superfamily; Region: DEXDc; smart00487 96561003847 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 96561003848 ATP binding site [chemical binding]; other site 96561003849 putative Mg++ binding site [ion binding]; other site 96561003850 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 96561003851 nucleotide binding region [chemical binding]; other site 96561003852 ATP-binding site [chemical binding]; other site 96561003853 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 96561003854 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 96561003855 HsdM N-terminal domain; Region: HsdM_N; pfam12161 96561003856 Methyltransferase domain; Region: Methyltransf_26; pfam13659 96561003857 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561003858 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 96561003859 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561003860 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 96561003861 Methyltransferase domain; Region: Methyltransf_26; pfam13659 96561003862 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561003863 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 96561003864 Domain of unknown function (DUF3825); Region: DUF3825; pfam12873 96561003865 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 96561003866 tetramer interfaces [polypeptide binding]; other site 96561003867 binuclear metal-binding site [ion binding]; other site 96561003868 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 96561003869 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 96561003870 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 96561003871 recombinase A; Provisional; Region: recA; PRK09354 96561003872 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 96561003873 hexamer interface [polypeptide binding]; other site 96561003874 Walker A motif; other site 96561003875 ATP binding site [chemical binding]; other site 96561003876 Walker B motif; other site 96561003877 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 96561003878 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 96561003879 motif 1; other site 96561003880 active site 96561003881 motif 2; other site 96561003882 motif 3; other site 96561003883 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 96561003884 DHHA1 domain; Region: DHHA1; pfam02272 96561003885 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 96561003886 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 96561003887 P-loop; other site 96561003888 Magnesium ion binding site [ion binding]; other site 96561003889 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 96561003890 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 96561003891 FeS/SAM binding site; other site 96561003892 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 96561003893 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561003894 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 96561003895 binding surface 96561003896 TPR motif; other site 96561003897 TPR repeat; Region: TPR_11; pfam13414 96561003898 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 96561003899 binding surface 96561003900 TPR motif; other site 96561003901 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 96561003902 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 96561003903 binding surface 96561003904 TPR motif; other site 96561003905 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 96561003906 binding surface 96561003907 TPR motif; other site 96561003908 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 96561003909 binding surface 96561003910 TPR repeat; Region: TPR_11; pfam13414 96561003911 TPR motif; other site 96561003912 TPR repeat; Region: TPR_11; pfam13414 96561003913 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 96561003914 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 96561003915 active site 96561003916 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 96561003917 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 96561003918 futalosine nucleosidase; Region: fut_nucase; TIGR03664 96561003919 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 96561003920 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 96561003921 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 96561003922 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 96561003923 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 96561003924 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96561003925 NAD binding site [chemical binding]; other site 96561003926 putative substrate binding site 2 [chemical binding]; other site 96561003927 putative substrate binding site 1 [chemical binding]; other site 96561003928 active site 96561003929 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 96561003930 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 96561003931 NADP-binding site; other site 96561003932 homotetramer interface [polypeptide binding]; other site 96561003933 substrate binding site [chemical binding]; other site 96561003934 homodimer interface [polypeptide binding]; other site 96561003935 active site 96561003936 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 96561003937 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 96561003938 NADP binding site [chemical binding]; other site 96561003939 active site 96561003940 putative substrate binding site [chemical binding]; other site 96561003941 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 96561003942 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 96561003943 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 96561003944 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 96561003945 Walker A/P-loop; other site 96561003946 ATP binding site [chemical binding]; other site 96561003947 Q-loop/lid; other site 96561003948 ABC transporter signature motif; other site 96561003949 Walker B; other site 96561003950 D-loop; other site 96561003951 H-loop/switch region; other site 96561003952 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 96561003953 Protein of unknown function (DUF563); Region: DUF563; pfam04577 96561003954 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 96561003955 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 96561003956 putative trimer interface [polypeptide binding]; other site 96561003957 putative active site [active] 96561003958 putative substrate binding site [chemical binding]; other site 96561003959 putative CoA binding site [chemical binding]; other site 96561003960 WxcM-like, C-terminal; Region: FdtA; pfam05523 96561003961 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 96561003962 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 96561003963 inhibitor-cofactor binding pocket; inhibition site 96561003964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561003965 catalytic residue [active] 96561003966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561003967 NAD(P) binding site [chemical binding]; other site 96561003968 active site 96561003969 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 96561003970 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 96561003971 Ligand binding site; other site 96561003972 Putative Catalytic site; other site 96561003973 DXD motif; other site 96561003974 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561003975 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 96561003976 putative glycosyl transferase; Provisional; Region: PRK10073 96561003977 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 96561003978 active site 96561003979 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 96561003980 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 96561003981 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 96561003982 Probable Catalytic site; other site 96561003983 metal-binding site 96561003984 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96561003985 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 96561003986 putative NAD(P) binding site [chemical binding]; other site 96561003987 active site 96561003988 putative substrate binding site [chemical binding]; other site 96561003989 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 96561003990 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 96561003991 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 96561003992 Mg++ binding site [ion binding]; other site 96561003993 putative catalytic motif [active] 96561003994 putative substrate binding site [chemical binding]; other site 96561003995 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 96561003996 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 96561003997 NAD(P) binding site [chemical binding]; other site 96561003998 homodimer interface [polypeptide binding]; other site 96561003999 substrate binding site [chemical binding]; other site 96561004000 active site 96561004001 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96561004002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561004003 NAD(P) binding site [chemical binding]; other site 96561004004 active site 96561004005 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 96561004006 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 96561004007 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561004008 active site 96561004009 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 96561004010 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 96561004011 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 96561004012 Uncharacterized conserved protein [Function unknown]; Region: COG2006 96561004013 Domain of unknown function (DUF362); Region: DUF362; pfam04015 96561004014 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561004015 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561004016 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 96561004017 Cysteine-rich domain; Region: CCG; pfam02754 96561004018 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 96561004019 putative lipid binding site [chemical binding]; other site 96561004020 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 96561004021 putative catalytic residues [active] 96561004022 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96561004023 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 96561004024 dimerization interface [polypeptide binding]; other site 96561004025 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 96561004026 dimer interface [polypeptide binding]; other site 96561004027 phosphorylation site [posttranslational modification] 96561004028 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 96561004029 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 96561004030 ATP binding site [chemical binding]; other site 96561004031 Mg2+ binding site [ion binding]; other site 96561004032 G-X-G motif; other site 96561004033 osmolarity response regulator; Provisional; Region: ompR; PRK09468 96561004034 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 96561004035 active site 96561004036 phosphorylation site [posttranslational modification] 96561004037 intermolecular recognition site; other site 96561004038 dimerization interface [polypeptide binding]; other site 96561004039 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 96561004040 DNA binding site [nucleotide binding] 96561004041 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 96561004042 homodimer interface [polypeptide binding]; other site 96561004043 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 96561004044 active site pocket [active] 96561004045 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561004046 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561004047 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 96561004048 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 96561004049 NAD(P) binding site [chemical binding]; other site 96561004050 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 96561004051 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 96561004052 PYR/PP interface [polypeptide binding]; other site 96561004053 dimer interface [polypeptide binding]; other site 96561004054 TPP binding site [chemical binding]; other site 96561004055 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 96561004056 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 96561004057 TPP-binding site; other site 96561004058 dimer interface [polypeptide binding]; other site 96561004059 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96561004060 Coenzyme A binding pocket [chemical binding]; other site 96561004061 Predicted amidohydrolase [General function prediction only]; Region: COG0388 96561004062 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 96561004063 putative active site [active] 96561004064 catalytic triad [active] 96561004065 putative dimer interface [polypeptide binding]; other site 96561004066 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 96561004067 Ligand Binding Site [chemical binding]; other site 96561004068 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 96561004069 Ligand Binding Site [chemical binding]; other site 96561004070 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 96561004071 Ligand Binding Site [chemical binding]; other site 96561004072 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 96561004073 Ligand Binding Site [chemical binding]; other site 96561004074 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 96561004075 Ligand Binding Site [chemical binding]; other site 96561004076 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 96561004077 Ligand Binding Site [chemical binding]; other site 96561004078 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 96561004079 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 96561004080 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 96561004081 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 96561004082 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 96561004083 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 96561004084 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 96561004085 molybdopterin cofactor binding site; other site 96561004086 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 96561004087 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 96561004088 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 96561004089 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 96561004090 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 96561004091 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 96561004092 transmembrane helices; other site 96561004093 PAS domain S-box; Region: sensory_box; TIGR00229 96561004094 PilZ domain; Region: PilZ; pfam07238 96561004095 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004096 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 96561004097 active site 96561004098 phosphorylation site [posttranslational modification] 96561004099 intermolecular recognition site; other site 96561004100 dimerization interface [polypeptide binding]; other site 96561004101 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 96561004102 FOG: CBS domain [General function prediction only]; Region: COG0517 96561004103 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 96561004104 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 96561004105 transmembrane helices; other site 96561004106 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 96561004107 dimer interface [polypeptide binding]; other site 96561004108 phosphorylation site [posttranslational modification] 96561004109 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 96561004110 ATP binding site [chemical binding]; other site 96561004111 Mg2+ binding site [ion binding]; other site 96561004112 G-X-G motif; other site 96561004113 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96561004114 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 96561004115 active site 96561004116 phosphorylation site [posttranslational modification] 96561004117 intermolecular recognition site; other site 96561004118 dimerization interface [polypeptide binding]; other site 96561004119 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004120 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 96561004121 active site 96561004122 phosphorylation site [posttranslational modification] 96561004123 intermolecular recognition site; other site 96561004124 dimerization interface [polypeptide binding]; other site 96561004125 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 96561004126 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 96561004127 transmembrane helices; other site 96561004128 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004129 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 96561004130 active site 96561004131 phosphorylation site [posttranslational modification] 96561004132 intermolecular recognition site; other site 96561004133 dimerization interface [polypeptide binding]; other site 96561004134 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 96561004135 dimer interface [polypeptide binding]; other site 96561004136 phosphorylation site [posttranslational modification] 96561004137 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 96561004138 ATP binding site [chemical binding]; other site 96561004139 Mg2+ binding site [ion binding]; other site 96561004140 G-X-G motif; other site 96561004141 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004142 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 96561004143 active site 96561004144 phosphorylation site [posttranslational modification] 96561004145 intermolecular recognition site; other site 96561004146 dimerization interface [polypeptide binding]; other site 96561004147 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004148 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 96561004149 active site 96561004150 phosphorylation site [posttranslational modification] 96561004151 intermolecular recognition site; other site 96561004152 dimerization interface [polypeptide binding]; other site 96561004153 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004154 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 96561004155 active site 96561004156 phosphorylation site [posttranslational modification] 96561004157 intermolecular recognition site; other site 96561004158 dimerization interface [polypeptide binding]; other site 96561004159 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 96561004160 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 96561004161 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 96561004162 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 96561004163 dimer interface [polypeptide binding]; other site 96561004164 phosphorylation site [posttranslational modification] 96561004165 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 96561004166 ATP binding site [chemical binding]; other site 96561004167 Mg2+ binding site [ion binding]; other site 96561004168 G-X-G motif; other site 96561004169 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004170 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 96561004171 active site 96561004172 phosphorylation site [posttranslational modification] 96561004173 intermolecular recognition site; other site 96561004174 dimerization interface [polypeptide binding]; other site 96561004175 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004176 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 96561004177 active site 96561004178 phosphorylation site [posttranslational modification] 96561004179 intermolecular recognition site; other site 96561004180 dimerization interface [polypeptide binding]; other site 96561004181 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 96561004182 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 96561004183 transmembrane helices; other site 96561004184 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 96561004185 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004186 active site 96561004187 phosphorylation site [posttranslational modification] 96561004188 intermolecular recognition site; other site 96561004189 dimerization interface [polypeptide binding]; other site 96561004190 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 96561004191 ATP binding site [chemical binding]; other site 96561004192 Mg2+ binding site [ion binding]; other site 96561004193 G-X-G motif; other site 96561004194 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004195 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 96561004196 active site 96561004197 phosphorylation site [posttranslational modification] 96561004198 intermolecular recognition site; other site 96561004199 dimerization interface [polypeptide binding]; other site 96561004200 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004201 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 96561004202 active site 96561004203 phosphorylation site [posttranslational modification] 96561004204 intermolecular recognition site; other site 96561004205 dimerization interface [polypeptide binding]; other site 96561004206 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 96561004207 ligand-binding site [chemical binding]; other site 96561004208 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96561004209 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 96561004210 active site 96561004211 phosphorylation site [posttranslational modification] 96561004212 intermolecular recognition site; other site 96561004213 dimerization interface [polypeptide binding]; other site 96561004214 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 96561004215 Walker A motif; other site 96561004216 ATP binding site [chemical binding]; other site 96561004217 Walker B motif; other site 96561004218 arginine finger; other site 96561004219 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561004220 CHASE3 domain; Region: CHASE3; cl05000 96561004221 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 96561004222 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 96561004223 dimer interface [polypeptide binding]; other site 96561004224 phosphorylation site [posttranslational modification] 96561004225 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 96561004226 ATP binding site [chemical binding]; other site 96561004227 Mg2+ binding site [ion binding]; other site 96561004228 G-X-G motif; other site 96561004229 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 96561004230 Protein phosphatase 2C; Region: PP2C; pfam00481 96561004231 active site 96561004232 CHASE2 domain; Region: CHASE2; cl01732 96561004233 CHASE2 domain; Region: CHASE2; pfam05226 96561004234 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 96561004235 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 96561004236 active site 96561004237 ATP binding site [chemical binding]; other site 96561004238 substrate binding site [chemical binding]; other site 96561004239 activation loop (A-loop); other site 96561004240 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 96561004241 Cation transport protein; Region: TrkH; cl17365 96561004242 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 96561004243 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 96561004244 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 96561004245 YcaO-like family; Region: YcaO; pfam02624 96561004246 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 96561004247 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96561004248 ABC transporter; Region: ABC_tran_2; pfam12848 96561004249 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96561004250 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 96561004251 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 96561004252 substrate binding site [chemical binding]; other site 96561004253 activation loop (A-loop); other site 96561004254 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561004255 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561004256 metal binding site [ion binding]; metal-binding site 96561004257 active site 96561004258 I-site; other site 96561004259 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 96561004260 Predicted ATPase [General function prediction only]; Region: COG3910 96561004261 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 96561004262 Walker A/P-loop; other site 96561004263 ATP binding site [chemical binding]; other site 96561004264 Q-loop/lid; other site 96561004265 ABC transporter signature motif; other site 96561004266 Walker B; other site 96561004267 D-loop; other site 96561004268 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 96561004269 H-loop/switch region; other site 96561004270 Predicted membrane protein [Function unknown]; Region: COG1238 96561004271 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 96561004272 Transposase domain (DUF772); Region: DUF772; pfam05598 96561004273 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96561004274 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 96561004275 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 96561004276 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 96561004277 non-specific DNA binding site [nucleotide binding]; other site 96561004278 salt bridge; other site 96561004279 sequence-specific DNA binding site [nucleotide binding]; other site 96561004280 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 96561004281 2-ketoisovalerate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11864 96561004282 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 96561004283 TPP-binding site [chemical binding]; other site 96561004284 putative dimer interface [polypeptide binding]; other site 96561004285 2-ketoisovalerate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: vorA; PRK08366 96561004286 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 96561004287 dimer interface [polypeptide binding]; other site 96561004288 PYR/PP interface [polypeptide binding]; other site 96561004289 TPP binding site [chemical binding]; other site 96561004290 substrate binding site [chemical binding]; other site 96561004291 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 96561004292 4Fe-4S binding domain; Region: Fer4; cl02805 96561004293 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 96561004294 glycerol kinase; Provisional; Region: glpK; PRK00047 96561004295 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 96561004296 N- and C-terminal domain interface [polypeptide binding]; other site 96561004297 active site 96561004298 MgATP binding site [chemical binding]; other site 96561004299 catalytic site [active] 96561004300 metal binding site [ion binding]; metal-binding site 96561004301 putative homotetramer interface [polypeptide binding]; other site 96561004302 glycerol binding site [chemical binding]; other site 96561004303 homodimer interface [polypeptide binding]; other site 96561004304 Probable dihydrodipicolinate reductase; Region: PLN02775 96561004305 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 96561004306 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 96561004307 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 96561004308 Uncharacterized conserved protein [Function unknown]; Region: COG1359 96561004309 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 96561004310 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 96561004311 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 96561004312 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 96561004313 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 96561004314 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 96561004315 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 96561004316 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 96561004317 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 96561004318 homodimer interface [polypeptide binding]; other site 96561004319 substrate-cofactor binding pocket; other site 96561004320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561004321 catalytic residue [active] 96561004322 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 96561004323 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 96561004324 Beta-Casp domain; Region: Beta-Casp; smart01027 96561004325 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 96561004326 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 96561004327 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 96561004328 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 96561004329 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 96561004330 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 96561004331 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 96561004332 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 96561004333 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 96561004334 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 96561004335 Walker A motif; other site 96561004336 ATP binding site [chemical binding]; other site 96561004337 Walker B motif; other site 96561004338 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 96561004339 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 96561004340 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 96561004341 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 96561004342 binding surface 96561004343 TPR motif; other site 96561004344 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561004345 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 96561004346 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 96561004347 active site 96561004348 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 96561004349 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 96561004350 Beta/Gamma crystallin; Region: Crystall; cl02528 96561004351 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 96561004352 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 96561004353 iron-sulfur cluster-binding protein; Region: TIGR00273 96561004354 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 96561004355 Cysteine-rich domain; Region: CCG; pfam02754 96561004356 Cysteine-rich domain; Region: CCG; pfam02754 96561004357 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 96561004358 Ligand binding site [chemical binding]; other site 96561004359 Electron transfer flavoprotein domain; Region: ETF; pfam01012 96561004360 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 96561004361 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 96561004362 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 96561004363 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 96561004364 PAS domain S-box; Region: sensory_box; TIGR00229 96561004365 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 96561004366 putative active site [active] 96561004367 heme pocket [chemical binding]; other site 96561004368 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561004369 Zn2+ binding site [ion binding]; other site 96561004370 Mg2+ binding site [ion binding]; other site 96561004371 PAS domain S-box; Region: sensory_box; TIGR00229 96561004372 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 96561004373 putative active site [active] 96561004374 heme pocket [chemical binding]; other site 96561004375 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561004376 Zn2+ binding site [ion binding]; other site 96561004377 Mg2+ binding site [ion binding]; other site 96561004378 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 96561004379 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 96561004380 HSP70 interaction site [polypeptide binding]; other site 96561004381 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 96561004382 substrate binding site [polypeptide binding]; other site 96561004383 dimer interface [polypeptide binding]; other site 96561004384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96561004385 active site 96561004386 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 96561004387 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 96561004388 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 96561004389 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 96561004390 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 96561004391 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96561004392 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 96561004393 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 96561004394 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 96561004395 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 96561004396 AIR carboxylase; Region: AIRC; pfam00731 96561004397 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 96561004398 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 96561004399 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561004400 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 96561004401 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96561004402 putative substrate translocation pore; other site 96561004403 Predicted permeases [General function prediction only]; Region: COG0795 96561004404 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 96561004405 Predicted permeases [General function prediction only]; Region: COG0795 96561004406 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 96561004407 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 96561004408 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 96561004409 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 96561004410 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 96561004411 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 96561004412 Vi polysaccharide biosynthesis protein TviD; Provisional; Region: PRK15180 96561004413 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 96561004414 O-Antigen ligase; Region: Wzy_C; pfam04932 96561004415 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561004416 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 96561004417 putative ADP-binding pocket [chemical binding]; other site 96561004418 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 96561004419 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 96561004420 GtrA-like protein; Region: GtrA; pfam04138 96561004421 Predicted membrane protein [Function unknown]; Region: COG2246 96561004422 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 96561004423 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 96561004424 Ligand binding site; other site 96561004425 Putative Catalytic site; other site 96561004426 DXD motif; other site 96561004427 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561004428 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 96561004429 putative ADP-binding pocket [chemical binding]; other site 96561004430 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 96561004431 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 96561004432 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 96561004433 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 96561004434 putative acyl-acceptor binding pocket; other site 96561004435 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 96561004436 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 96561004437 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96561004438 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 96561004439 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 96561004440 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96561004441 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 96561004442 IMP binding site; other site 96561004443 dimer interface [polypeptide binding]; other site 96561004444 partial ornithine binding site; other site 96561004445 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 96561004446 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 96561004447 G1 box; other site 96561004448 GTP/Mg2+ binding site [chemical binding]; other site 96561004449 G2 box; other site 96561004450 Switch I region; other site 96561004451 G3 box; other site 96561004452 Switch II region; other site 96561004453 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 96561004454 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 96561004455 TPR motif; other site 96561004456 binding surface 96561004457 TPR repeat; Region: TPR_11; pfam13414 96561004458 TPR repeat; Region: TPR_11; pfam13414 96561004459 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 96561004460 binding surface 96561004461 TPR motif; other site 96561004462 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 96561004463 putative substrate translocation pore; other site 96561004464 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 96561004465 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 96561004466 dimer interface [polypeptide binding]; other site 96561004467 PYR/PP interface [polypeptide binding]; other site 96561004468 TPP binding site [chemical binding]; other site 96561004469 substrate binding site [chemical binding]; other site 96561004470 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 96561004471 Domain of unknown function; Region: EKR; pfam10371 96561004472 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561004473 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 96561004474 TPP-binding site [chemical binding]; other site 96561004475 dimer interface [polypeptide binding]; other site 96561004476 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 96561004477 MarR family; Region: MarR; pfam01047 96561004478 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 96561004479 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_family; cd02803 96561004480 active site 96561004481 FMN binding site [chemical binding]; other site 96561004482 substrate binding site [chemical binding]; other site 96561004483 putative catalytic residue [active] 96561004484 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96561004485 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96561004486 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 96561004487 substrate binding site [chemical binding]; other site 96561004488 oxyanion hole (OAH) forming residues; other site 96561004489 trimer interface [polypeptide binding]; other site 96561004490 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 96561004491 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 96561004492 Phosphotransferase enzyme family; Region: APH; pfam01636 96561004493 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This 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); Region: ACAD10_11_like; cd05154 96561004494 putative active site [active] 96561004495 putative substrate binding site [chemical binding]; other site 96561004496 ATP binding site [chemical binding]; other site 96561004497 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; cl00197 96561004498 active site 96561004499 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561004500 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 96561004501 ACS interaction site; other site 96561004502 CODH interaction site; other site 96561004503 metal cluster binding site [ion binding]; other site 96561004504 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 96561004505 active site 96561004506 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 96561004507 dimer interface [polypeptide binding]; other site 96561004508 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 96561004509 Ligand Binding Site [chemical binding]; other site 96561004510 Molecular Tunnel; other site 96561004511 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 96561004512 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 96561004513 GSH binding site [chemical binding]; other site 96561004514 catalytic residues [active] 96561004515 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 96561004516 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 96561004517 catalytic loop [active] 96561004518 iron binding site [ion binding]; other site 96561004519 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 96561004520 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 96561004521 putative NAD(P) binding site [chemical binding]; other site 96561004522 putative active site [active] 96561004523 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 96561004524 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561004525 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 96561004526 TPR motif; other site 96561004527 binding surface 96561004528 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 96561004529 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 96561004530 GAF domain; Region: GAF_3; pfam13492 96561004531 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 96561004532 Walker A motif; other site 96561004533 ATP binding site [chemical binding]; other site 96561004534 Walker B motif; other site 96561004535 arginine finger; other site 96561004536 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561004537 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 96561004538 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 96561004539 active site 96561004540 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 96561004541 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 96561004542 acyl-activating enzyme (AAE) consensus motif; other site 96561004543 putative AMP binding site [chemical binding]; other site 96561004544 putative active site [active] 96561004545 putative CoA binding site [chemical binding]; other site 96561004546 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 96561004547 4Fe-4S binding domain; Region: Fer4; cl02805 96561004548 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 96561004549 4Fe-4S binding domain; Region: Fer4; pfam00037 96561004550 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 96561004551 putative FMN binding site [chemical binding]; other site 96561004552 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 96561004553 classical (c) SDRs; Region: SDR_c; cd05233 96561004554 NAD(P) binding site [chemical binding]; other site 96561004555 active site 96561004556 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 96561004557 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 96561004558 active site 96561004559 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 96561004560 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 96561004561 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 96561004562 catalytic site [active] 96561004563 metal binding site [ion binding]; metal-binding site 96561004564 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561004565 B12 binding site [chemical binding]; other site 96561004566 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561004567 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 96561004568 FeS/SAM binding site; other site 96561004569 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 96561004570 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 96561004571 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96561004572 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 96561004573 Serine hydrolase (FSH1); Region: FSH1; pfam03959 96561004574 Transposase; Region: DEDD_Tnp_IS110; pfam01548 96561004575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 96561004576 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 96561004577 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 96561004578 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 96561004579 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 96561004580 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 96561004581 S-adenosylmethionine binding site [chemical binding]; other site 96561004582 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 96561004583 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 96561004584 P-loop; other site 96561004585 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 96561004586 Bacterial SH3 domain homologues; Region: SH3b; smart00287 96561004587 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 96561004588 L-aspartate oxidase; Provisional; Region: PRK09077 96561004589 L-aspartate oxidase; Provisional; Region: PRK06175 96561004590 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 96561004591 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 96561004592 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 96561004593 S-adenosylmethionine binding site [chemical binding]; other site 96561004594 chaperone protein DnaJ; Provisional; Region: PRK14294 96561004595 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 96561004596 HSP70 interaction site [polypeptide binding]; other site 96561004597 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 96561004598 substrate binding site [polypeptide binding]; other site 96561004599 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 96561004600 Zn binding sites [ion binding]; other site 96561004601 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 96561004602 dimer interface [polypeptide binding]; other site 96561004603 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 96561004604 active site 96561004605 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561004606 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 96561004607 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 96561004608 heterodimer interface [polypeptide binding]; other site 96561004609 active site 96561004610 FMN binding site [chemical binding]; other site 96561004611 homodimer interface [polypeptide binding]; other site 96561004612 substrate binding site [chemical binding]; other site 96561004613 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 96561004614 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_family; cd02803 96561004615 active site 96561004616 FMN binding site [chemical binding]; other site 96561004617 substrate binding site [chemical binding]; other site 96561004618 putative catalytic residue [active] 96561004619 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 96561004620 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 96561004621 putative [Fe4-S4] binding site [ion binding]; other site 96561004622 putative molybdopterin cofactor binding site [chemical binding]; other site 96561004623 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 96561004624 putative molybdopterin cofactor binding site; other site 96561004625 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 96561004626 CoenzymeA binding site [chemical binding]; other site 96561004627 subunit interaction site [polypeptide binding]; other site 96561004628 PHB binding site; other site 96561004629 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 96561004630 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 96561004631 acyl-activating enzyme (AAE) consensus motif; other site 96561004632 putative AMP binding site [chemical binding]; other site 96561004633 putative active site [active] 96561004634 putative CoA binding site [chemical binding]; other site 96561004635 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561004636 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561004637 metal binding site [ion binding]; metal-binding site 96561004638 active site 96561004639 I-site; other site 96561004640 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 96561004641 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561004642 FeS/SAM binding site; other site 96561004643 ribonuclease III; Reviewed; Region: rnc; PRK00102 96561004644 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 96561004645 dimerization interface [polypeptide binding]; other site 96561004646 active site 96561004647 metal binding site [ion binding]; metal-binding site 96561004648 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 96561004649 dsRNA binding site [nucleotide binding]; other site 96561004650 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 96561004651 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 96561004652 active site 96561004653 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 96561004654 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 96561004655 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 96561004656 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 96561004657 putative NAD(P) binding site [chemical binding]; other site 96561004658 homotetramer interface [polypeptide binding]; other site 96561004659 active site 96561004660 homodimer interface [polypeptide binding]; other site 96561004661 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 96561004662 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 96561004663 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 96561004664 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 96561004665 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 96561004666 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 96561004667 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 96561004668 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 96561004669 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96561004670 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 96561004671 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 96561004672 catalytic residues [active] 96561004673 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 96561004674 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 96561004675 purine monophosphate binding site [chemical binding]; other site 96561004676 dimer interface [polypeptide binding]; other site 96561004677 putative catalytic residues [active] 96561004678 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 96561004679 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 96561004680 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 96561004681 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 96561004682 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 96561004683 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 96561004684 minor groove reading motif; other site 96561004685 helix-hairpin-helix signature motif; other site 96561004686 substrate binding pocket [chemical binding]; other site 96561004687 active site 96561004688 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 96561004689 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 96561004690 active site 96561004691 8-oxo-dGMP binding site [chemical binding]; other site 96561004692 nudix motif; other site 96561004693 metal binding site [ion binding]; metal-binding site 96561004694 PAS fold; Region: PAS_3; pfam08447 96561004695 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 96561004696 heme pocket [chemical binding]; other site 96561004697 putative active site [active] 96561004698 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561004699 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 96561004700 putative active site [active] 96561004701 heme pocket [chemical binding]; other site 96561004702 PAS domain; Region: PAS_8; pfam13188 96561004703 putative active site [active] 96561004704 heme pocket [chemical binding]; other site 96561004705 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 96561004706 dimer interface [polypeptide binding]; other site 96561004707 phosphorylation site [posttranslational modification] 96561004708 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 96561004709 ATP binding site [chemical binding]; other site 96561004710 Mg2+ binding site [ion binding]; other site 96561004711 G-X-G motif; other site 96561004712 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96561004713 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 96561004714 active site 96561004715 phosphorylation site [posttranslational modification] 96561004716 intermolecular recognition site; other site 96561004717 dimerization interface [polypeptide binding]; other site 96561004718 PAS domain; Region: PAS; smart00091 96561004719 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 96561004720 binding surface 96561004721 TPR motif; other site 96561004722 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 96561004723 binding surface 96561004724 TPR motif; other site 96561004725 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 96561004726 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 96561004727 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 96561004728 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 96561004729 FeS/SAM binding site; other site 96561004730 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 96561004731 S-adenosylmethionine binding site [chemical binding]; other site 96561004732 ubiquinone biosynthesis methyltransferase; Region: PLN02232 96561004733 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 96561004734 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 96561004735 FMN binding site [chemical binding]; other site 96561004736 substrate binding site [chemical binding]; other site 96561004737 putative catalytic residue [active] 96561004738 Peptidase family M48; Region: Peptidase_M48; cl12018 96561004739 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 96561004740 Rubredoxin [Energy production and conversion]; Region: COG1773 96561004741 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 96561004742 iron binding site [ion binding]; other site 96561004743 Predicted membrane protein [Function unknown]; Region: COG1971 96561004744 Domain of unknown function DUF; Region: DUF204; pfam02659 96561004745 Domain of unknown function DUF; Region: DUF204; pfam02659 96561004746 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 96561004747 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 96561004748 catalytic residues [active] 96561004749 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 96561004750 active site 96561004751 zinc binding site [ion binding]; other site 96561004752 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96561004753 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96561004754 dimer interface [polypeptide binding]; other site 96561004755 putative CheW interface [polypeptide binding]; other site 96561004756 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 96561004757 Putative Fe-S cluster; Region: FeS; cl17515 96561004758 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 96561004759 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 96561004760 Uncharacterized conserved protein [Function unknown]; Region: COG1633 96561004761 diiron binding motif [ion binding]; other site 96561004762 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 96561004763 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 96561004764 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 96561004765 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 96561004766 GspL periplasmic domain; Region: GspL_C; cl14909 96561004767 Methyltransferase domain; Region: Methyltransf_31; pfam13847 96561004768 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 96561004769 methionine sulfoxide reductase A; Provisional; Region: PRK14054 96561004770 methionine sulfoxide reductase B; Provisional; Region: PRK00222 96561004771 SelR domain; Region: SelR; pfam01641 96561004772 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 96561004773 binding surface 96561004774 TPR motif; other site 96561004775 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561004776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 96561004777 Domain of unknown function (DUF1846); Region: DUF1846; pfam08903 96561004778 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 96561004779 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 96561004780 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 96561004781 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 96561004782 inhibitor-cofactor binding pocket; inhibition site 96561004783 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561004784 catalytic residue [active] 96561004785 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 96561004786 dimer interface [polypeptide binding]; other site 96561004787 phosphorylation site [posttranslational modification] 96561004788 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 96561004789 ATP binding site [chemical binding]; other site 96561004790 Mg2+ binding site [ion binding]; other site 96561004791 G-X-G motif; other site 96561004792 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 96561004793 Response regulator receiver domain; Region: Response_reg; pfam00072 96561004794 active site 96561004795 phosphorylation site [posttranslational modification] 96561004796 intermolecular recognition site; other site 96561004797 dimerization interface [polypeptide binding]; other site 96561004798 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561004799 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561004800 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 96561004801 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 96561004802 active site 2 [active] 96561004803 active site 1 [active] 96561004804 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 96561004805 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 96561004806 NAD binding site [chemical binding]; other site 96561004807 homodimer interface [polypeptide binding]; other site 96561004808 active site 96561004809 SCP-2 sterol transfer family; Region: SCP2; pfam02036 96561004810 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 96561004811 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 96561004812 dimer interface [polypeptide binding]; other site 96561004813 active site 96561004814 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 96561004815 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 96561004816 DUF35 OB-fold domain; Region: DUF35; pfam01796 96561004817 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 96561004818 homodimer interface [polypeptide binding]; other site 96561004819 short chain dehydrogenase; Provisional; Region: PRK07791 96561004820 NAD binding site [chemical binding]; other site 96561004821 active site 96561004822 SCP-2 sterol transfer family; Region: SCP2; pfam02036 96561004823 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 96561004824 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 96561004825 active site 96561004826 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561004827 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561004828 active site 96561004829 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561004830 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561004831 active site 96561004832 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 96561004833 CoA-transferase family III; Region: CoA_transf_3; pfam02515 96561004834 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 96561004835 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 96561004836 putative Iron-sulfur protein interface [polypeptide binding]; other site 96561004837 proximal heme binding site [chemical binding]; other site 96561004838 distal heme binding site [chemical binding]; other site 96561004839 putative dimer interface [polypeptide binding]; other site 96561004840 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 96561004841 L-aspartate oxidase; Provisional; Region: PRK06175 96561004842 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 96561004843 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 96561004844 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 96561004845 4Fe-4S binding domain; Region: Fer4; pfam00037 96561004846 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 96561004847 active site 96561004848 metal binding site [ion binding]; metal-binding site 96561004849 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 96561004850 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96561004851 Walker A/P-loop; other site 96561004852 ATP binding site [chemical binding]; other site 96561004853 Q-loop/lid; other site 96561004854 ABC transporter signature motif; other site 96561004855 Walker B; other site 96561004856 D-loop; other site 96561004857 H-loop/switch region; other site 96561004858 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 96561004859 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 96561004860 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 96561004861 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 96561004862 substrate binding site [chemical binding]; other site 96561004863 active site 96561004864 catalytic residues [active] 96561004865 heterodimer interface [polypeptide binding]; other site 96561004866 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 96561004867 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 96561004868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561004869 catalytic residue [active] 96561004870 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 96561004871 active site 96561004872 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 96561004873 active site 96561004874 ribulose/triose binding site [chemical binding]; other site 96561004875 phosphate binding site [ion binding]; other site 96561004876 substrate (anthranilate) binding pocket [chemical binding]; other site 96561004877 product (indole) binding pocket [chemical binding]; other site 96561004878 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 96561004879 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 96561004880 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 96561004881 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 96561004882 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 96561004883 glutamine binding [chemical binding]; other site 96561004884 catalytic triad [active] 96561004885 anthranilate synthase component I; Provisional; Region: PRK13565 96561004886 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 96561004887 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 96561004888 competence damage-inducible protein A; Provisional; Region: PRK00549 96561004889 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 96561004890 putative MPT binding site; other site 96561004891 Competence-damaged protein; Region: CinA; pfam02464 96561004892 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 96561004893 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 96561004894 Amidohydrolase; Region: Amidohydro_4; pfam13147 96561004895 active site 96561004896 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 96561004897 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 96561004898 MOFRL family; Region: MOFRL; pfam05161 96561004899 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 96561004900 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 96561004901 G1 box; other site 96561004902 GTP/Mg2+ binding site [chemical binding]; other site 96561004903 G2 box; other site 96561004904 Switch I region; other site 96561004905 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 96561004906 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 96561004907 P-loop; other site 96561004908 Magnesium ion binding site [ion binding]; other site 96561004909 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 96561004910 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 96561004911 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 96561004912 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 96561004913 Catalytic domain of Protein Kinases; Region: PKc; cd00180 96561004914 active site 96561004915 ATP binding site [chemical binding]; other site 96561004916 substrate binding site [chemical binding]; other site 96561004917 activation loop (A-loop); other site 96561004918 TPR repeat; Region: TPR_11; pfam13414 96561004919 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 96561004920 TPR motif; other site 96561004921 binding surface 96561004922 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561004923 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 96561004924 binding surface 96561004925 TPR motif; other site 96561004926 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 96561004927 TPR motif; other site 96561004928 binding surface 96561004929 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 96561004930 Protein of unknown function DUF89; Region: DUF89; cl15397 96561004931 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 96561004932 homodimer interaction site [polypeptide binding]; other site 96561004933 cofactor binding site; other site 96561004934 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 96561004935 binding surface 96561004936 TPR repeat; Region: TPR_11; pfam13414 96561004937 TPR motif; other site 96561004938 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561004939 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 96561004940 binding surface 96561004941 TPR motif; other site 96561004942 TPR repeat; Region: TPR_11; pfam13414 96561004943 TPR repeat; Region: TPR_11; pfam13414 96561004944 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 96561004945 TPR motif; other site 96561004946 binding surface 96561004947 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561004948 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 96561004949 binding surface 96561004950 TPR motif; other site 96561004951 TPR repeat; Region: TPR_11; pfam13414 96561004952 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 96561004953 TPR motif; other site 96561004954 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561004955 binding surface 96561004956 TPR repeat; Region: TPR_11; pfam13414 96561004957 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 96561004958 TPR motif; other site 96561004959 binding surface 96561004960 TPR repeat; Region: TPR_11; pfam13414 96561004961 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 96561004962 TPR motif; other site 96561004963 TPR repeat; Region: TPR_11; pfam13414 96561004964 binding surface 96561004965 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 96561004966 aspartate aminotransferase; Provisional; Region: PRK05764 96561004967 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 96561004968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561004969 homodimer interface [polypeptide binding]; other site 96561004970 catalytic residue [active] 96561004971 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 96561004972 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 96561004973 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 96561004974 S-adenosylmethionine binding site [chemical binding]; other site 96561004975 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 96561004976 trimer interface [polypeptide binding]; other site 96561004977 putative Zn binding site [ion binding]; other site 96561004978 PilZ domain; Region: PilZ; pfam07238 96561004979 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 96561004980 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 96561004981 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561004982 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 96561004983 Nitroreductase family; Region: Nitroreductase; pfam00881 96561004984 FMN binding site [chemical binding]; other site 96561004985 dimer interface [polypeptide binding]; other site 96561004986 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 96561004987 Flavoprotein; Region: Flavoprotein; pfam02441 96561004988 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 96561004989 mce related protein; Region: MCE; pfam02470 96561004990 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 96561004991 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 96561004992 active site 96561004993 HIGH motif; other site 96561004994 nucleotide binding site [chemical binding]; other site 96561004995 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 96561004996 KMSKS motif; other site 96561004997 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 96561004998 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 96561004999 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 96561005000 Ligand Binding Site [chemical binding]; other site 96561005001 mercuric reductase; Validated; Region: PRK06370 96561005002 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96561005003 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 96561005004 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 96561005005 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 96561005006 trimer interface [polypeptide binding]; other site 96561005007 putative metal binding site [ion binding]; other site 96561005008 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 96561005009 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 96561005010 DNA binding residues [nucleotide binding] 96561005011 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561005012 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561005013 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 96561005014 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 96561005015 active site 96561005016 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 96561005017 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 96561005018 DUF35 OB-fold domain; Region: DUF35; pfam01796 96561005019 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 96561005020 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 96561005021 substrate binding site [chemical binding]; other site 96561005022 oxyanion hole (OAH) forming residues; other site 96561005023 trimer interface [polypeptide binding]; other site 96561005024 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561005025 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561005026 active site 96561005027 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 96561005028 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561005029 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 96561005030 acyl-activating enzyme (AAE) consensus motif; other site 96561005031 acyl-activating enzyme (AAE) consensus motif; other site 96561005032 putative AMP binding site [chemical binding]; other site 96561005033 putative active site [active] 96561005034 putative CoA binding site [chemical binding]; other site 96561005035 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 96561005036 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_family; cd02803 96561005037 active site 96561005038 FMN binding site [chemical binding]; other site 96561005039 substrate binding site [chemical binding]; other site 96561005040 putative catalytic residue [active] 96561005041 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; cd01292 96561005042 active site 96561005043 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 96561005044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561005045 NAD(P) binding site [chemical binding]; other site 96561005046 active site 96561005047 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 96561005048 hydrophobic ligand binding site; other site 96561005049 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 96561005050 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 96561005051 acyl-activating enzyme (AAE) consensus motif; other site 96561005052 putative AMP binding site [chemical binding]; other site 96561005053 putative active site [active] 96561005054 putative CoA binding site [chemical binding]; other site 96561005055 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 96561005056 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 96561005057 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 96561005058 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 96561005059 Probable Catalytic site; other site 96561005060 Response regulator receiver domain; Region: Response_reg; pfam00072 96561005061 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 96561005062 active site 96561005063 phosphorylation site [posttranslational modification] 96561005064 intermolecular recognition site; other site 96561005065 dimerization interface [polypeptide binding]; other site 96561005066 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 96561005067 dimer interface [polypeptide binding]; other site 96561005068 phosphorylation site [posttranslational modification] 96561005069 Sporulation and spore germination; Region: Germane; pfam10646 96561005070 elongation factor G; Reviewed; Region: PRK00007 96561005071 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 96561005072 G1 box; other site 96561005073 putative GEF interaction site [polypeptide binding]; other site 96561005074 GTP/Mg2+ binding site [chemical binding]; other site 96561005075 Switch I region; other site 96561005076 G2 box; other site 96561005077 G3 box; other site 96561005078 Switch II region; other site 96561005079 G4 box; other site 96561005080 G5 box; other site 96561005081 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 96561005082 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; cd01680 96561005083 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 96561005084 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 96561005085 Right handed beta helix region; Region: Beta_helix; pfam13229 96561005086 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 96561005087 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 96561005088 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 96561005089 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 96561005090 molybdopterin cofactor binding site; other site 96561005091 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 96561005092 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; cl09929 96561005093 molybdopterin cofactor binding site; other site 96561005094 PilZ domain; Region: PilZ; pfam07238 96561005095 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 96561005096 active site 96561005097 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 96561005098 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 96561005099 Zn binding sites [ion binding]; other site 96561005100 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 96561005101 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 96561005102 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 96561005103 Zn binding sites [ion binding]; other site 96561005104 TIR domain; Region: TIR_2; pfam13676 96561005105 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 96561005106 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 96561005107 Walker A/P-loop; other site 96561005108 ATP binding site [chemical binding]; other site 96561005109 Q-loop/lid; other site 96561005110 ABC transporter signature motif; other site 96561005111 Walker B; other site 96561005112 D-loop; other site 96561005113 H-loop/switch region; other site 96561005114 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 96561005115 FtsX-like permease family; Region: FtsX; pfam02687 96561005116 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 96561005117 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96561005118 HlyD family secretion protein; Region: HlyD_3; pfam13437 96561005119 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 96561005120 Peptidase family M48; Region: Peptidase_M48; cl12018 96561005121 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561005122 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 96561005123 binding surface 96561005124 TPR motif; other site 96561005125 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 96561005126 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 96561005127 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 96561005128 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 96561005129 Magnesium ion binding site [ion binding]; other site 96561005130 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 96561005131 ParB-like nuclease domain; Region: ParB; smart00470 96561005132 KorB domain; Region: KorB; pfam08535 96561005133 YacP-like NYN domain; Region: NYN_YacP; pfam05991 96561005134 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 96561005135 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 96561005136 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 96561005137 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 96561005138 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 96561005139 S-adenosylmethionine binding site [chemical binding]; other site 96561005140 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 96561005141 FeS/SAM binding site; other site 96561005142 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 96561005143 putative DNA binding site [nucleotide binding]; other site 96561005144 putative Zn2+ binding site [ion binding]; other site 96561005145 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561005146 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 96561005147 binding surface 96561005148 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561005149 TPR motif; other site 96561005150 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561005151 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 96561005152 Mechanosensitive ion channel; Region: MS_channel; pfam00924 96561005153 Putative cyclase; Region: Cyclase; pfam04199 96561005154 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96561005155 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 96561005156 substrate binding site [chemical binding]; other site 96561005157 oxyanion hole (OAH) forming residues; other site 96561005158 trimer interface [polypeptide binding]; other site 96561005159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561005160 Uncharacterized conserved protein [Function unknown]; Region: COG3268 96561005161 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 96561005162 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561005163 Zn2+ binding site [ion binding]; other site 96561005164 Mg2+ binding site [ion binding]; other site 96561005165 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 96561005166 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 96561005167 active site 96561005168 substrate binding site [chemical binding]; other site 96561005169 cosubstrate binding site; other site 96561005170 catalytic site [active] 96561005171 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 96561005172 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 96561005173 dimer interface [polypeptide binding]; other site 96561005174 active site 96561005175 heme binding site [chemical binding]; other site 96561005176 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 96561005177 glutamate dehydrogenase; Provisional; Region: PRK09414 96561005178 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 96561005179 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 96561005180 NAD(P) binding site [chemical binding]; other site 96561005181 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96561005182 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 96561005183 active site 96561005184 phosphorylation site [posttranslational modification] 96561005185 intermolecular recognition site; other site 96561005186 dimerization interface [polypeptide binding]; other site 96561005187 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 96561005188 Walker A motif; other site 96561005189 ATP binding site [chemical binding]; other site 96561005190 Walker B motif; other site 96561005191 arginine finger; other site 96561005192 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561005193 Cache domain; Region: Cache_1; pfam02743 96561005194 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561005195 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 96561005196 dimerization interface [polypeptide binding]; other site 96561005197 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 96561005198 dimer interface [polypeptide binding]; other site 96561005199 phosphorylation site [posttranslational modification] 96561005200 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 96561005201 ATP binding site [chemical binding]; other site 96561005202 Mg2+ binding site [ion binding]; other site 96561005203 G-X-G motif; other site 96561005204 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 96561005205 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 96561005206 Walker A/P-loop; other site 96561005207 ATP binding site [chemical binding]; other site 96561005208 Q-loop/lid; other site 96561005209 ABC transporter signature motif; other site 96561005210 Walker B; other site 96561005211 D-loop; other site 96561005212 H-loop/switch region; other site 96561005213 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 96561005214 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 96561005215 ABC-ATPase subunit interface; other site 96561005216 dimer interface [polypeptide binding]; other site 96561005217 putative PBP binding regions; other site 96561005218 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 96561005219 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 96561005220 putative metal binding site [ion binding]; other site 96561005221 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 96561005222 O-Antigen ligase; Region: Wzy_C; pfam04932 96561005223 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 96561005224 TPR motif; other site 96561005225 TPR repeat; Region: TPR_11; pfam13414 96561005226 binding surface 96561005227 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 96561005228 GIY-YIG motif/motif A; other site 96561005229 putative active site [active] 96561005230 putative metal binding site [ion binding]; other site 96561005231 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 96561005232 Chain length determinant protein; Region: Wzz; cl15801 96561005233 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 96561005234 Chain length determinant protein; Region: Wzz; cl15801 96561005235 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 96561005236 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 96561005237 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 96561005238 SLBB domain; Region: SLBB; pfam10531 96561005239 SLBB domain; Region: SLBB; pfam10531 96561005240 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 96561005241 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 96561005242 elongation factor G; Reviewed; Region: PRK12740 96561005243 G1 box; other site 96561005244 putative GEF interaction site [polypeptide binding]; other site 96561005245 GTP/Mg2+ binding site [chemical binding]; other site 96561005246 Switch I region; other site 96561005247 G2 box; other site 96561005248 G3 box; other site 96561005249 Switch II region; other site 96561005250 G4 box; other site 96561005251 G5 box; other site 96561005252 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 96561005253 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 96561005254 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 96561005255 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 96561005256 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 96561005257 RNA binding surface [nucleotide binding]; other site 96561005258 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 96561005259 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 96561005260 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 96561005261 TPP-binding site; other site 96561005262 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 96561005263 PYR/PP interface [polypeptide binding]; other site 96561005264 dimer interface [polypeptide binding]; other site 96561005265 TPP binding site [chemical binding]; other site 96561005266 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 96561005267 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 96561005268 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 96561005269 substrate binding pocket [chemical binding]; other site 96561005270 chain length determination region; other site 96561005271 substrate-Mg2+ binding site; other site 96561005272 catalytic residues [active] 96561005273 aspartate-rich region 1; other site 96561005274 active site lid residues [active] 96561005275 aspartate-rich region 2; other site 96561005276 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 96561005277 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 96561005278 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 96561005279 generic binding surface II; other site 96561005280 generic binding surface I; other site 96561005281 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 96561005282 homotrimer interaction site [polypeptide binding]; other site 96561005283 zinc binding site [ion binding]; other site 96561005284 CDP-binding sites; other site 96561005285 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 96561005286 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 96561005287 active site 96561005288 HIGH motif; other site 96561005289 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 96561005290 KMSKS motif; other site 96561005291 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 96561005292 tRNA binding surface [nucleotide binding]; other site 96561005293 anticodon binding site; other site 96561005294 EcsC protein family; Region: EcsC; pfam12787 96561005295 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96561005296 GAF domain; Region: GAF; pfam01590 96561005297 Sensors of blue-light using FAD; Region: BLUF; pfam04940 96561005298 Putative phosphatase (DUF442); Region: DUF442; cl17385 96561005299 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 96561005300 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561005301 acyl-activating enzyme (AAE) consensus motif; other site 96561005302 AMP binding site [chemical binding]; other site 96561005303 active site 96561005304 CoA binding site [chemical binding]; other site 96561005305 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 96561005306 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 96561005307 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 96561005308 active site 96561005309 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 96561005310 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 96561005311 active site 96561005312 Int/Topo IB signature motif; other site 96561005313 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 96561005314 FMN binding site [chemical binding]; other site 96561005315 substrate binding site [chemical binding]; other site 96561005316 putative catalytic residue [active] 96561005317 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 96561005318 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 96561005319 active site 96561005320 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 96561005321 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 96561005322 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 96561005323 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 96561005324 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 96561005325 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 96561005326 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 96561005327 putative NADP binding site [chemical binding]; other site 96561005328 active site 96561005329 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 96561005330 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 96561005331 active site 96561005332 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 96561005333 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 96561005334 active site 96561005335 Acyl transferase domain; Region: Acyl_transf_1; cl08282 96561005336 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 96561005337 active site 2 [active] 96561005338 active site 1 [active] 96561005339 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 96561005340 active site 1 [active] 96561005341 dimer interface [polypeptide binding]; other site 96561005342 active site 2 [active] 96561005343 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 96561005344 active site 2 [active] 96561005345 dimer interface [polypeptide binding]; other site 96561005346 active site 1 [active] 96561005347 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 96561005348 active site 2 [active] 96561005349 active site 1 [active] 96561005350 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 96561005351 PAS domain S-box; Region: sensory_box; TIGR00229 96561005352 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 96561005353 putative active site [active] 96561005354 heme pocket [chemical binding]; other site 96561005355 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561005356 Zn2+ binding site [ion binding]; other site 96561005357 Mg2+ binding site [ion binding]; other site 96561005358 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 96561005359 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 96561005360 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 96561005361 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96561005362 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96561005363 dimer interface [polypeptide binding]; other site 96561005364 putative CheW interface [polypeptide binding]; other site 96561005365 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 96561005366 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 96561005367 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96561005368 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 96561005369 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 96561005370 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 96561005371 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 96561005372 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 96561005373 4Fe-4S binding domain; Region: Fer4; pfam00037 96561005374 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561005375 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 96561005376 putative FMN binding site [chemical binding]; other site 96561005377 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 96561005378 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 96561005379 active site 96561005380 ADP/pyrophosphate binding site [chemical binding]; other site 96561005381 allosteric effector site; other site 96561005382 dimerization interface [polypeptide binding]; other site 96561005383 fructose-1,6-bisphosphate binding site; other site 96561005384 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 96561005385 4Fe-4S binding domain; Region: Fer4; pfam00037 96561005386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561005387 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 96561005388 ATP binding site [chemical binding]; other site 96561005389 Mg2+ binding site [ion binding]; other site 96561005390 G-X-G motif; other site 96561005391 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 96561005392 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 96561005393 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 96561005394 putative active site [active] 96561005395 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 96561005396 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 96561005397 TPR repeat; Region: TPR_11; pfam13414 96561005398 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 96561005399 TPR motif; other site 96561005400 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 96561005401 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 96561005402 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 96561005403 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 96561005404 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 96561005405 Right handed beta helix region; Region: Beta_helix; pfam13229 96561005406 Right handed beta helix region; Region: Beta_helix; pfam13229 96561005407 Right handed beta helix region; Region: Beta_helix; pfam13229 96561005408 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 96561005409 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 96561005410 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 96561005411 ATP binding site [chemical binding]; other site 96561005412 putative Mg++ binding site [ion binding]; other site 96561005413 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 96561005414 nucleotide binding region [chemical binding]; other site 96561005415 ATP-binding site [chemical binding]; other site 96561005416 TRCF domain; Region: TRCF; pfam03461 96561005417 SurA N-terminal domain; Region: SurA_N_3; cl07813 96561005418 SurA N-terminal domain; Region: SurA_N; pfam09312 96561005419 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 96561005420 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 96561005421 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 96561005422 non-specific DNA binding site [nucleotide binding]; other site 96561005423 salt bridge; other site 96561005424 sequence-specific DNA binding site [nucleotide binding]; other site 96561005425 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 96561005426 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 96561005427 Recombination protein O N terminal; Region: RecO_N; pfam11967 96561005428 Recombination protein O C terminal; Region: RecO_C; pfam02565 96561005429 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 96561005430 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 96561005431 dimer interface [polypeptide binding]; other site 96561005432 motif 1; other site 96561005433 active site 96561005434 motif 2; other site 96561005435 motif 3; other site 96561005436 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 96561005437 DALR anticodon binding domain; Region: DALR_1; pfam05746 96561005438 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 96561005439 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 96561005440 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 96561005441 nucleotide binding pocket [chemical binding]; other site 96561005442 K-X-D-G motif; other site 96561005443 catalytic site [active] 96561005444 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 96561005445 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 96561005446 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 96561005447 Dimer interface [polypeptide binding]; other site 96561005448 BRCT sequence motif; other site 96561005449 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 96561005450 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 96561005451 IHF dimer interface [polypeptide binding]; other site 96561005452 IHF - DNA interface [nucleotide binding]; other site 96561005453 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 96561005454 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 96561005455 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 96561005456 P loop; other site 96561005457 GTP binding site [chemical binding]; other site 96561005458 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 96561005459 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 96561005460 Walker A/P-loop; other site 96561005461 ATP binding site [chemical binding]; other site 96561005462 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 96561005463 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 96561005464 ABC transporter signature motif; other site 96561005465 Walker B; other site 96561005466 D-loop; other site 96561005467 H-loop/switch region; other site 96561005468 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 96561005469 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 96561005470 active site 96561005471 putative glycosyl transferase; Provisional; Region: PRK10018 96561005472 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 96561005473 active site 96561005474 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 96561005475 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 96561005476 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 96561005477 hypothetical protein; Provisional; Region: PRK09256 96561005478 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 96561005479 GTP-binding protein LepA; Provisional; Region: PRK05433 96561005480 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 96561005481 G1 box; other site 96561005482 putative GEF interaction site [polypeptide binding]; other site 96561005483 GTP/Mg2+ binding site [chemical binding]; other site 96561005484 Switch I region; other site 96561005485 G2 box; other site 96561005486 G3 box; other site 96561005487 Switch II region; other site 96561005488 G4 box; other site 96561005489 G5 box; other site 96561005490 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 96561005491 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 96561005492 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 96561005493 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 96561005494 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 96561005495 dimer interface [polypeptide binding]; other site 96561005496 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 96561005497 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 96561005498 dimerization interface [polypeptide binding]; other site 96561005499 active site 96561005500 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 96561005501 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 96561005502 HIGH motif; other site 96561005503 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 96561005504 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 96561005505 active site 96561005506 KMSKS motif; other site 96561005507 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 96561005508 tRNA binding surface [nucleotide binding]; other site 96561005509 anticodon binding site; other site 96561005510 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 96561005511 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 96561005512 RNA methyltransferase, RsmE family; Region: TIGR00046 96561005513 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 96561005514 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 96561005515 cobyric acid synthase; Provisional; Region: PRK00784 96561005516 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 96561005517 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 96561005518 catalytic triad [active] 96561005519 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 96561005520 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 96561005521 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 96561005522 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 96561005523 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 96561005524 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 96561005525 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 96561005526 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 96561005527 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 96561005528 tandem repeat interface [polypeptide binding]; other site 96561005529 oligomer interface [polypeptide binding]; other site 96561005530 active site residues [active] 96561005531 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 96561005532 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 96561005533 4Fe-4S binding domain; Region: Fer4; pfam00037 96561005534 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96561005535 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 96561005536 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561005537 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561005538 metal binding site [ion binding]; metal-binding site 96561005539 active site 96561005540 I-site; other site 96561005541 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 96561005542 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 96561005543 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561005544 FeS/SAM binding site; other site 96561005545 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 96561005546 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 96561005547 active site 96561005548 metal binding site [ion binding]; metal-binding site 96561005549 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 96561005550 dimerization interface [polypeptide binding]; other site 96561005551 active site 96561005552 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 96561005553 active site 96561005554 metal binding site [ion binding]; metal-binding site 96561005555 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 96561005556 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 96561005557 putative metal binding site [ion binding]; other site 96561005558 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 96561005559 HSP70 interaction site [polypeptide binding]; other site 96561005560 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561005561 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 96561005562 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 96561005563 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 96561005564 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 96561005565 Ligand Binding Site [chemical binding]; other site 96561005566 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 96561005567 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 96561005568 dimerization interface [polypeptide binding]; other site 96561005569 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96561005570 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96561005571 dimer interface [polypeptide binding]; other site 96561005572 putative CheW interface [polypeptide binding]; other site 96561005573 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561005574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561005575 metal binding site [ion binding]; metal-binding site 96561005576 active site 96561005577 I-site; other site 96561005578 Family description; Region: VCBS; pfam13517 96561005579 Family description; Region: VCBS; pfam13517 96561005580 Family description; Region: VCBS; pfam13517 96561005581 Family description; Region: VCBS; pfam13517 96561005582 Family description; Region: VCBS; pfam13517 96561005583 Family description; Region: VCBS; pfam13517 96561005584 TIGR03032 family protein; Region: TIGR03032 96561005585 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96561005586 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 96561005587 Coenzyme A binding pocket [chemical binding]; other site 96561005588 Family description; Region: VCBS; pfam13517 96561005589 Family description; Region: VCBS; pfam13517 96561005590 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 96561005591 ApbE family; Region: ApbE; pfam02424 96561005592 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 96561005593 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 96561005594 putative active site [active] 96561005595 homotetrameric interface [polypeptide binding]; other site 96561005596 metal binding site [ion binding]; metal-binding site 96561005597 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 96561005598 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 96561005599 putative GEF interaction site [polypeptide binding]; other site 96561005600 G1 box; other site 96561005601 GTP/Mg2+ binding site [chemical binding]; other site 96561005602 Switch I region; other site 96561005603 G2 box; other site 96561005604 G3 box; other site 96561005605 Switch II region; other site 96561005606 G4 box; other site 96561005607 G5 box; other site 96561005608 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 96561005609 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 96561005610 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 96561005611 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 96561005612 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 96561005613 binding surface 96561005614 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561005615 TPR motif; other site 96561005616 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 96561005617 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 96561005618 putative ligand binding site [chemical binding]; other site 96561005619 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 96561005620 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 96561005621 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 96561005622 thiamine phosphate binding site [chemical binding]; other site 96561005623 active site 96561005624 pyrophosphate binding site [ion binding]; other site 96561005625 thiamine monophosphate kinase; Provisional; Region: PRK05731 96561005626 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 96561005627 ATP binding site [chemical binding]; other site 96561005628 dimerization interface [polypeptide binding]; other site 96561005629 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561005630 Zn2+ binding site [ion binding]; other site 96561005631 Mg2+ binding site [ion binding]; other site 96561005632 peptide chain release factor 2; Validated; Region: prfB; PRK00578 96561005633 PCRF domain; Region: PCRF; pfam03462 96561005634 RF-1 domain; Region: RF-1; pfam00472 96561005635 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 96561005636 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 96561005637 putative active site [active] 96561005638 catalytic triad [active] 96561005639 putative dimer interface [polypeptide binding]; other site 96561005640 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 96561005641 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 96561005642 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 96561005643 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 96561005644 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 96561005645 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 96561005646 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561005647 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561005648 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 96561005649 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 96561005650 binding surface 96561005651 TPR motif; other site 96561005652 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 96561005653 binding surface 96561005654 TPR motif; other site 96561005655 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 96561005656 binding surface 96561005657 TPR motif; other site 96561005658 TPR repeat; Region: TPR_11; pfam13414 96561005659 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 96561005660 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 96561005661 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 96561005662 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 96561005663 dimer interface [polypeptide binding]; other site 96561005664 phosphorylation site [posttranslational modification] 96561005665 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 96561005666 ATP binding site [chemical binding]; other site 96561005667 Mg2+ binding site [ion binding]; other site 96561005668 G-X-G motif; other site 96561005669 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96561005670 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 96561005671 active site 96561005672 phosphorylation site [posttranslational modification] 96561005673 intermolecular recognition site; other site 96561005674 dimerization interface [polypeptide binding]; other site 96561005675 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 96561005676 Walker A motif; other site 96561005677 ATP binding site [chemical binding]; other site 96561005678 Walker B motif; other site 96561005679 arginine finger; other site 96561005680 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561005681 putative acyltransferase; Provisional; Region: PRK05790 96561005682 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 96561005683 dimer interface [polypeptide binding]; other site 96561005684 active site 96561005685 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 96561005686 putative catalytic site [active] 96561005687 putative metal binding site [ion binding]; other site 96561005688 putative phosphate binding site [ion binding]; other site 96561005689 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 96561005690 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 96561005691 active site 96561005692 catalytic site [active] 96561005693 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 96561005694 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 96561005695 putative active site [active] 96561005696 Transposase IS200 like; Region: Y1_Tnp; cl00848 96561005697 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 96561005698 GAF domain; Region: GAF; pfam01590 96561005699 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 96561005700 Walker A motif; other site 96561005701 ATP binding site [chemical binding]; other site 96561005702 Walker B motif; other site 96561005703 arginine finger; other site 96561005704 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561005705 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 96561005706 MarR family; Region: MarR; pfam01047 96561005707 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 96561005708 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 96561005709 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 96561005710 adhesin; Provisional; Region: PRK09752 96561005711 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 96561005712 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 96561005713 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 96561005714 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 96561005715 Interdomain contacts; other site 96561005716 Cytokine receptor motif; other site 96561005717 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 96561005718 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 96561005719 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 96561005720 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 96561005721 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 96561005722 putative active site [active] 96561005723 putative metal binding site [ion binding]; other site 96561005724 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 96561005725 TIGR03032 family protein; Region: TIGR03032 96561005726 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 96561005727 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561005728 acyl-activating enzyme (AAE) consensus motif; other site 96561005729 active site 96561005730 AMP binding site [chemical binding]; other site 96561005731 CoA binding site [chemical binding]; other site 96561005732 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 96561005733 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561005734 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561005735 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 96561005736 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 96561005737 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 96561005738 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561005739 Methyltransferase domain; Region: Methyltransf_31; pfam13847 96561005740 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 96561005741 S-adenosylmethionine binding site [chemical binding]; other site 96561005742 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561005743 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 96561005744 FeS/SAM binding site; other site 96561005745 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 96561005746 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_6; cd04955 96561005747 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561005748 Transposase; Region: DEDD_Tnp_IS110; pfam01548 96561005749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 96561005750 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 96561005751 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 96561005752 Bacterial sugar transferase; Region: Bac_transf; pfam02397 96561005753 HicB family; Region: HicB; pfam05534 96561005754 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; cd09881 96561005755 oligomeric interface; other site 96561005756 putative active site [active] 96561005757 homodimer interface [polypeptide binding]; other site 96561005758 AAA domain; Region: AAA_14; pfam13173 96561005759 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 96561005760 Protein of unknown function (DUF433); Region: DUF433; cl01030 96561005761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 96561005762 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 96561005763 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 96561005764 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 96561005765 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 96561005766 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 96561005767 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 96561005768 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 96561005769 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 96561005770 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 96561005771 putative trimer interface [polypeptide binding]; other site 96561005772 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 96561005773 putative CoA binding site [chemical binding]; other site 96561005774 putative trimer interface [polypeptide binding]; other site 96561005775 putative active site [active] 96561005776 putative substrate binding site [chemical binding]; other site 96561005777 putative CoA binding site [chemical binding]; other site 96561005778 Bacterial sugar transferase; Region: Bac_transf; cl00939 96561005779 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 96561005780 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 96561005781 putative trimer interface [polypeptide binding]; other site 96561005782 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 96561005783 putative CoA binding site [chemical binding]; other site 96561005784 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 96561005785 putative trimer interface [polypeptide binding]; other site 96561005786 putative CoA binding site [chemical binding]; other site 96561005787 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 96561005788 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561005789 Transposase domain (DUF772); Region: DUF772; pfam05598 96561005790 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96561005791 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 96561005792 Transposase domain (DUF772); Region: DUF772; pfam05598 96561005793 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96561005794 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 96561005795 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 96561005796 active site 96561005797 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 96561005798 homodimer interface [polypeptide binding]; other site 96561005799 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 96561005800 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 96561005801 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 96561005802 putative active site [active] 96561005803 putative catalytic site [active] 96561005804 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 96561005805 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561005806 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 96561005807 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 96561005808 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 96561005809 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 96561005810 inhibitor-cofactor binding pocket; inhibition site 96561005811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561005812 catalytic residue [active] 96561005813 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 96561005814 O-Antigen ligase; Region: Wzy_C; pfam04932 96561005815 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561005816 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 96561005817 TPR repeat; Region: TPR_11; pfam13414 96561005818 binding surface 96561005819 TPR motif; other site 96561005820 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 96561005821 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; cd09881 96561005822 oligomeric interface; other site 96561005823 putative active site [active] 96561005824 homodimer interface [polypeptide binding]; other site 96561005825 AAA domain; Region: AAA_22; pfam13401 96561005826 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 96561005827 Walker A motif; other site 96561005828 ATP binding site [chemical binding]; other site 96561005829 Walker B motif; other site 96561005830 arginine finger; other site 96561005831 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 96561005832 Fic family protein [Function unknown]; Region: COG3177 96561005833 Fic/DOC family; Region: Fic; pfam02661 96561005834 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 96561005835 Walker A motif; other site 96561005836 ATP binding site [chemical binding]; other site 96561005837 Walker B motif; other site 96561005838 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 96561005839 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 96561005840 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 96561005841 putative active site [active] 96561005842 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 96561005843 UDP-glucose 4-epimerase; Region: PLN02240 96561005844 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 96561005845 NAD binding site [chemical binding]; other site 96561005846 homodimer interface [polypeptide binding]; other site 96561005847 active site 96561005848 substrate binding site [chemical binding]; other site 96561005849 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 96561005850 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 96561005851 active site 96561005852 dimer interface [polypeptide binding]; other site 96561005853 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 96561005854 dimer interface [polypeptide binding]; other site 96561005855 active site 96561005856 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 96561005857 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 96561005858 dimer interface [polypeptide binding]; other site 96561005859 active site 96561005860 CoA binding pocket [chemical binding]; other site 96561005861 FecR protein; Region: FecR; pfam04773 96561005862 FecR protein; Region: FecR; pfam04773 96561005863 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561005864 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 96561005865 binding surface 96561005866 TPR motif; other site 96561005867 Protein of unknown function (DUF560); Region: DUF560; pfam04575 96561005868 adenylosuccinate lyase; Provisional; Region: PRK09285 96561005869 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 96561005870 tetramer interface [polypeptide binding]; other site 96561005871 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 96561005872 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 96561005873 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 96561005874 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 96561005875 Found in ATP-dependent protease La (LON); Region: LON; smart00464 96561005876 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 96561005877 Walker A motif; other site 96561005878 ATP binding site [chemical binding]; other site 96561005879 Walker B motif; other site 96561005880 arginine finger; other site 96561005881 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 96561005882 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 96561005883 Glycoprotease family; Region: Peptidase_M22; pfam00814 96561005884 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 96561005885 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 96561005886 N-terminal plug; other site 96561005887 ligand-binding site [chemical binding]; other site 96561005888 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561005889 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561005890 active site 96561005891 Transposase; Region: DEDD_Tnp_IS110; pfam01548 96561005892 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 96561005893 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 96561005894 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561005895 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561005896 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 96561005897 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 96561005898 Ligand Binding Site [chemical binding]; other site 96561005899 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 96561005900 Ligand Binding Site [chemical binding]; other site 96561005901 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 96561005902 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 96561005903 Ligand binding site; other site 96561005904 Putative Catalytic site; other site 96561005905 DXD motif; other site 96561005906 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 96561005907 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 96561005908 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 96561005909 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561005910 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 96561005911 Transposase IS200 like; Region: Y1_Tnp; cl00848 96561005912 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 96561005913 DnaA box-binding interface [nucleotide binding]; other site 96561005914 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561005915 4Fe-4S binding domain; Region: Fer4; pfam00037 96561005916 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 96561005917 4Fe-4S binding domain; Region: Fer4; pfam00037 96561005918 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 96561005919 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 96561005920 metal-binding site [ion binding] 96561005921 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 96561005922 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 96561005923 motif II; other site 96561005924 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 96561005925 metal-binding site [ion binding] 96561005926 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 96561005927 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 96561005928 ligand binding site [chemical binding]; other site 96561005929 flexible hinge region; other site 96561005930 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 96561005931 endonuclease IV; Provisional; Region: PRK01060 96561005932 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 96561005933 AP (apurinic/apyrimidinic) site pocket; other site 96561005934 DNA interaction; other site 96561005935 Metal-binding active site; metal-binding site 96561005936 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 96561005937 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 96561005938 putative acyl-acceptor binding pocket; other site 96561005939 Rossmann-like domain; Region: Rossmann-like; pfam10727 96561005940 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 96561005941 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 96561005942 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 96561005943 inhibitor-cofactor binding pocket; inhibition site 96561005944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561005945 catalytic residue [active] 96561005946 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 96561005947 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 96561005948 active site 96561005949 PHP Thumb interface [polypeptide binding]; other site 96561005950 metal binding site [ion binding]; metal-binding site 96561005951 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 96561005952 generic binding surface II; other site 96561005953 generic binding surface I; other site 96561005954 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 96561005955 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 96561005956 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 96561005957 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 96561005958 active site 96561005959 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 96561005960 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 96561005961 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; cl15762 96561005962 substrate binding site [chemical binding]; other site 96561005963 oxyanion hole (OAH) forming residues; other site 96561005964 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 96561005965 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 96561005966 FeS/SAM binding site; other site 96561005967 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561005968 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 96561005969 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 96561005970 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96561005971 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 96561005972 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96561005973 Coenzyme A binding pocket [chemical binding]; other site 96561005974 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 96561005975 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 96561005976 FeS/SAM binding site; other site 96561005977 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 96561005978 short chain dehydrogenase; Validated; Region: PRK08324 96561005979 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 96561005980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561005981 NAD(P) binding site [chemical binding]; other site 96561005982 active site 96561005983 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96561005984 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 96561005985 active site 96561005986 metal binding site [ion binding]; metal-binding site 96561005987 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 96561005988 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 96561005989 putative active site; other site 96561005990 catalytic residue [active] 96561005991 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 96561005992 RHS protein; Region: RHS; pfam03527 96561005993 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 96561005994 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 96561005995 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 96561005996 active site 96561005997 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 96561005998 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 96561005999 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 96561006000 putative active site [active] 96561006001 Trm112p-like protein; Region: Trm112p; pfam03966 96561006002 Methyltransferase domain; Region: Methyltransf_31; pfam13847 96561006003 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 96561006004 S-adenosylmethionine binding site [chemical binding]; other site 96561006005 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 96561006006 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 96561006007 dimer interface [polypeptide binding]; other site 96561006008 ADP-ribose binding site [chemical binding]; other site 96561006009 active site 96561006010 nudix motif; other site 96561006011 metal binding site [ion binding]; metal-binding site 96561006012 Predicted amidohydrolase [General function prediction only]; Region: COG0388 96561006013 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 96561006014 putative active site [active] 96561006015 catalytic triad [active] 96561006016 putative dimer interface [polypeptide binding]; other site 96561006017 comF family protein; Region: comF; TIGR00201 96561006018 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96561006019 active site 96561006020 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 96561006021 isocitrate dehydrogenase; Validated; Region: PRK07362 96561006022 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 96561006023 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 96561006024 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 96561006025 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 96561006026 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 96561006027 catalytic site [active] 96561006028 G-X2-G-X-G-K; other site 96561006029 hypothetical protein; Provisional; Region: PRK04323 96561006030 hypothetical protein; Provisional; Region: PRK11820 96561006031 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 96561006032 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 96561006033 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 96561006034 Uncharacterized conserved protein [Function unknown]; Region: COG2835 96561006035 Putative Fe-S cluster; Region: FeS; cl17515 96561006036 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 96561006037 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 96561006038 short chain dehydrogenase; Provisional; Region: PRK05650 96561006039 classical (c) SDRs; Region: SDR_c; cd05233 96561006040 NAD(P) binding site [chemical binding]; other site 96561006041 active site 96561006042 short chain dehydrogenase; Provisional; Region: PRK07035 96561006043 classical (c) SDRs; Region: SDR_c; cd05233 96561006044 NAD(P) binding site [chemical binding]; other site 96561006045 active site 96561006046 Amidohydrolase; Region: Amidohydro_2; pfam04909 96561006047 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561006048 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561006049 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561006050 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561006051 active site 96561006052 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 96561006053 catalytic core [active] 96561006054 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 96561006055 Ligand binding site [chemical binding]; other site 96561006056 Electron transfer flavoprotein domain; Region: ETF; pfam01012 96561006057 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 96561006058 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 96561006059 Ligand Binding Site [chemical binding]; other site 96561006060 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 96561006061 PBP superfamily domain; Region: PBP_like_2; cl17296 96561006062 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 96561006063 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 96561006064 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 96561006065 dimer interface [polypeptide binding]; other site 96561006066 conserved gate region; other site 96561006067 putative PBP binding loops; other site 96561006068 ABC-ATPase subunit interface; other site 96561006069 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 96561006070 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 96561006071 dimer interface [polypeptide binding]; other site 96561006072 conserved gate region; other site 96561006073 putative PBP binding loops; other site 96561006074 ABC-ATPase subunit interface; other site 96561006075 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 96561006076 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 96561006077 Walker A/P-loop; other site 96561006078 ATP binding site [chemical binding]; other site 96561006079 Q-loop/lid; other site 96561006080 ABC transporter signature motif; other site 96561006081 Walker B; other site 96561006082 D-loop; other site 96561006083 H-loop/switch region; other site 96561006084 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 96561006085 PhoU domain; Region: PhoU; pfam01895 96561006086 PhoU domain; Region: PhoU; pfam01895 96561006087 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 96561006088 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 96561006089 active site 96561006090 phosphorylation site [posttranslational modification] 96561006091 intermolecular recognition site; other site 96561006092 dimerization interface [polypeptide binding]; other site 96561006093 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 96561006094 DNA binding site [nucleotide binding] 96561006095 HAMP domain; Region: HAMP; pfam00672 96561006096 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 96561006097 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 96561006098 putative active site [active] 96561006099 heme pocket [chemical binding]; other site 96561006100 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 96561006101 dimer interface [polypeptide binding]; other site 96561006102 phosphorylation site [posttranslational modification] 96561006103 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 96561006104 ATP binding site [chemical binding]; other site 96561006105 G-X-G motif; other site 96561006106 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 96561006107 putative acyl-acceptor binding pocket; other site 96561006108 Esterase/lipase [General function prediction only]; Region: COG1647 96561006109 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 96561006110 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 96561006111 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 96561006112 Walker A motif; other site 96561006113 ATP binding site [chemical binding]; other site 96561006114 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 96561006115 elongation factor G; Reviewed; Region: PRK12740 96561006116 G1 box; other site 96561006117 putative GEF interaction site [polypeptide binding]; other site 96561006118 GTP/Mg2+ binding site [chemical binding]; other site 96561006119 Switch I region; other site 96561006120 G2 box; other site 96561006121 G3 box; other site 96561006122 Switch II region; other site 96561006123 G4 box; other site 96561006124 G5 box; other site 96561006125 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 96561006126 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 96561006127 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 96561006128 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 96561006129 nudix motif; other site 96561006130 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 96561006131 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561006132 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 96561006133 Response regulator receiver domain; Region: Response_reg; pfam00072 96561006134 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 96561006135 active site 96561006136 phosphorylation site [posttranslational modification] 96561006137 intermolecular recognition site; other site 96561006138 dimerization interface [polypeptide binding]; other site 96561006139 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 96561006140 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561006141 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561006142 HEAT repeat; Region: HEAT; pfam02985 96561006143 HEAT-like repeat; Region: HEAT_EZ; pfam13513 96561006144 HEAT repeats; Region: HEAT_2; pfam13646 96561006145 HEAT repeats; Region: HEAT_2; pfam13646 96561006146 Bacterial SH3 domain; Region: SH3_3; pfam08239 96561006147 Bacterial SH3 domain; Region: SH3_3; pfam08239 96561006148 Family description; Region: VCBS; pfam13517 96561006149 Family description; Region: VCBS; pfam13517 96561006150 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561006151 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561006152 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 96561006153 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 96561006154 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 96561006155 prephenate dehydrogenase; Validated; Region: PRK08507 96561006156 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 96561006157 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 96561006158 Tetramer interface [polypeptide binding]; other site 96561006159 active site 96561006160 FMN-binding site [chemical binding]; other site 96561006161 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 96561006162 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 96561006163 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 96561006164 hinge; other site 96561006165 active site 96561006166 Chorismate mutase type II; Region: CM_2; pfam01817 96561006167 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 96561006168 Prephenate dehydratase; Region: PDT; pfam00800 96561006169 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 96561006170 putative L-Phe binding site [chemical binding]; other site 96561006171 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 96561006172 3-dehydroquinate synthase (EC 4.6.1.3); Region: DHQS; pfam01959 96561006173 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 96561006174 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 96561006175 putative active site; other site 96561006176 catalytic residue [active] 96561006177 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 96561006178 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 96561006179 ATP binding site [chemical binding]; other site 96561006180 putative Mg++ binding site [ion binding]; other site 96561006181 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 96561006182 nucleotide binding region [chemical binding]; other site 96561006183 ATP-binding site [chemical binding]; other site 96561006184 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 96561006185 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 96561006186 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 96561006187 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 96561006188 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 96561006189 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 96561006190 DNA binding residues [nucleotide binding] 96561006191 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96561006192 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 96561006193 substrate binding site [chemical binding]; other site 96561006194 oxyanion hole (OAH) forming residues; other site 96561006195 trimer interface [polypeptide binding]; other site 96561006196 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 96561006197 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 96561006198 substrate binding site; other site 96561006199 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 96561006200 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 96561006201 NAD binding site [chemical binding]; other site 96561006202 homotetramer interface [polypeptide binding]; other site 96561006203 homodimer interface [polypeptide binding]; other site 96561006204 substrate binding site [chemical binding]; other site 96561006205 active site 96561006206 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 96561006207 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 96561006208 Methyltransferase domain; Region: Methyltransf_23; pfam13489 96561006209 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 96561006210 S-adenosylmethionine binding site [chemical binding]; other site 96561006211 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 96561006212 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96561006213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561006214 NAD(P) binding site [chemical binding]; other site 96561006215 active site 96561006216 Methyltransferase domain; Region: Methyltransf_23; pfam13489 96561006217 Methyltransferase domain; Region: Methyltransf_12; pfam08242 96561006218 S-adenosylmethionine binding site [chemical binding]; other site 96561006219 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 96561006220 Cephalosporin hydroxylase; Region: CmcI; pfam04989 96561006221 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 96561006222 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 96561006223 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 96561006224 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 96561006225 active site 96561006226 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 96561006227 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 96561006228 NADP-binding site; other site 96561006229 homotetramer interface [polypeptide binding]; other site 96561006230 substrate binding site [chemical binding]; other site 96561006231 homodimer interface [polypeptide binding]; other site 96561006232 active site 96561006233 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561006234 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 96561006235 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 96561006236 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 96561006237 active site 96561006238 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 96561006239 Ligand binding site; other site 96561006240 Putative Catalytic site; other site 96561006241 DXD motif; other site 96561006242 PGAP1-like protein; Region: PGAP1; pfam07819 96561006243 acetyl-CoA synthetase; Provisional; Region: PRK04319 96561006244 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561006245 acyl-activating enzyme (AAE) consensus motif; other site 96561006246 AMP binding site [chemical binding]; other site 96561006247 active site 96561006248 CoA binding site [chemical binding]; other site 96561006249 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 96561006250 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 96561006251 active site 96561006252 Zn binding site [ion binding]; other site 96561006253 acetyl-CoA synthetase; Provisional; Region: PRK00174 96561006254 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 96561006255 active site 96561006256 CoA binding site [chemical binding]; other site 96561006257 acyl-activating enzyme (AAE) consensus motif; other site 96561006258 AMP binding site [chemical binding]; other site 96561006259 acetate binding site [chemical binding]; other site 96561006260 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 96561006261 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 96561006262 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 96561006263 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 96561006264 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 96561006265 Response regulator receiver domain; Region: Response_reg; pfam00072 96561006266 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 96561006267 active site 96561006268 phosphorylation site [posttranslational modification] 96561006269 intermolecular recognition site; other site 96561006270 dimerization interface [polypeptide binding]; other site 96561006271 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 96561006272 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 96561006273 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 96561006274 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 96561006275 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 96561006276 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 96561006277 tandem repeat interface [polypeptide binding]; other site 96561006278 oligomer interface [polypeptide binding]; other site 96561006279 active site residues [active] 96561006280 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 96561006281 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 96561006282 RNA binding site [nucleotide binding]; other site 96561006283 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 96561006284 RNA binding site [nucleotide binding]; other site 96561006285 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 96561006286 RNA binding site [nucleotide binding]; other site 96561006287 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 96561006288 RNA binding site [nucleotide binding]; other site 96561006289 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 96561006290 RNA binding site [nucleotide binding]; other site 96561006291 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 96561006292 RNA binding site [nucleotide binding]; other site 96561006293 cytidylate kinase; Provisional; Region: cmk; PRK00023 96561006294 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 96561006295 CMP-binding site; other site 96561006296 The sites determining sugar specificity; other site 96561006297 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 96561006298 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 96561006299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561006300 homodimer interface [polypeptide binding]; other site 96561006301 catalytic residue [active] 96561006302 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 96561006303 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 96561006304 RNA/DNA hybrid binding site [nucleotide binding]; other site 96561006305 active site 96561006306 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 96561006307 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 96561006308 Low molecular weight phosphatase family; Region: LMWPc; cl00105 96561006309 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 96561006310 active site 96561006311 Methyltransferase domain; Region: Methyltransf_31; pfam13847 96561006312 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 96561006313 S-adenosylmethionine binding site [chemical binding]; other site 96561006314 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 96561006315 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 96561006316 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 96561006317 putative acyl-acceptor binding pocket; other site 96561006318 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 96561006319 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 96561006320 Substrate binding site; other site 96561006321 metal-binding site 96561006322 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 96561006323 Phosphotransferase enzyme family; Region: APH; pfam01636 96561006324 TM2 domain; Region: TM2; cl00984 96561006325 TM2 domain; Region: TM2; cl00984 96561006326 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 96561006327 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96561006328 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 96561006329 ligand binding site [chemical binding]; other site 96561006330 PBP superfamily domain; Region: PBP_like_2; cl17296 96561006331 PBP superfamily domain; Region: PBP_like_2; pfam12849 96561006332 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 96561006333 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 96561006334 dimerization interface [polypeptide binding]; other site 96561006335 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96561006336 dimer interface [polypeptide binding]; other site 96561006337 putative CheW interface [polypeptide binding]; other site 96561006338 DctM-like transporters; Region: DctM; pfam06808 96561006339 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 96561006340 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 96561006341 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96561006342 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 96561006343 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 96561006344 PAS domain; Region: PAS_9; pfam13426 96561006345 putative active site [active] 96561006346 heme pocket [chemical binding]; other site 96561006347 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96561006348 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 96561006349 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561006350 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 96561006351 dimer interface [polypeptide binding]; other site 96561006352 phosphorylation site [posttranslational modification] 96561006353 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 96561006354 Mg2+ binding site [ion binding]; other site 96561006355 G-X-G motif; other site 96561006356 S-layer homology domain; Region: SLH; pfam00395 96561006357 S-layer homology domain; Region: SLH; pfam00395 96561006358 Caspase domain; Region: Peptidase_C14; pfam00656 96561006359 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 96561006360 Domain of unknown function DUF20; Region: UPF0118; pfam01594 96561006361 Domain of unknown function (DUF368); Region: DUF368; pfam04018 96561006362 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 96561006363 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 96561006364 active site 96561006365 haloalkane dehalogenase; Provisional; Region: PRK03204 96561006366 peptide synthase; Provisional; Region: PRK09274 96561006367 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 96561006368 acyl-activating enzyme (AAE) consensus motif; other site 96561006369 putative AMP binding site [chemical binding]; other site 96561006370 putative active site [active] 96561006371 putative CoA binding site [chemical binding]; other site 96561006372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561006373 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 96561006374 NAD(P) binding site [chemical binding]; other site 96561006375 active site 96561006376 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 96561006377 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96561006378 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 96561006379 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 96561006380 Propeptide_C25; Region: Propeptide_C25; pfam08126 96561006381 Peptidase family C25; Region: Peptidase_C25; pfam01364 96561006382 active site 96561006383 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 96561006384 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 96561006385 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 96561006386 HEAT repeat; Region: HEAT; pfam02985 96561006387 HEAT repeats; Region: HEAT_2; pfam13646 96561006388 HEAT repeats; Region: HEAT_2; pfam13646 96561006389 HEAT repeats; Region: HEAT_2; pfam13646 96561006390 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 96561006391 protein binding surface [polypeptide binding]; other site 96561006392 HEAT repeats; Region: HEAT_2; pfam13646 96561006393 Bacterial SH3 domain; Region: SH3_3; pfam08239 96561006394 Bacterial SH3 domain; Region: SH3_3; pfam08239 96561006395 Bacterial SH3 domain; Region: SH3_3; pfam08239 96561006396 Bacterial SH3 domain; Region: SH3_3; pfam08239 96561006397 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 96561006398 Uncharacterized conserved protein [Function unknown]; Region: COG1262 96561006399 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 96561006400 DNA-binding site [nucleotide binding]; DNA binding site 96561006401 RNA-binding motif; other site 96561006402 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 96561006403 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 96561006404 Walker A/P-loop; other site 96561006405 ATP binding site [chemical binding]; other site 96561006406 Q-loop/lid; other site 96561006407 ABC transporter signature motif; other site 96561006408 Walker B; other site 96561006409 D-loop; other site 96561006410 H-loop/switch region; other site 96561006411 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 96561006412 cobalt transport protein CbiM; Validated; Region: PRK06265 96561006413 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 96561006414 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 96561006415 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 96561006416 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 96561006417 active site 96561006418 substrate binding site [chemical binding]; other site 96561006419 metal binding site [ion binding]; metal-binding site 96561006420 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 96561006421 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96561006422 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 96561006423 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 96561006424 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561006425 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 96561006426 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 96561006427 GDP-binding site [chemical binding]; other site 96561006428 ACT binding site; other site 96561006429 IMP binding site; other site 96561006430 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 96561006431 nucleoside/Zn binding site; other site 96561006432 dimer interface [polypeptide binding]; other site 96561006433 catalytic motif [active] 96561006434 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 96561006435 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 96561006436 Substrate binding site; other site 96561006437 Cupin domain; Region: Cupin_2; cl17218 96561006438 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 96561006439 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 96561006440 active site 96561006441 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14168 96561006442 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 96561006443 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 96561006444 homodimer interface [polypeptide binding]; other site 96561006445 NADP binding site [chemical binding]; other site 96561006446 substrate binding site [chemical binding]; other site 96561006447 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 96561006448 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 96561006449 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 96561006450 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 96561006451 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 96561006452 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 96561006453 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 96561006454 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 96561006455 PYR/PP interface [polypeptide binding]; other site 96561006456 dimer interface [polypeptide binding]; other site 96561006457 TPP binding site [chemical binding]; other site 96561006458 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 96561006459 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 96561006460 TPP-binding site [chemical binding]; other site 96561006461 dimer interface [polypeptide binding]; other site 96561006462 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 96561006463 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 96561006464 putative valine binding site [chemical binding]; other site 96561006465 dimer interface [polypeptide binding]; other site 96561006466 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 96561006467 Ketol-acid reductoisomerase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvC; COG0059 96561006468 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 96561006469 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 96561006470 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 96561006471 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 96561006472 active site 96561006473 catalytic residues [active] 96561006474 metal binding site [ion binding]; metal-binding site 96561006475 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 96561006476 2-isopropylmalate synthase; Validated; Region: PRK00915 96561006477 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 96561006478 active site 96561006479 catalytic residues [active] 96561006480 metal binding site [ion binding]; metal-binding site 96561006481 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 96561006482 Right handed beta helix region; Region: Beta_helix; pfam13229 96561006483 Right handed beta helix region; Region: Beta_helix; pfam13229 96561006484 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 96561006485 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 96561006486 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 96561006487 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 96561006488 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 96561006489 RHS Repeat; Region: RHS_repeat; pfam05593 96561006490 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 96561006491 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 96561006492 RHS Repeat; Region: RHS_repeat; pfam05593 96561006493 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 96561006494 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 96561006495 Protein of unknown function, DUF481; Region: DUF481; pfam04338 96561006496 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 96561006497 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561006498 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 96561006499 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 96561006500 Domain of unknown function DUF21; Region: DUF21; pfam01595 96561006501 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 96561006502 Transporter associated domain; Region: CorC_HlyC; smart01091 96561006503 Outer membrane lipoprotein; Region: YfiO; pfam13525 96561006504 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 96561006505 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 96561006506 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561006507 Zn2+ binding site [ion binding]; other site 96561006508 Mg2+ binding site [ion binding]; other site 96561006509 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 96561006510 synthetase active site [active] 96561006511 NTP binding site [chemical binding]; other site 96561006512 metal binding site [ion binding]; metal-binding site 96561006513 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 96561006514 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 96561006515 prolyl-tRNA synthetase; Provisional; Region: PRK08661 96561006516 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_arch_euk; cd00778 96561006517 dimer interface [polypeptide binding]; other site 96561006518 motif 1; other site 96561006519 active site 96561006520 motif 2; other site 96561006521 motif 3; other site 96561006522 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 96561006523 anticodon binding site; other site 96561006524 zinc-binding site [ion binding]; other site 96561006525 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 96561006526 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 96561006527 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 96561006528 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 96561006529 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 96561006530 cobalamin binding residues [chemical binding]; other site 96561006531 putative BtuC binding residues; other site 96561006532 dimer interface [polypeptide binding]; other site 96561006533 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 96561006534 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 96561006535 ABC-ATPase subunit interface; other site 96561006536 dimer interface [polypeptide binding]; other site 96561006537 putative PBP binding regions; other site 96561006538 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 96561006539 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 96561006540 Walker A/P-loop; other site 96561006541 ATP binding site [chemical binding]; other site 96561006542 Q-loop/lid; other site 96561006543 ABC transporter signature motif; other site 96561006544 Walker B; other site 96561006545 D-loop; other site 96561006546 H-loop/switch region; other site 96561006547 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561006548 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 96561006549 4Fe-4S binding domain; Region: Fer4; pfam00037 96561006550 4Fe-4S binding domain; Region: Fer4; pfam00037 96561006551 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561006552 4Fe-4S binding domain; Region: Fer4_6; pfam12837 96561006553 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561006554 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 96561006555 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 96561006556 active site pocket [active] 96561006557 putative dimer interface [polypeptide binding]; other site 96561006558 putative cataytic base [active] 96561006559 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 96561006560 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 96561006561 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 96561006562 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 96561006563 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 96561006564 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 96561006565 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 96561006566 Walker A/P-loop; other site 96561006567 ATP binding site [chemical binding]; other site 96561006568 Q-loop/lid; other site 96561006569 ABC transporter signature motif; other site 96561006570 Walker B; other site 96561006571 D-loop; other site 96561006572 H-loop/switch region; other site 96561006573 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 96561006574 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 96561006575 DNA polymerase II large subunit; Provisional; Region: PRK14714 96561006576 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 96561006577 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 96561006578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561006579 catalytic residue [active] 96561006580 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 96561006581 putative RNA binding site [nucleotide binding]; other site 96561006582 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 96561006583 homopentamer interface [polypeptide binding]; other site 96561006584 active site 96561006585 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 96561006586 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 96561006587 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 96561006588 dimerization interface [polypeptide binding]; other site 96561006589 active site 96561006590 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 96561006591 Lumazine binding domain; Region: Lum_binding; pfam00677 96561006592 Lumazine binding domain; Region: Lum_binding; pfam00677 96561006593 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 96561006594 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 96561006595 catalytic motif [active] 96561006596 Zn binding site [ion binding]; other site 96561006597 RibD C-terminal domain; Region: RibD_C; cl17279 96561006598 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 96561006599 ATP cone domain; Region: ATP-cone; pfam03477 96561006600 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 96561006601 catalytic motif [active] 96561006602 Zn binding site [ion binding]; other site 96561006603 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 96561006604 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 96561006605 dimer interface [polypeptide binding]; other site 96561006606 active site 96561006607 glycine-pyridoxal phosphate binding site [chemical binding]; other site 96561006608 folate binding site [chemical binding]; other site 96561006609 acyl carrier protein; Provisional; Region: acpP; PRK00982 96561006610 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 96561006611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561006612 NAD(P) binding site [chemical binding]; other site 96561006613 active site 96561006614 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 96561006615 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 96561006616 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; cl00083 96561006617 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 96561006618 active site 96561006619 NTP binding site [chemical binding]; other site 96561006620 metal binding triad [ion binding]; metal-binding site 96561006621 WYL domain; Region: WYL; pfam13280 96561006622 hypothetical protein; Reviewed; Region: PRK00024 96561006623 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 96561006624 MPN+ (JAMM) motif; other site 96561006625 Zinc-binding site [ion binding]; other site 96561006626 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 96561006627 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561006628 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561006629 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 96561006630 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 96561006631 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 96561006632 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 96561006633 HsdM N-terminal domain; Region: HsdM_N; pfam12161 96561006634 Methyltransferase domain; Region: Methyltransf_26; pfam13659 96561006635 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 96561006636 DEAD-like helicases superfamily; Region: DEXDc; smart00487 96561006637 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 96561006638 ATP binding site [chemical binding]; other site 96561006639 putative Mg++ binding site [ion binding]; other site 96561006640 nucleotide binding region [chemical binding]; other site 96561006641 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 96561006642 ATP-binding site [chemical binding]; other site 96561006643 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 96561006644 UbiA prenyltransferase family; Region: UbiA; pfam01040 96561006645 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 96561006646 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 96561006647 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 96561006648 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 96561006649 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 96561006650 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 96561006651 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 96561006652 ligand binding site [chemical binding]; other site 96561006653 flexible hinge region; other site 96561006654 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 96561006655 putative switch regulator; other site 96561006656 non-specific DNA interactions [nucleotide binding]; other site 96561006657 DNA binding site [nucleotide binding] 96561006658 sequence specific DNA binding site [nucleotide binding]; other site 96561006659 putative cAMP binding site [chemical binding]; other site 96561006660 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561006661 Zn2+ binding site [ion binding]; other site 96561006662 Mg2+ binding site [ion binding]; other site 96561006663 Ferredoxin [Energy production and conversion]; Region: COG1146 96561006664 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561006665 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 96561006666 Low molecular weight phosphatase family; Region: LMWPc; cd00115 96561006667 active site 96561006668 PAS fold; Region: PAS; pfam00989 96561006669 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 96561006670 putative active site [active] 96561006671 heme pocket [chemical binding]; other site 96561006672 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 96561006673 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 96561006674 Walker A motif; other site 96561006675 ATP binding site [chemical binding]; other site 96561006676 Walker B motif; other site 96561006677 arginine finger; other site 96561006678 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 96561006679 DHH family; Region: DHH; pfam01368 96561006680 DHHA1 domain; Region: DHHA1; pfam02272 96561006681 ribonuclease Z; Provisional; Region: PRK02126 96561006682 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 96561006683 active site 96561006684 phosphorylation site [posttranslational modification] 96561006685 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 96561006686 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 96561006687 putative active site [active] 96561006688 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 96561006689 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 96561006690 6-phosphofructokinase; Region: PLN02884 96561006691 active site 96561006692 ADP/pyrophosphate binding site [chemical binding]; other site 96561006693 dimerization interface [polypeptide binding]; other site 96561006694 allosteric effector site; other site 96561006695 fructose-1,6-bisphosphate binding site; other site 96561006696 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 96561006697 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 96561006698 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 96561006699 active site 96561006700 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96561006701 active site 96561006702 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 96561006703 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 96561006704 active site 96561006705 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 96561006706 Part of AAA domain; Region: AAA_19; pfam13245 96561006707 Family description; Region: UvrD_C_2; pfam13538 96561006708 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 96561006709 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 96561006710 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 96561006711 Nucleoside recognition; Region: Gate; pfam07670 96561006712 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 96561006713 acyl-CoA synthetase; Provisional; Region: PRK13388 96561006714 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561006715 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561006716 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 96561006717 acyl-activating enzyme (AAE) consensus motif; other site 96561006718 acyl-activating enzyme (AAE) consensus motif; other site 96561006719 putative AMP binding site [chemical binding]; other site 96561006720 putative active site [active] 96561006721 putative CoA binding site [chemical binding]; other site 96561006722 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 96561006723 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 96561006724 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 96561006725 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 96561006726 FeS/SAM binding site; other site 96561006727 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 96561006728 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 96561006729 RNA binding site [nucleotide binding]; other site 96561006730 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 96561006731 RNA binding site [nucleotide binding]; other site 96561006732 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 96561006733 RNA binding site [nucleotide binding]; other site 96561006734 domain interface; other site 96561006735 S1_RPS1_repeat_hs4: 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_hs4; cd05692 96561006736 RNA binding site [nucleotide binding]; other site 96561006737 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; cd00164 96561006738 RNA binding site [nucleotide binding]; other site 96561006739 FOG: CBS domain [General function prediction only]; Region: COG0517 96561006740 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 96561006741 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 96561006742 NADPH bind site [chemical binding]; other site 96561006743 putative FMN binding site [chemical binding]; other site 96561006744 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 96561006745 putative FMN binding site [chemical binding]; other site 96561006746 NADPH bind site [chemical binding]; other site 96561006747 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 96561006748 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 96561006749 domain interfaces; other site 96561006750 active site 96561006751 Response regulator receiver domain; Region: Response_reg; pfam00072 96561006752 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 96561006753 active site 96561006754 phosphorylation site [posttranslational modification] 96561006755 intermolecular recognition site; other site 96561006756 dimerization interface [polypeptide binding]; other site 96561006757 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561006758 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 96561006759 dimerization interface [polypeptide binding]; other site 96561006760 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 96561006761 dimer interface [polypeptide binding]; other site 96561006762 phosphorylation site [posttranslational modification] 96561006763 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 96561006764 ATP binding site [chemical binding]; other site 96561006765 Mg2+ binding site [ion binding]; other site 96561006766 G-X-G motif; other site 96561006767 Uncharacterized conserved protein [Function unknown]; Region: COG2006 96561006768 Domain of unknown function (DUF362); Region: DUF362; pfam04015 96561006769 Putative exonuclease, RdgC; Region: RdgC; cl01122 96561006770 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 96561006771 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 96561006772 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 96561006773 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 96561006774 Walker A/P-loop; other site 96561006775 ATP binding site [chemical binding]; other site 96561006776 Q-loop/lid; other site 96561006777 ABC transporter signature motif; other site 96561006778 Walker B; other site 96561006779 D-loop; other site 96561006780 H-loop/switch region; other site 96561006781 recombination factor protein RarA; Reviewed; Region: PRK13342 96561006782 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 96561006783 Walker A motif; other site 96561006784 ATP binding site [chemical binding]; other site 96561006785 Walker B motif; other site 96561006786 arginine finger; other site 96561006787 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 96561006788 GTP-binding protein Der; Reviewed; Region: PRK00093 96561006789 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 96561006790 G1 box; other site 96561006791 GTP/Mg2+ binding site [chemical binding]; other site 96561006792 Switch I region; other site 96561006793 G2 box; other site 96561006794 Switch II region; other site 96561006795 G3 box; other site 96561006796 G4 box; other site 96561006797 G5 box; other site 96561006798 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 96561006799 G1 box; other site 96561006800 GTP/Mg2+ binding site [chemical binding]; other site 96561006801 Switch I region; other site 96561006802 G2 box; other site 96561006803 G3 box; other site 96561006804 Switch II region; other site 96561006805 G4 box; other site 96561006806 G5 box; other site 96561006807 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 96561006808 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 96561006809 active site 96561006810 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 96561006811 substrate binding site [chemical binding]; other site 96561006812 catalytic residues [active] 96561006813 dimer interface [polypeptide binding]; other site 96561006814 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 96561006815 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96561006816 Coenzyme A binding pocket [chemical binding]; other site 96561006817 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 96561006818 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 96561006819 Propeptide_C25; Region: Propeptide_C25; pfam08126 96561006820 Peptidase family C25; Region: Peptidase_C25; pfam01364 96561006821 active site 96561006822 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561006823 B12 binding site [chemical binding]; other site 96561006824 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 96561006825 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561006826 FeS/SAM binding site; other site 96561006827 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 96561006828 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 96561006829 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 96561006830 active site 96561006831 metal binding site [ion binding]; metal-binding site 96561006832 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 96561006833 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 96561006834 putative active site [active] 96561006835 putative FMN binding site [chemical binding]; other site 96561006836 putative substrate binding site [chemical binding]; other site 96561006837 putative catalytic residue [active] 96561006838 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 96561006839 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 96561006840 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 96561006841 substrate binding site; other site 96561006842 dimer interface; other site 96561006843 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; cl00206 96561006844 dimerization domain swap beta strand [polypeptide binding]; other site 96561006845 regulatory protein interface [polypeptide binding]; other site 96561006846 active site 96561006847 regulatory phosphorylation site [posttranslational modification]; other site 96561006848 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 96561006849 Haemagglutinin; Region: Hemagglutinin; pfam00509 96561006850 Putative zinc ribbon domain; Region: DUF164; pfam02591 96561006851 Uncharacterized conserved protein [Function unknown]; Region: COG0327 96561006852 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 96561006853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 96561006854 Uncharacterized conserved protein [Function unknown]; Region: COG0327 96561006855 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 96561006856 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 96561006857 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 96561006858 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 96561006859 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 96561006860 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 96561006861 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 96561006862 DNA binding residues [nucleotide binding] 96561006863 DNA primase; Validated; Region: dnaG; PRK05667 96561006864 CHC2 zinc finger; Region: zf-CHC2; pfam01807 96561006865 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 96561006866 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 96561006867 active site 96561006868 metal binding site [ion binding]; metal-binding site 96561006869 interdomain interaction site; other site 96561006870 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 96561006871 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 96561006872 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 96561006873 catalytic residues [active] 96561006874 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 96561006875 putative active site pocket [active] 96561006876 4-fold oligomerization interface [polypeptide binding]; other site 96561006877 metal binding residues [ion binding]; metal-binding site 96561006878 3-fold/trimer interface [polypeptide binding]; other site 96561006879 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561006880 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561006881 metal binding site [ion binding]; metal-binding site 96561006882 active site 96561006883 I-site; other site 96561006884 Transcriptional regulator [Transcription]; Region: LysR; COG0583 96561006885 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 96561006886 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 96561006887 putative dimerization interface [polypeptide binding]; other site 96561006888 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 96561006889 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 96561006890 CPxP motif; other site 96561006891 putative acyltransferase; Provisional; Region: PRK05790 96561006892 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 96561006893 dimer interface [polypeptide binding]; other site 96561006894 active site 96561006895 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 96561006896 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 96561006897 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 96561006898 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 96561006899 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 96561006900 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 96561006901 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 96561006902 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561006903 active site 96561006904 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 96561006905 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561006906 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561006907 metal binding site [ion binding]; metal-binding site 96561006908 active site 96561006909 I-site; other site 96561006910 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 96561006911 endonuclease III; Region: ENDO3c; smart00478 96561006912 minor groove reading motif; other site 96561006913 helix-hairpin-helix signature motif; other site 96561006914 substrate binding pocket [chemical binding]; other site 96561006915 active site 96561006916 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 96561006917 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 96561006918 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 96561006919 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 96561006920 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 96561006921 putative FMN binding site [chemical binding]; other site 96561006922 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 96561006923 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 96561006924 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 96561006925 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 96561006926 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; cl02459 96561006927 PAS domain; Region: PAS_9; pfam13426 96561006928 putative active site [active] 96561006929 heme pocket [chemical binding]; other site 96561006930 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 96561006931 DNA binding residues [nucleotide binding] 96561006932 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96561006933 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 96561006934 active site 96561006935 phosphorylation site [posttranslational modification] 96561006936 intermolecular recognition site; other site 96561006937 dimerization interface [polypeptide binding]; other site 96561006938 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 96561006939 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 96561006940 active site 96561006941 phosphorylation site [posttranslational modification] 96561006942 intermolecular recognition site; other site 96561006943 dimerization interface [polypeptide binding]; other site 96561006944 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561006945 Zn2+ binding site [ion binding]; other site 96561006946 Mg2+ binding site [ion binding]; other site 96561006947 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561006948 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561006949 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 96561006950 enoyl-CoA hydratase; Provisional; Region: PRK05995 96561006951 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 96561006952 substrate binding site [chemical binding]; other site 96561006953 oxyanion hole (OAH) forming residues; other site 96561006954 trimer interface [polypeptide binding]; other site 96561006955 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 96561006956 carboxyltransferase (CT) interaction site; other site 96561006957 biotinylation site [posttranslational modification]; other site 96561006958 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 96561006959 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 96561006960 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96561006961 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 96561006962 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 96561006963 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561006964 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 96561006965 active site 96561006966 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561006967 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561006968 active site 96561006969 Rubrerythrin [Energy production and conversion]; Region: COG1592 96561006970 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 96561006971 binuclear metal center [ion binding]; other site 96561006972 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 96561006973 iron binding site [ion binding]; other site 96561006974 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 96561006975 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 96561006976 CoA-binding site [chemical binding]; other site 96561006977 ATP-binding [chemical binding]; other site 96561006978 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 96561006979 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96561006980 catalytic residue [active] 96561006981 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 96561006982 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 96561006983 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 96561006984 active site 96561006985 putative acyltransferase; Provisional; Region: PRK05790 96561006986 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 96561006987 dimer interface [polypeptide binding]; other site 96561006988 active site 96561006989 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 96561006990 B12 binding site [chemical binding]; other site 96561006991 cobalt ligand [ion binding]; other site 96561006992 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 96561006993 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 96561006994 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561006995 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561006996 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561006997 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561006998 WHG domain; Region: WHG; pfam13305 96561006999 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 96561007000 Pyruvate formate lyase; Region: PFL; pfam02901 96561007001 Glycine radical; Region: Gly_radical; pfam01228 96561007002 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 96561007003 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561007004 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96561007005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561007006 NAD(P) binding site [chemical binding]; other site 96561007007 active site 96561007008 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 96561007009 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 96561007010 putative NAD(P) binding site [chemical binding]; other site 96561007011 homotetramer interface [polypeptide binding]; other site 96561007012 active site 96561007013 homodimer interface [polypeptide binding]; other site 96561007014 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 96561007015 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 96561007016 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 96561007017 Transmembrane protein 55A; Region: Tmemb_55A; pfam09788 96561007018 methionine aminopeptidase; Provisional; Region: PRK12318 96561007019 SEC-C motif; Region: SEC-C; pfam02810 96561007020 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 96561007021 active site 96561007022 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 96561007023 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 96561007024 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 96561007025 ligand binding site [chemical binding]; other site 96561007026 flexible hinge region; other site 96561007027 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 96561007028 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 96561007029 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 96561007030 active site 96561007031 Zn binding site [ion binding]; other site 96561007032 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 96561007033 SnoaL-like domain; Region: SnoaL_3; pfam13474 96561007034 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 96561007035 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 96561007036 Walker A motif; other site 96561007037 ATP binding site [chemical binding]; other site 96561007038 Walker B motif; other site 96561007039 arginine finger; other site 96561007040 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 96561007041 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 96561007042 RuvA N terminal domain; Region: RuvA_N; pfam01330 96561007043 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 96561007044 active site 96561007045 putative DNA-binding cleft [nucleotide binding]; other site 96561007046 dimer interface [polypeptide binding]; other site 96561007047 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 96561007048 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 96561007049 binding surface 96561007050 TPR motif; other site 96561007051 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 96561007052 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96561007053 ligand binding site [chemical binding]; other site 96561007054 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 96561007055 TolB amino-terminal domain; Region: TolB_N; pfam04052 96561007056 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 96561007057 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 96561007058 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 96561007059 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 96561007060 TonB C terminal; Region: TonB_2; pfam13103 96561007061 TolA protein; Region: tolA_full; TIGR02794 96561007062 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 96561007063 TolR protein; Region: tolR; TIGR02801 96561007064 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 96561007065 heat shock protein 90; Provisional; Region: PRK05218 96561007066 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 96561007067 ATP binding site [chemical binding]; other site 96561007068 Mg2+ binding site [ion binding]; other site 96561007069 G-X-G motif; other site 96561007070 Cytochrome P450; Region: p450; cl12078 96561007071 Protein of unknown function DUF111; Region: DUF111; pfam01969 96561007072 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 96561007073 peptidase T-like protein; Region: PepT-like; TIGR01883 96561007074 metal binding site [ion binding]; metal-binding site 96561007075 putative dimer interface [polypeptide binding]; other site 96561007076 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 96561007077 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 96561007078 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 96561007079 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 96561007080 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 96561007081 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 96561007082 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 96561007083 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 96561007084 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 96561007085 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 96561007086 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 96561007087 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 96561007088 Ligand Binding Site [chemical binding]; other site 96561007089 putative GTP cyclohydrolase; Provisional; Region: PRK13674 96561007090 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 96561007091 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 96561007092 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 96561007093 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 96561007094 oligomer interface [polypeptide binding]; other site 96561007095 putative active site [active] 96561007096 metal binding site [ion binding]; metal-binding site 96561007097 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 96561007098 putative active site [active] 96561007099 dimerization interface [polypeptide binding]; other site 96561007100 putative tRNAtyr binding site [nucleotide binding]; other site 96561007101 Dehydroquinase class II; Region: DHquinase_II; pfam01220 96561007102 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 96561007103 trimer interface [polypeptide binding]; other site 96561007104 active site 96561007105 dimer interface [polypeptide binding]; other site 96561007106 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 96561007107 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 96561007108 substrate binding site [chemical binding]; other site 96561007109 hexamer interface [polypeptide binding]; other site 96561007110 metal binding site [ion binding]; metal-binding site 96561007111 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 96561007112 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 96561007113 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 96561007114 16S rRNA methyltransferase B; Provisional; Region: PRK14902 96561007115 NusB family; Region: NusB; pfam01029 96561007116 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 96561007117 S-adenosylmethionine binding site [chemical binding]; other site 96561007118 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 96561007119 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 96561007120 putative active site [active] 96561007121 substrate binding site [chemical binding]; other site 96561007122 putative cosubstrate binding site; other site 96561007123 catalytic site [active] 96561007124 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 96561007125 substrate binding site [chemical binding]; other site 96561007126 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 96561007127 active site 96561007128 catalytic residues [active] 96561007129 metal binding site [ion binding]; metal-binding site 96561007130 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 96561007131 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 96561007132 active site 96561007133 Riboflavin kinase; Region: Flavokinase; pfam01687 96561007134 Response regulator receiver domain; Region: Response_reg; pfam00072 96561007135 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 96561007136 active site 96561007137 phosphorylation site [posttranslational modification] 96561007138 intermolecular recognition site; other site 96561007139 dimerization interface [polypeptide binding]; other site 96561007140 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 96561007141 HsdM N-terminal domain; Region: HsdM_N; pfam12161 96561007142 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 96561007143 S-adenosylmethionine binding site [chemical binding]; other site 96561007144 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 96561007145 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561007146 Uncharacterized conserved protein [Function unknown]; Region: COG1479 96561007147 Protein of unknown function DUF262; Region: DUF262; pfam03235 96561007148 Protein of unknown function DUF262; Region: DUF262; pfam03235 96561007149 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 96561007150 Uncharacterized conserved protein [Function unknown]; Region: COG3586 96561007151 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 96561007152 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 96561007153 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 96561007154 ATP binding site [chemical binding]; other site 96561007155 putative Mg++ binding site [ion binding]; other site 96561007156 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 96561007157 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 96561007158 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 96561007159 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 96561007160 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 96561007161 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 96561007162 catalytic residue [active] 96561007163 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 96561007164 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 96561007165 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 96561007166 PAS domain; Region: PAS_9; pfam13426 96561007167 putative active site [active] 96561007168 heme pocket [chemical binding]; other site 96561007169 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561007170 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561007171 metal binding site [ion binding]; metal-binding site 96561007172 active site 96561007173 I-site; other site 96561007174 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 96561007175 4Fe-4S binding domain; Region: Fer4_6; pfam12837 96561007176 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561007177 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561007178 enoyl-CoA hydratase; Provisional; Region: PRK08260 96561007179 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 96561007180 substrate binding site [chemical binding]; other site 96561007181 oxyanion hole (OAH) forming residues; other site 96561007182 trimer interface [polypeptide binding]; other site 96561007183 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561007184 heme-binding residues [chemical binding]; other site 96561007185 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561007186 heme-binding residues [chemical binding]; other site 96561007187 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561007188 heme-binding residues [chemical binding]; other site 96561007189 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561007190 heme-binding residues [chemical binding]; other site 96561007191 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 96561007192 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 96561007193 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 96561007194 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 96561007195 Cysteine-rich domain; Region: CCG; pfam02754 96561007196 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 96561007197 Ligand Binding Site [chemical binding]; other site 96561007198 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 96561007199 Ligand Binding Site [chemical binding]; other site 96561007200 Response regulator receiver domain; Region: Response_reg; pfam00072 96561007201 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 96561007202 active site 96561007203 phosphorylation site [posttranslational modification] 96561007204 intermolecular recognition site; other site 96561007205 dimerization interface [polypeptide binding]; other site 96561007206 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 96561007207 Response regulator receiver domain; Region: Response_reg; pfam00072 96561007208 active site 96561007209 phosphorylation site [posttranslational modification] 96561007210 intermolecular recognition site; other site 96561007211 dimerization interface [polypeptide binding]; other site 96561007212 PAS domain; Region: PAS_9; pfam13426 96561007213 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; cl02459 96561007214 putative active site [active] 96561007215 heme pocket [chemical binding]; other site 96561007216 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 96561007217 ATP binding site [chemical binding]; other site 96561007218 Mg2+ binding site [ion binding]; other site 96561007219 G-X-G motif; other site 96561007220 Transcriptional regulator; Region: Rrf2; cl17282 96561007221 Rrf2 family protein; Region: rrf2_super; TIGR00738 96561007222 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 96561007223 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 96561007224 active site residue [active] 96561007225 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 96561007226 diiron binding motif [ion binding]; other site 96561007227 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 96561007228 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 96561007229 GAF domain; Region: GAF; pfam01590 96561007230 ANTAR domain; Region: ANTAR; pfam03861 96561007231 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 96561007232 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 96561007233 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 96561007234 non-specific DNA binding site [nucleotide binding]; other site 96561007235 salt bridge; other site 96561007236 sequence-specific DNA binding site [nucleotide binding]; other site 96561007237 Cupin domain; Region: Cupin_2; pfam07883 96561007238 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 96561007239 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 96561007240 phosphate binding site [ion binding]; other site 96561007241 Archaebacterial flagellin; Region: Arch_flagellin; cl00732 96561007242 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 96561007243 Na2 binding site [ion binding]; other site 96561007244 putative substrate binding site 1 [chemical binding]; other site 96561007245 Na binding site 1 [ion binding]; other site 96561007246 putative substrate binding site 2 [chemical binding]; other site 96561007247 Putative addiction module component; Region: Unstab_antitox; pfam09720 96561007248 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 96561007249 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 96561007250 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 96561007251 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 96561007252 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 96561007253 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 96561007254 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 96561007255 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 96561007256 putative active site [active] 96561007257 4Fe-4S binding domain; Region: Fer4; pfam00037 96561007258 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 96561007259 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 96561007260 phosphate binding site [ion binding]; other site 96561007261 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 96561007262 domain_subunit interface; other site 96561007263 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 96561007264 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96561007265 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561007266 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 96561007267 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 96561007268 Protein export membrane protein; Region: SecD_SecF; cl14618 96561007269 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 96561007270 VacJ like lipoprotein; Region: VacJ; cl01073 96561007271 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 96561007272 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 96561007273 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 96561007274 active site 96561007275 zinc binding site [ion binding]; other site 96561007276 Na+ binding site [ion binding]; other site 96561007277 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 96561007278 nudix motif; other site 96561007279 YadA-like C-terminal region; Region: YadA; pfam03895 96561007280 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 96561007281 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 96561007282 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 96561007283 active site 96561007284 NAD binding site [chemical binding]; other site 96561007285 metal binding site [ion binding]; metal-binding site 96561007286 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 96561007287 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 96561007288 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 96561007289 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 96561007290 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 96561007291 putative active site [active] 96561007292 metal binding site [ion binding]; metal-binding site 96561007293 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 96561007294 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 96561007295 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 96561007296 TrkA-N domain; Region: TrkA_N; pfam02254 96561007297 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 96561007298 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 96561007299 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96561007300 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96561007301 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 96561007302 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 96561007303 Mechanosensitive ion channel; Region: MS_channel; pfam00924 96561007304 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 96561007305 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561007306 hypothetical protein; Reviewed; Region: PRK12497 96561007307 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 96561007308 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 96561007309 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 96561007310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 96561007311 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 96561007312 RNA/DNA hybrid binding site [nucleotide binding]; other site 96561007313 active site 96561007314 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 96561007315 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 96561007316 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 96561007317 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 96561007318 RimM N-terminal domain; Region: RimM; pfam01782 96561007319 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 96561007320 hypothetical protein; Provisional; Region: PRK00468 96561007321 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 96561007322 signal recognition particle protein; Provisional; Region: PRK10867 96561007323 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 96561007324 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 96561007325 P loop; other site 96561007326 GTP binding site [chemical binding]; other site 96561007327 Signal peptide binding domain; Region: SRP_SPB; pfam02978 96561007328 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14463 96561007329 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 96561007330 FeS/SAM binding site; other site 96561007331 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 96561007332 putative active site [active] 96561007333 putative metal binding residues [ion binding]; other site 96561007334 signature motif; other site 96561007335 putative triphosphate binding site [ion binding]; other site 96561007336 dimer interface [polypeptide binding]; other site 96561007337 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 96561007338 PAS domain; Region: PAS_9; pfam13426 96561007339 putative active site [active] 96561007340 heme pocket [chemical binding]; other site 96561007341 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 96561007342 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 96561007343 ATP binding site [chemical binding]; other site 96561007344 Walker B motif; other site 96561007345 arginine finger; other site 96561007346 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561007347 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 96561007348 Response regulator receiver domain; Region: Response_reg; pfam00072 96561007349 active site 96561007350 phosphorylation site [posttranslational modification] 96561007351 intermolecular recognition site; other site 96561007352 dimerization interface [polypeptide binding]; other site 96561007353 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 96561007354 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561007355 putative active site [active] 96561007356 heme pocket [chemical binding]; other site 96561007357 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 96561007358 putative active site [active] 96561007359 heme pocket [chemical binding]; other site 96561007360 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561007361 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561007362 metal binding site [ion binding]; metal-binding site 96561007363 active site 96561007364 I-site; other site 96561007365 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 96561007366 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 96561007367 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 96561007368 phosphopeptide binding site; other site 96561007369 ACT domain-containing protein [General function prediction only]; Region: COG4747 96561007370 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 96561007371 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 96561007372 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561007373 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 96561007374 acyl-activating enzyme (AAE) consensus motif; other site 96561007375 AMP binding site [chemical binding]; other site 96561007376 active site 96561007377 CoA binding site [chemical binding]; other site 96561007378 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96561007379 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 96561007380 putative NAD(P) binding site [chemical binding]; other site 96561007381 active site 96561007382 putative substrate binding site [chemical binding]; other site 96561007383 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 96561007384 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 96561007385 Septum formation initiator; Region: DivIC; pfam04977 96561007386 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 96561007387 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 96561007388 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 96561007389 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 96561007390 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 96561007391 putative active site [active] 96561007392 catalytic site [active] 96561007393 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 96561007394 putative active site [active] 96561007395 catalytic site [active] 96561007396 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 96561007397 putative catalytic site [active] 96561007398 putative metal binding site [ion binding]; other site 96561007399 putative phosphate binding site [ion binding]; other site 96561007400 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 96561007401 FAD binding site [chemical binding]; other site 96561007402 Response regulator receiver domain; Region: Response_reg; pfam00072 96561007403 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 96561007404 active site 96561007405 phosphorylation site [posttranslational modification] 96561007406 intermolecular recognition site; other site 96561007407 dimerization interface [polypeptide binding]; other site 96561007408 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 96561007409 Response regulator receiver domain; Region: Response_reg; pfam00072 96561007410 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 96561007411 active site 96561007412 phosphorylation site [posttranslational modification] 96561007413 intermolecular recognition site; other site 96561007414 dimerization interface [polypeptide binding]; other site 96561007415 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561007416 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 96561007417 dimer interface [polypeptide binding]; other site 96561007418 phosphorylation site [posttranslational modification] 96561007419 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 96561007420 ATP binding site [chemical binding]; other site 96561007421 G-X-G motif; other site 96561007422 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 96561007423 Response regulator receiver domain; Region: Response_reg; pfam00072 96561007424 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 96561007425 active site 96561007426 phosphorylation site [posttranslational modification] 96561007427 intermolecular recognition site; other site 96561007428 dimerization interface [polypeptide binding]; other site 96561007429 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 96561007430 Sulfate transporter family; Region: Sulfate_transp; pfam00916 96561007431 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 96561007432 Sulfate transporter family; Region: Sulfate_transp; pfam00916 96561007433 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 96561007434 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561007435 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561007436 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 96561007437 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 96561007438 putative trimer interface [polypeptide binding]; other site 96561007439 putative CoA binding site [chemical binding]; other site 96561007440 ORF6N domain; Region: ORF6N; pfam10543 96561007441 Cupin domain; Region: Cupin_2; cl17218 96561007442 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 96561007443 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; cd09881 96561007444 oligomeric interface; other site 96561007445 homodimer interface [polypeptide binding]; other site 96561007446 putative active site [active] 96561007447 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 96561007448 Cupin domain; Region: Cupin_2; cl17218 96561007449 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 96561007450 AAA domain; Region: AAA_30; pfam13604 96561007451 Sm and related proteins; Region: Sm_like; cl00259 96561007452 Family description; Region: UvrD_C_2; pfam13538 96561007453 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 96561007454 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 96561007455 ATP binding site [chemical binding]; other site 96561007456 Mg++ binding site [ion binding]; other site 96561007457 motif III; other site 96561007458 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 96561007459 nucleotide binding region [chemical binding]; other site 96561007460 ATP-binding site [chemical binding]; other site 96561007461 hypothetical protein; Provisional; Region: PRK00766 96561007462 Protein of unknown function DUF99; Region: DUF99; pfam01949 96561007463 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 96561007464 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 96561007465 substrate binding site [chemical binding]; other site 96561007466 glutamase interaction surface [polypeptide binding]; other site 96561007467 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 96561007468 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96561007469 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 96561007470 active site 96561007471 hypothetical protein; Provisional; Region: PRK06361 96561007472 Bifunctional nuclease; Region: DNase-RNase; pfam02577 96561007473 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 96561007474 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 96561007475 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 96561007476 FeS/SAM binding site; other site 96561007477 elongation factor P; Validated; Region: PRK00529 96561007478 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 96561007479 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 96561007480 RNA binding site [nucleotide binding]; other site 96561007481 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 96561007482 RNA binding site [nucleotide binding]; other site 96561007483 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 96561007484 phosphate binding site [ion binding]; other site 96561007485 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 96561007486 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 96561007487 Omptin family; Region: Omptin; cl01886 96561007488 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 96561007489 putative lipid binding site [chemical binding]; other site 96561007490 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 96561007491 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 96561007492 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 96561007493 enoyl-CoA hydratase; Provisional; Region: PRK07658 96561007494 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 96561007495 substrate binding site [chemical binding]; other site 96561007496 oxyanion hole (OAH) forming residues; other site 96561007497 trimer interface [polypeptide binding]; other site 96561007498 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 96561007499 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 96561007500 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561007501 active site 96561007502 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 96561007503 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561007504 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561007505 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 96561007506 plasmid partitioning protein; Provisional; Region: PRK13832 96561007507 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 96561007508 ATP binding site [chemical binding]; other site 96561007509 active site 96561007510 substrate binding site [chemical binding]; other site 96561007511 PilZ domain; Region: PilZ; pfam07238 96561007512 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 96561007513 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 96561007514 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 96561007515 ligand binding site [chemical binding]; other site 96561007516 flexible hinge region; other site 96561007517 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 96561007518 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 96561007519 G1 box; other site 96561007520 GTP/Mg2+ binding site [chemical binding]; other site 96561007521 G2 box; other site 96561007522 Switch I region; other site 96561007523 G3 box; other site 96561007524 Switch II region; other site 96561007525 G4 box; other site 96561007526 G5 box; other site 96561007527 malate dehydrogenase; Reviewed; Region: PRK06223 96561007528 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 96561007529 NAD(P) binding site [chemical binding]; other site 96561007530 dimer interface [polypeptide binding]; other site 96561007531 tetramer (dimer of dimers) interface [polypeptide binding]; other site 96561007532 substrate binding site [chemical binding]; other site 96561007533 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 96561007534 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 96561007535 GIY-YIG motif/motif A; other site 96561007536 active site 96561007537 catalytic site [active] 96561007538 putative DNA binding site [nucleotide binding]; other site 96561007539 metal binding site [ion binding]; metal-binding site 96561007540 UvrB/uvrC motif; Region: UVR; pfam02151 96561007541 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 96561007542 Helix-hairpin-helix motif; Region: HHH; pfam00633 96561007543 excinuclease ABC subunit B; Provisional; Region: PRK05298 96561007544 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 96561007545 ATP binding site [chemical binding]; other site 96561007546 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 96561007547 nucleotide binding region [chemical binding]; other site 96561007548 ATP-binding site [chemical binding]; other site 96561007549 Ultra-violet resistance protein B; Region: UvrB; pfam12344 96561007550 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 96561007551 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 96561007552 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561007553 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561007554 metal binding site [ion binding]; metal-binding site 96561007555 active site 96561007556 I-site; other site 96561007557 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 96561007558 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 96561007559 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 96561007560 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 96561007561 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 96561007562 Dicarboxylate transport; Region: DctA-YdbH; cl14674 96561007563 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 96561007564 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 96561007565 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 96561007566 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 96561007567 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 96561007568 S-adenosylmethionine binding site [chemical binding]; other site 96561007569 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 96561007570 Phosphotransferase enzyme family; Region: APH; pfam01636 96561007571 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 96561007572 CHASE3 domain; Region: CHASE3; cl05000 96561007573 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 96561007574 dimerization interface [polypeptide binding]; other site 96561007575 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 96561007576 dimer interface [polypeptide binding]; other site 96561007577 phosphorylation site [posttranslational modification] 96561007578 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 96561007579 ATP binding site [chemical binding]; other site 96561007580 Mg2+ binding site [ion binding]; other site 96561007581 G-X-G motif; other site 96561007582 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 96561007583 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 96561007584 Response regulator receiver domain; Region: Response_reg; pfam00072 96561007585 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 96561007586 active site 96561007587 phosphorylation site [posttranslational modification] 96561007588 intermolecular recognition site; other site 96561007589 dimerization interface [polypeptide binding]; other site 96561007590 Response regulator receiver domain; Region: Response_reg; pfam00072 96561007591 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 96561007592 active site 96561007593 phosphorylation site [posttranslational modification] 96561007594 intermolecular recognition site; other site 96561007595 dimerization interface [polypeptide binding]; other site 96561007596 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 96561007597 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 96561007598 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 96561007599 transmembrane helices; other site 96561007600 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 96561007601 TrkA-C domain; Region: TrkA_C; pfam02080 96561007602 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 96561007603 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 96561007604 Universal stress protein family; Region: Usp; pfam00582 96561007605 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96561007606 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 96561007607 active site 96561007608 phosphorylation site [posttranslational modification] 96561007609 intermolecular recognition site; other site 96561007610 dimerization interface [polypeptide binding]; other site 96561007611 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 96561007612 Walker A motif; other site 96561007613 ATP binding site [chemical binding]; other site 96561007614 Walker B motif; other site 96561007615 arginine finger; other site 96561007616 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561007617 FCD domain; Region: FCD; pfam07729 96561007618 Transcriptional regulators [Transcription]; Region: GntR; COG1802 96561007619 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96561007620 DNA-binding site [nucleotide binding]; DNA binding site 96561007621 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 96561007622 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96561007623 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 96561007624 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 96561007625 Ligand binding site; other site 96561007626 Putative Catalytic site; other site 96561007627 DXD motif; other site 96561007628 Reversibly glycosylated polypeptide; Region: RGP; cl07847 96561007629 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561007630 B12 binding site [chemical binding]; other site 96561007631 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561007632 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 96561007633 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 96561007634 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 96561007635 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561007636 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 96561007637 binding surface 96561007638 TPR motif; other site 96561007639 TPR repeat; Region: TPR_11; pfam13414 96561007640 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 96561007641 binding surface 96561007642 TPR motif; other site 96561007643 TPR repeat; Region: TPR_11; pfam13414 96561007644 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 96561007645 Ligand binding site; other site 96561007646 Putative Catalytic site; other site 96561007647 DXD motif; other site 96561007648 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 96561007649 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 96561007650 binding surface 96561007651 TPR repeat; Region: TPR_11; pfam13414 96561007652 TPR motif; other site 96561007653 TPR repeat; Region: TPR_11; pfam13414 96561007654 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 96561007655 binding surface 96561007656 TPR motif; other site 96561007657 TPR repeat; Region: TPR_11; pfam13414 96561007658 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 96561007659 binding surface 96561007660 TPR motif; other site 96561007661 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 96561007662 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 96561007663 binding surface 96561007664 TPR motif; other site 96561007665 TPR repeat; Region: TPR_11; pfam13414 96561007666 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 96561007667 binding surface 96561007668 TPR motif; other site 96561007669 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561007670 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 96561007671 TPR motif; other site 96561007672 binding surface 96561007673 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561007674 B12 binding site [chemical binding]; other site 96561007675 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561007676 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 96561007677 FeS/SAM binding site; other site 96561007678 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 96561007679 TPR repeat; Region: TPR_11; pfam13414 96561007680 binding surface 96561007681 TPR motif; other site 96561007682 TPR repeat; Region: TPR_11; pfam13414 96561007683 TPR repeat; Region: TPR_11; pfam13414 96561007684 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 96561007685 binding surface 96561007686 TPR motif; other site 96561007687 TPR repeat; Region: TPR_11; pfam13414 96561007688 TPR repeat; Region: TPR_11; pfam13414 96561007689 TPR repeat; Region: TPR_11; pfam13414 96561007690 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 96561007691 binding surface 96561007692 TPR motif; other site 96561007693 TPR repeat; Region: TPR_11; pfam13414 96561007694 TPR repeat; Region: TPR_11; pfam13414 96561007695 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 96561007696 binding surface 96561007697 TPR motif; other site 96561007698 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 96561007699 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 96561007700 binding surface 96561007701 TPR motif; other site 96561007702 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 96561007703 TPR motif; other site 96561007704 binding surface 96561007705 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 96561007706 binding surface 96561007707 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561007708 TPR motif; other site 96561007709 TPR repeat; Region: TPR_11; pfam13414 96561007710 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 96561007711 binding surface 96561007712 TPR motif; other site 96561007713 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 96561007714 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 96561007715 binding surface 96561007716 TPR motif; other site 96561007717 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 96561007718 binding surface 96561007719 TPR motif; other site 96561007720 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 96561007721 binding surface 96561007722 TPR motif; other site 96561007723 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 96561007724 putative active site [active] 96561007725 Bacterial SH3 domain; Region: SH3_3; pfam08239 96561007726 Sporulation related domain; Region: SPOR; pfam05036 96561007727 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 96561007728 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 96561007729 ribulose-1,5-biphosphate synthetase; Provisional; Region: PRK04176 96561007730 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96561007731 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 96561007732 ThiC family; Region: ThiC; pfam01964 96561007733 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561007734 B12 binding site [chemical binding]; other site 96561007735 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561007736 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 96561007737 FeS/SAM binding site; other site 96561007738 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 96561007739 putative ligand binding pocket/active site [active] 96561007740 putative metal binding site [ion binding]; other site 96561007741 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 96561007742 AMMECR1; Region: AMMECR1; pfam01871 96561007743 spermidine synthase; Provisional; Region: PRK03612 96561007744 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 96561007745 S-adenosylmethionine binding site [chemical binding]; other site 96561007746 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 96561007747 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 96561007748 FeS/SAM binding site; other site 96561007749 B12 binding domain; Region: B12-binding; pfam02310 96561007750 B12 binding site [chemical binding]; other site 96561007751 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 96561007752 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561007753 FeS/SAM binding site; other site 96561007754 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 96561007755 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561007756 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 96561007757 FeS/SAM binding site; other site 96561007758 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 96561007759 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561007760 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 96561007761 FeS/SAM binding site; other site 96561007762 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 96561007763 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561007764 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 96561007765 FeS/SAM binding site; other site 96561007766 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 96561007767 Lipopolysaccharide-assembly; Region: LptE; pfam04390 96561007768 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 96561007769 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 96561007770 HIGH motif; other site 96561007771 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 96561007772 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 96561007773 active site 96561007774 KMSKS motif; other site 96561007775 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 96561007776 tRNA binding surface [nucleotide binding]; other site 96561007777 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 96561007778 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 96561007779 homodimer interface [polypeptide binding]; other site 96561007780 oligonucleotide binding site [chemical binding]; other site 96561007781 Preprotein translocase subunit; Region: YajC; pfam02699 96561007782 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 96561007783 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 96561007784 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 96561007785 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 96561007786 Protein export membrane protein; Region: SecD_SecF; pfam02355 96561007787 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 96561007788 DNA protecting protein DprA; Region: dprA; TIGR00732 96561007789 DNA topoisomerase I; Validated; Region: PRK06599 96561007790 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 96561007791 active site 96561007792 interdomain interaction site; other site 96561007793 putative metal-binding site [ion binding]; other site 96561007794 nucleotide binding site [chemical binding]; other site 96561007795 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 96561007796 domain I; other site 96561007797 DNA binding groove [nucleotide binding] 96561007798 phosphate binding site [ion binding]; other site 96561007799 domain II; other site 96561007800 domain III; other site 96561007801 nucleotide binding site [chemical binding]; other site 96561007802 catalytic site [active] 96561007803 domain IV; other site 96561007804 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 96561007805 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 96561007806 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 96561007807 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 96561007808 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 96561007809 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 96561007810 Cl- selectivity filter; other site 96561007811 Cl- binding residues [ion binding]; other site 96561007812 pore gating glutamate residue; other site 96561007813 dimer interface [polypeptide binding]; other site 96561007814 FOG: CBS domain [General function prediction only]; Region: COG0517 96561007815 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 96561007816 PAS domain S-box; Region: sensory_box; TIGR00229 96561007817 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 96561007818 putative active site [active] 96561007819 heme pocket [chemical binding]; other site 96561007820 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561007821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561007822 metal binding site [ion binding]; metal-binding site 96561007823 active site 96561007824 I-site; other site 96561007825 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 96561007826 nucleotide binding site/active site [active] 96561007827 HIT family signature motif; other site 96561007828 catalytic residue [active] 96561007829 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 96561007830 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 96561007831 Walker A/P-loop; other site 96561007832 ATP binding site [chemical binding]; other site 96561007833 Q-loop/lid; other site 96561007834 ABC transporter signature motif; other site 96561007835 Walker B; other site 96561007836 D-loop; other site 96561007837 H-loop/switch region; other site 96561007838 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 96561007839 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 96561007840 Bacterial SH3 domain; Region: SH3_3; pfam08239 96561007841 AmiB activator; Provisional; Region: PRK11637 96561007842 Peptidase family M23; Region: Peptidase_M23; pfam01551 96561007843 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 96561007844 C-terminal peptidase (prc); Region: prc; TIGR00225 96561007845 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 96561007846 protein binding site [polypeptide binding]; other site 96561007847 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 96561007848 Catalytic dyad [active] 96561007849 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 96561007850 NodB motif; other site 96561007851 putative active site [active] 96561007852 putative catalytic site [active] 96561007853 Zn binding site [ion binding]; other site 96561007854 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 96561007855 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 96561007856 S-adenosylmethionine binding site [chemical binding]; other site 96561007857 Transposase domain (DUF772); Region: DUF772; pfam05598 96561007858 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 96561007859 DDE superfamily endonuclease; Region: DDE_4; cl17710 96561007860 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 96561007861 Autotransporter beta-domain; Region: Autotransporter; smart00869 96561007862 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 96561007863 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 96561007864 oxyanion hole [active] 96561007865 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 96561007866 FeS/SAM binding site; other site 96561007867 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 96561007868 Ligand binding site; other site 96561007869 Putative Catalytic site; other site 96561007870 DXD motif; other site 96561007871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 96561007872 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 96561007873 extended (e) SDRs; Region: SDR_e; cd08946 96561007874 NAD(P) binding site [chemical binding]; other site 96561007875 active site 96561007876 substrate binding site [chemical binding]; other site 96561007877 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 96561007878 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 96561007879 inhibitor-cofactor binding pocket; inhibition site 96561007880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561007881 catalytic residue [active] 96561007882 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 96561007883 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 96561007884 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 96561007885 Ligand binding site; other site 96561007886 Putative Catalytic site; other site 96561007887 DXD motif; other site 96561007888 TPR repeat; Region: TPR_11; pfam13414 96561007889 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 96561007890 binding surface 96561007891 TPR motif; other site 96561007892 TPR repeat; Region: TPR_11; pfam13414 96561007893 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 96561007894 TPR motif; other site 96561007895 binding surface 96561007896 TPR repeat; Region: TPR_11; pfam13414 96561007897 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 96561007898 binding surface 96561007899 TPR motif; other site 96561007900 TPR repeat; Region: TPR_11; pfam13414 96561007901 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561007902 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 96561007903 binding surface 96561007904 TPR motif; other site 96561007905 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 96561007906 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561007907 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 96561007908 FeS/SAM binding site; other site 96561007909 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 96561007910 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 96561007911 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 96561007912 FeS/SAM binding site; other site 96561007913 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 96561007914 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 96561007915 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 96561007916 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 96561007917 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 96561007918 DNA binding residues [nucleotide binding] 96561007919 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 96561007920 binding surface 96561007921 TPR motif; other site 96561007922 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561007923 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 96561007924 TPR motif; other site 96561007925 binding surface 96561007926 TPR repeat; Region: TPR_11; pfam13414 96561007927 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 96561007928 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 96561007929 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 96561007930 binding surface 96561007931 TPR motif; other site 96561007932 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 96561007933 binding surface 96561007934 TPR motif; other site 96561007935 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 96561007936 binding surface 96561007937 TPR motif; other site 96561007938 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 96561007939 Ligand Binding Site [chemical binding]; other site 96561007940 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 96561007941 ATP binding site [chemical binding]; other site 96561007942 GAF domain; Region: GAF_2; pfam13185 96561007943 GAF domain; Region: GAF; pfam01590 96561007944 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 96561007945 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 96561007946 Clp amino terminal domain; Region: Clp_N; pfam02861 96561007947 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 96561007948 Walker A motif; other site 96561007949 ATP binding site [chemical binding]; other site 96561007950 Walker B motif; other site 96561007951 arginine finger; other site 96561007952 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 96561007953 Walker A motif; other site 96561007954 ATP binding site [chemical binding]; other site 96561007955 Walker B motif; other site 96561007956 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 96561007957 Uncharacterized conserved protein [Function unknown]; Region: COG2127 96561007958 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 96561007959 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 96561007960 ATP binding site [chemical binding]; other site 96561007961 putative Mg++ binding site [ion binding]; other site 96561007962 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 96561007963 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 96561007964 nucleotide binding region [chemical binding]; other site 96561007965 ATP-binding site [chemical binding]; other site 96561007966 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 96561007967 Peptidase family M23; Region: Peptidase_M23; pfam01551 96561007968 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 96561007969 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 96561007970 active site 96561007971 intersubunit interactions; other site 96561007972 catalytic residue [active] 96561007973 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 96561007974 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 96561007975 catalytic center binding site [active] 96561007976 ATP binding site [chemical binding]; other site 96561007977 argininosuccinate lyase; Provisional; Region: PRK00855 96561007978 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 96561007979 active sites [active] 96561007980 tetramer interface [polypeptide binding]; other site 96561007981 argininosuccinate synthase; Provisional; Region: PRK13820 96561007982 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 96561007983 ANP binding site [chemical binding]; other site 96561007984 Substrate Binding Site II [chemical binding]; other site 96561007985 Substrate Binding Site I [chemical binding]; other site 96561007986 ornithine carbamoyltransferase; Provisional; Region: PRK00779 96561007987 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 96561007988 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 96561007989 acetylornithine aminotransferase; Provisional; Region: PRK02627 96561007990 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 96561007991 inhibitor-cofactor binding pocket; inhibition site 96561007992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561007993 catalytic residue [active] 96561007994 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 96561007995 feedback inhibition sensing region; other site 96561007996 homohexameric interface [polypeptide binding]; other site 96561007997 nucleotide binding site [chemical binding]; other site 96561007998 N-acetyl-L-glutamate binding site [chemical binding]; other site 96561007999 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 96561008000 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 96561008001 Walker A motif; other site 96561008002 ATP binding site [chemical binding]; other site 96561008003 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 96561008004 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 96561008005 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 96561008006 active site 96561008007 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 96561008008 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 96561008009 active site 96561008010 Int/Topo IB signature motif; other site 96561008011 transcription termination factor Rho; Provisional; Region: PRK12678 96561008012 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 96561008013 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 96561008014 putative acyl-acceptor binding pocket; other site 96561008015 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561008016 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561008017 active site 96561008018 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 96561008019 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 96561008020 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 96561008021 ThiS family; Region: ThiS; pfam02597 96561008022 charged pocket; other site 96561008023 hydrophobic patch; other site 96561008024 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 96561008025 MoaE interaction surface [polypeptide binding]; other site 96561008026 MoeB interaction surface [polypeptide binding]; other site 96561008027 thiocarboxylated glycine; other site 96561008028 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 96561008029 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 96561008030 ATP binding site [chemical binding]; other site 96561008031 substrate interface [chemical binding]; other site 96561008032 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 96561008033 Catalytic domain of Protein Kinases; Region: PKc; cd00180 96561008034 active site 96561008035 ATP binding site [chemical binding]; other site 96561008036 substrate binding site [chemical binding]; other site 96561008037 activation loop (A-loop); other site 96561008038 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 96561008039 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 96561008040 Fe-S cluster binding site [ion binding]; other site 96561008041 active site 96561008042 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 96561008043 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 96561008044 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 96561008045 Putative Fe-S cluster; Region: FeS; cl17515 96561008046 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561008047 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 96561008048 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96561008049 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 96561008050 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 96561008051 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 96561008052 FeS/SAM binding site; other site 96561008053 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 96561008054 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 96561008055 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561008056 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 96561008057 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 96561008058 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 96561008059 Walker A/P-loop; other site 96561008060 ATP binding site [chemical binding]; other site 96561008061 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 96561008062 ABC transporter signature motif; other site 96561008063 Walker B; other site 96561008064 D-loop; other site 96561008065 H-loop/switch region; other site 96561008066 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 96561008067 dimer interface [polypeptide binding]; other site 96561008068 substrate binding site [chemical binding]; other site 96561008069 ATP binding site [chemical binding]; other site 96561008070 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 96561008071 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 96561008072 putative catalytic site [active] 96561008073 putative metal binding site [ion binding]; other site 96561008074 putative phosphate binding site [ion binding]; other site 96561008075 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 96561008076 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 96561008077 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 96561008078 putative active site [active] 96561008079 putative active site [active] 96561008080 catalytic site [active] 96561008081 catalytic site [active] 96561008082 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 96561008083 putative active site [active] 96561008084 catalytic site [active] 96561008085 Uncharacterized conserved protein [Function unknown]; Region: COG0398 96561008086 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 96561008087 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 96561008088 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 96561008089 putative dimer interface [polypeptide binding]; other site 96561008090 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 96561008091 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 96561008092 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 96561008093 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 96561008094 NADP binding site [chemical binding]; other site 96561008095 active site 96561008096 putative substrate binding site [chemical binding]; other site 96561008097 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96561008098 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 96561008099 substrate binding site [chemical binding]; other site 96561008100 oxyanion hole (OAH) forming residues; other site 96561008101 trimer interface [polypeptide binding]; other site 96561008102 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 96561008103 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 96561008104 EamA-like transporter family; Region: EamA; cl17759 96561008105 Protein of unknown function (DUF523); Region: DUF523; pfam04463 96561008106 Uncharacterized conserved protein [Function unknown]; Region: COG3272 96561008107 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 96561008108 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 96561008109 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 96561008110 HIGH motif; other site 96561008111 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 96561008112 active site 96561008113 KMSKS motif; other site 96561008114 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 96561008115 Transglycosylase; Region: Transgly; pfam00912 96561008116 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 96561008117 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 96561008118 Amidase; Region: Amidase; pfam01425 96561008119 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 96561008120 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 96561008121 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561008122 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 96561008123 FMN-binding domain; Region: FMN_bind; cl01081 96561008124 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 96561008125 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 96561008126 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 96561008127 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 96561008128 catalytic loop [active] 96561008129 iron binding site [ion binding]; other site 96561008130 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 96561008131 FAD binding pocket [chemical binding]; other site 96561008132 FAD binding motif [chemical binding]; other site 96561008133 phosphate binding motif [ion binding]; other site 96561008134 beta-alpha-beta structure motif; other site 96561008135 NAD binding pocket [chemical binding]; other site 96561008136 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 96561008137 Uncharacterized conserved protein [Function unknown]; Region: COG1284 96561008138 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 96561008139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561008140 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561008141 epoxyqueuosine reductase; Region: TIGR00276 96561008142 HEAT repeats; Region: HEAT_2; pfam13646 96561008143 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561008144 heme-binding residues [chemical binding]; other site 96561008145 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 96561008146 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 96561008147 molybdopterin cofactor binding site; other site 96561008148 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 96561008149 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 96561008150 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 96561008151 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 96561008152 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 96561008153 hinge; other site 96561008154 active site 96561008155 Uncharacterized conserved protein [Function unknown]; Region: COG0398 96561008156 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 96561008157 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 96561008158 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 96561008159 short chain dehydrogenase; Provisional; Region: PRK06914 96561008160 NADP binding site [chemical binding]; other site 96561008161 active site 96561008162 steroid binding site; other site 96561008163 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96561008164 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 96561008165 substrate binding site [chemical binding]; other site 96561008166 oxyanion hole (OAH) forming residues; other site 96561008167 trimer interface [polypeptide binding]; other site 96561008168 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561008169 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 96561008170 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 96561008171 dimer interface [polypeptide binding]; other site 96561008172 acyl-activating enzyme (AAE) consensus motif; other site 96561008173 putative active site [active] 96561008174 AMP binding site [chemical binding]; other site 96561008175 putative CoA binding site [chemical binding]; other site 96561008176 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 96561008177 putative catalytic site [active] 96561008178 putative metal binding site [ion binding]; other site 96561008179 putative phosphate binding site [ion binding]; other site 96561008180 ORF6N domain; Region: ORF6N; pfam10543 96561008181 ORF6N domain; Region: ORF6N; pfam10543 96561008182 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 96561008183 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 96561008184 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 96561008185 non-specific DNA binding site [nucleotide binding]; other site 96561008186 salt bridge; other site 96561008187 sequence-specific DNA binding site [nucleotide binding]; other site 96561008188 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561008189 B12 binding site [chemical binding]; other site 96561008190 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 96561008191 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561008192 FeS/SAM binding site; other site 96561008193 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 96561008194 active site 96561008195 dimer interface [polypeptide binding]; other site 96561008196 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 96561008197 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 96561008198 FeS/SAM binding site; other site 96561008199 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 96561008200 ATP cone domain; Region: ATP-cone; pfam03477 96561008201 Class III ribonucleotide reductase; Region: RNR_III; cd01675 96561008202 effector binding site; other site 96561008203 active site 96561008204 Zn binding site [ion binding]; other site 96561008205 glycine loop; other site 96561008206 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 96561008207 hypothetical protein; Reviewed; Region: PRK09588 96561008208 DNA polymerase I; Provisional; Region: PRK05755 96561008209 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 96561008210 active site 96561008211 metal binding site 1 [ion binding]; metal-binding site 96561008212 putative 5' ssDNA interaction site; other site 96561008213 metal binding site 3; metal-binding site 96561008214 metal binding site 2 [ion binding]; metal-binding site 96561008215 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 96561008216 putative DNA binding site [nucleotide binding]; other site 96561008217 putative metal binding site [ion binding]; other site 96561008218 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 96561008219 active site 96561008220 catalytic site [active] 96561008221 substrate binding site [chemical binding]; other site 96561008222 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 96561008223 active site 96561008224 DNA binding site [nucleotide binding] 96561008225 catalytic site [active] 96561008226 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 96561008227 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 96561008228 dimer interface [polypeptide binding]; other site 96561008229 putative CheW interface [polypeptide binding]; other site 96561008230 Flagellar FliJ protein; Region: FliJ; pfam02050 96561008231 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 96561008232 cyclase homology domain; Region: CHD; cd07302 96561008233 nucleotidyl binding site; other site 96561008234 metal binding site [ion binding]; metal-binding site 96561008235 dimer interface [polypeptide binding]; other site 96561008236 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 96561008237 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 96561008238 substrate binding pocket [chemical binding]; other site 96561008239 dimer interface [polypeptide binding]; other site 96561008240 inhibitor binding site; inhibition site 96561008241 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 96561008242 active site 96561008243 metal binding site [ion binding]; metal-binding site 96561008244 Methyltransferase domain; Region: Methyltransf_31; pfam13847 96561008245 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 96561008246 S-adenosylmethionine binding site [chemical binding]; other site 96561008247 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 96561008248 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96561008249 ABC transporter; Region: ABC_tran_2; pfam12848 96561008250 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 96561008251 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 96561008252 putative lipid binding site [chemical binding]; other site 96561008253 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 96561008254 ATP-NAD kinase; Region: NAD_kinase; pfam01513 96561008255 Chorismate mutase type II; Region: CM_2; pfam01817 96561008256 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 96561008257 Prephenate dehydratase; Region: PDT; pfam00800 96561008258 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 96561008259 putative L-Phe binding site [chemical binding]; other site 96561008260 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 96561008261 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561008262 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 96561008263 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 96561008264 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 96561008265 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 96561008266 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 96561008267 Methyltransferase domain; Region: Methyltransf_24; pfam13578 96561008268 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 96561008269 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 96561008270 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 96561008271 active site 2 [active] 96561008272 active site 1 [active] 96561008273 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 96561008274 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 96561008275 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561008276 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 96561008277 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 96561008278 S-adenosylmethionine binding site [chemical binding]; other site 96561008279 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 96561008280 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 96561008281 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 96561008282 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 96561008283 substrate binding pocket [chemical binding]; other site 96561008284 membrane-bound complex binding site; other site 96561008285 hinge residues; other site 96561008286 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 96561008287 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96561008288 catalytic residue [active] 96561008289 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 96561008290 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 96561008291 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 96561008292 Magnesium ion binding site [ion binding]; other site 96561008293 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561008294 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 96561008295 putative DNA binding site [nucleotide binding]; other site 96561008296 putative Zn2+ binding site [ion binding]; other site 96561008297 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 96561008298 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 96561008299 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 96561008300 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 96561008301 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 96561008302 PemK-like protein; Region: PemK; pfam02452 96561008303 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 96561008304 toxin-antitoxin system, toxin component, Txe/YoeB family; Region: toxin_Txe_YoeB; TIGR02116 96561008305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561008306 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 96561008307 NAD(P) binding site [chemical binding]; other site 96561008308 active site 96561008309 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 96561008310 putative hydrophobic ligand binding site [chemical binding]; other site 96561008311 Cyclophilin-like; Region: Cyclophil_like; pfam04126 96561008312 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 96561008313 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 96561008314 Rubrerythrin [Energy production and conversion]; Region: COG1592 96561008315 binuclear metal center [ion binding]; other site 96561008316 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 96561008317 iron binding site [ion binding]; other site 96561008318 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 96561008319 FAD binding domain; Region: FAD_binding_4; pfam01565 96561008320 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 96561008321 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 96561008322 putative N- and C-terminal domain interface [polypeptide binding]; other site 96561008323 putative active site [active] 96561008324 MgATP binding site [chemical binding]; other site 96561008325 catalytic site [active] 96561008326 metal binding site [ion binding]; metal-binding site 96561008327 putative carbohydrate binding site [chemical binding]; other site 96561008328 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 96561008329 fatty acid metabolism regulator; Provisional; Region: PRK04984 96561008330 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96561008331 DNA-binding site [nucleotide binding]; DNA binding site 96561008332 FadR C-terminal domain; Region: FadR_C; pfam07840 96561008333 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 96561008334 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96561008335 active site 96561008336 Flagellin N-methylase; Region: FliB; pfam03692 96561008337 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 96561008338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561008339 NAD(P) binding site [chemical binding]; other site 96561008340 active site 96561008341 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 96561008342 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 96561008343 putative substrate translocation pore; other site 96561008344 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 96561008345 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 96561008346 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 96561008347 active site 96561008348 multimer interface [polypeptide binding]; other site 96561008349 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 96561008350 TPR motif; other site 96561008351 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561008352 binding surface 96561008353 TPR repeat; Region: TPR_11; pfam13414 96561008354 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 96561008355 binding surface 96561008356 TPR motif; other site 96561008357 TPR repeat; Region: TPR_11; pfam13414 96561008358 Methyltransferase domain; Region: Methyltransf_23; pfam13489 96561008359 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 96561008360 S-adenosylmethionine binding site [chemical binding]; other site 96561008361 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 96561008362 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 96561008363 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561008364 FeS/SAM binding site; other site 96561008365 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 96561008366 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 96561008367 Walker A/P-loop; other site 96561008368 ATP binding site [chemical binding]; other site 96561008369 Q-loop/lid; other site 96561008370 ABC transporter signature motif; other site 96561008371 Walker B; other site 96561008372 D-loop; other site 96561008373 H-loop/switch region; other site 96561008374 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 96561008375 dimer interface [polypeptide binding]; other site 96561008376 conserved gate region; other site 96561008377 putative PBP binding loops; other site 96561008378 ABC-ATPase subunit interface; other site 96561008379 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 96561008380 PBP superfamily domain; Region: PBP_like_2; pfam12849 96561008381 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 96561008382 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 96561008383 Walker A/P-loop; other site 96561008384 ATP binding site [chemical binding]; other site 96561008385 Q-loop/lid; other site 96561008386 ABC transporter signature motif; other site 96561008387 Walker B; other site 96561008388 D-loop; other site 96561008389 H-loop/switch region; other site 96561008390 TOBE domain; Region: TOBE_2; pfam08402 96561008391 sulfate transport protein; Provisional; Region: cysT; CHL00187 96561008392 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 96561008393 dimer interface [polypeptide binding]; other site 96561008394 conserved gate region; other site 96561008395 putative PBP binding loops; other site 96561008396 ABC-ATPase subunit interface; other site 96561008397 molybdate ABC transporter periplasmic substrate-binding protein; Provisional; Region: PRK04168 96561008398 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 96561008399 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 96561008400 4Fe-4S binding domain; Region: Fer4; pfam00037 96561008401 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561008402 4Fe-4S binding domain; Region: Fer4; pfam00037 96561008403 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 96561008404 non-specific DNA binding site [nucleotide binding]; other site 96561008405 salt bridge; other site 96561008406 sequence-specific DNA binding site [nucleotide binding]; other site 96561008407 HipA N-terminal domain; Region: Couple_hipA; pfam13657 96561008408 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 96561008409 HipA-like N-terminal domain; Region: HipA_N; pfam07805 96561008410 HipA-like C-terminal domain; Region: HipA_C; pfam07804 96561008411 Transposase domain (DUF772); Region: DUF772; pfam05598 96561008412 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 96561008413 DDE superfamily endonuclease; Region: DDE_4; cl17710 96561008414 Protein of unknown function (DUF497); Region: DUF497; pfam04365 96561008415 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 96561008416 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 96561008417 putative dimer interface [polypeptide binding]; other site 96561008418 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 96561008419 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 96561008420 putative dimer interface [polypeptide binding]; other site 96561008421 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 96561008422 Rubredoxin; Region: Rubredoxin; pfam00301 96561008423 iron binding site [ion binding]; other site 96561008424 thioredoxin 2; Provisional; Region: PRK10996 96561008425 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 96561008426 catalytic residues [active] 96561008427 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 96561008428 Ferritin-like domain; Region: Ferritin; pfam00210 96561008429 binuclear metal center [ion binding]; other site 96561008430 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 96561008431 iron binding site [ion binding]; other site 96561008432 Flavodoxin domain; Region: Flavodoxin_5; cl17428 96561008433 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 96561008434 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 96561008435 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 96561008436 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561008437 heme-binding residues [chemical binding]; other site 96561008438 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 96561008439 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 96561008440 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 96561008441 Rubredoxin; Region: Rubredoxin; pfam00301 96561008442 iron binding site [ion binding]; other site 96561008443 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 96561008444 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 96561008445 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 96561008446 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 96561008447 pyruvate phosphate dikinase; Provisional; Region: PRK09279 96561008448 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 96561008449 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 96561008450 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 96561008451 Methyltransferase domain; Region: Methyltransf_31; pfam13847 96561008452 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 96561008453 S-adenosylmethionine binding site [chemical binding]; other site 96561008454 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 96561008455 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 96561008456 FMN binding site [chemical binding]; other site 96561008457 active site 96561008458 catalytic residues [active] 96561008459 substrate binding site [chemical binding]; other site 96561008460 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 96561008461 short chain dehydrogenase; Provisional; Region: PRK07035 96561008462 classical (c) SDRs; Region: SDR_c; cd05233 96561008463 NAD(P) binding site [chemical binding]; other site 96561008464 active site 96561008465 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 96561008466 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 96561008467 homodimer interface [polypeptide binding]; other site 96561008468 substrate-cofactor binding pocket; other site 96561008469 catalytic residue [active] 96561008470 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 96561008471 trimer interface [polypeptide binding]; other site 96561008472 putative Zn binding site [ion binding]; other site 96561008473 Flagellin N-methylase; Region: FliB; pfam03692 96561008474 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 96561008475 Beta-lactamase; Region: Beta-lactamase; pfam00144 96561008476 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 96561008477 dihydrodipicolinate synthase; Region: dapA; TIGR00674 96561008478 dimer interface [polypeptide binding]; other site 96561008479 active site 96561008480 catalytic residue [active] 96561008481 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 96561008482 binding surface 96561008483 TPR motif; other site 96561008484 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 96561008485 binding surface 96561008486 TPR repeat; Region: TPR_11; pfam13414 96561008487 TPR motif; other site 96561008488 TPR repeat; Region: TPR_11; pfam13414 96561008489 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 96561008490 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 96561008491 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 96561008492 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 96561008493 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 96561008494 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 96561008495 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 96561008496 catalytic triad [active] 96561008497 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 96561008498 AAA domain; Region: AAA_30; pfam13604 96561008499 Family description; Region: UvrD_C_2; pfam13538 96561008500 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 96561008501 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 96561008502 active site 96561008503 motif I; other site 96561008504 motif II; other site 96561008505 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 96561008506 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 96561008507 Sporulation related domain; Region: SPOR; pfam05036 96561008508 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 96561008509 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 96561008510 putative substrate translocation pore; other site 96561008511 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 96561008512 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 96561008513 putative active site [active] 96561008514 putative metal binding site [ion binding]; other site 96561008515 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 96561008516 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 96561008517 Ligand Binding Site [chemical binding]; other site 96561008518 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 96561008519 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 96561008520 metal ion-dependent adhesion site (MIDAS); other site 96561008521 MoxR-like ATPases [General function prediction only]; Region: COG0714 96561008522 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 96561008523 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 96561008524 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 96561008525 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 96561008526 anti sigma factor interaction site; other site 96561008527 regulatory phosphorylation site [posttranslational modification]; other site 96561008528 Bacterial SH3 domain; Region: SH3_3; pfam08239 96561008529 Bacterial SH3 domain; Region: SH3_3; pfam08239 96561008530 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 96561008531 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 96561008532 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 96561008533 active site 96561008534 metal binding site [ion binding]; metal-binding site 96561008535 trigger factor; Provisional; Region: tig; PRK01490 96561008536 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 96561008537 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 96561008538 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 96561008539 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 96561008540 oligomer interface [polypeptide binding]; other site 96561008541 active site residues [active] 96561008542 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 96561008543 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 96561008544 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 96561008545 Walker A motif; other site 96561008546 ATP binding site [chemical binding]; other site 96561008547 Walker B motif; other site 96561008548 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 96561008549 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 96561008550 Found in ATP-dependent protease La (LON); Region: LON; smart00464 96561008551 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 96561008552 Walker A motif; other site 96561008553 ATP binding site [chemical binding]; other site 96561008554 Walker B motif; other site 96561008555 arginine finger; other site 96561008556 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 96561008557 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 96561008558 Clp amino terminal domain; Region: Clp_N; pfam02861 96561008559 Clp amino terminal domain; Region: Clp_N; pfam02861 96561008560 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 96561008561 Walker A motif; other site 96561008562 ATP binding site [chemical binding]; other site 96561008563 Walker B motif; other site 96561008564 arginine finger; other site 96561008565 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 96561008566 Walker A motif; other site 96561008567 ATP binding site [chemical binding]; other site 96561008568 Walker B motif; other site 96561008569 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 96561008570 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 96561008571 SmpB-tmRNA interface; other site 96561008572 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 96561008573 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 96561008574 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 96561008575 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 96561008576 PTS HPr component phosphorylation site; Region: PTS-HPr; pfam00381 96561008577 dimerization domain swap beta strand [polypeptide binding]; other site 96561008578 regulatory protein interface [polypeptide binding]; other site 96561008579 active site 96561008580 regulatory phosphorylation site [posttranslational modification]; other site 96561008581 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 96561008582 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96561008583 substrate binding pocket [chemical binding]; other site 96561008584 membrane-bound complex binding site; other site 96561008585 hinge residues; other site 96561008586 PAS fold; Region: PAS_3; pfam08447 96561008587 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 96561008588 putative active site [active] 96561008589 heme pocket [chemical binding]; other site 96561008590 PAS domain S-box; Region: sensory_box; TIGR00229 96561008591 PAS domain; Region: PAS_8; pfam13188 96561008592 PAS domain S-box; Region: sensory_box; TIGR00229 96561008593 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561008594 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 96561008595 dimer interface [polypeptide binding]; other site 96561008596 phosphorylation site [posttranslational modification] 96561008597 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 96561008598 ATP binding site [chemical binding]; other site 96561008599 Mg2+ binding site [ion binding]; other site 96561008600 G-X-G motif; other site 96561008601 Response regulator receiver domain; Region: Response_reg; pfam00072 96561008602 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 96561008603 active site 96561008604 phosphorylation site [posttranslational modification] 96561008605 intermolecular recognition site; other site 96561008606 dimerization interface [polypeptide binding]; other site 96561008607 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 96561008608 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 96561008609 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 96561008610 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 96561008611 Soluble P-type ATPase [General function prediction only]; Region: COG4087 96561008612 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 96561008613 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 96561008614 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 96561008615 polymerase nucleotide-binding site; other site 96561008616 DNA-binding residues [nucleotide binding]; DNA binding site 96561008617 nucleotide binding site [chemical binding]; other site 96561008618 primase nucleotide-binding site [nucleotide binding]; other site 96561008619 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 96561008620 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 96561008621 active site 96561008622 DNA binding site [nucleotide binding] 96561008623 Int/Topo IB signature motif; other site 96561008624 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 96561008625 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 96561008626 non-specific DNA binding site [nucleotide binding]; other site 96561008627 salt bridge; other site 96561008628 sequence-specific DNA binding site [nucleotide binding]; other site 96561008629 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561008630 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561008631 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 96561008632 Sel1-like repeats; Region: SEL1; smart00671 96561008633 Sel1 repeat; Region: Sel1; pfam08238 96561008634 Sel1-like repeats; Region: SEL1; smart00671 96561008635 Sel1-like repeats; Region: SEL1; smart00671 96561008636 Sel1-like repeats; Region: SEL1; smart00671 96561008637 Poly (ADP-ribose) glycohydrolase (PARG); Region: PARG_cat; pfam05028 96561008638 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 96561008639 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 96561008640 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 96561008641 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 96561008642 ATP binding site [chemical binding]; other site 96561008643 putative Mg++ binding site [ion binding]; other site 96561008644 HsdM N-terminal domain; Region: HsdM_N; pfam12161 96561008645 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 96561008646 Methyltransferase domain; Region: Methyltransf_26; pfam13659 96561008647 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 96561008648 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561008649 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561008650 AAA domain; Region: AAA_21; pfam13304 96561008651 AAA domain; Region: AAA_21; pfam13304 96561008652 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 96561008653 RNA/DNA hybrid binding site [nucleotide binding]; other site 96561008654 active site 96561008655 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 96561008656 active site 96561008657 catalytic residues [active] 96561008658 DNA binding site [nucleotide binding] 96561008659 Int/Topo IB signature motif; other site 96561008660 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 96561008661 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 96561008662 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 96561008663 Walker A motif; other site 96561008664 ATP binding site [chemical binding]; other site 96561008665 Walker B motif; other site 96561008666 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 96561008667 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 96561008668 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 96561008669 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 96561008670 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 96561008671 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 96561008672 dimerization interface [polypeptide binding]; other site 96561008673 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 96561008674 putative active site [active] 96561008675 heme pocket [chemical binding]; other site 96561008676 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 96561008677 dimer interface [polypeptide binding]; other site 96561008678 phosphorylation site [posttranslational modification] 96561008679 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 96561008680 ATP binding site [chemical binding]; other site 96561008681 Mg2+ binding site [ion binding]; other site 96561008682 G-X-G motif; other site 96561008683 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96561008684 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 96561008685 active site 96561008686 phosphorylation site [posttranslational modification] 96561008687 intermolecular recognition site; other site 96561008688 dimerization interface [polypeptide binding]; other site 96561008689 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 96561008690 Walker A motif; other site 96561008691 ATP binding site [chemical binding]; other site 96561008692 Walker B motif; other site 96561008693 arginine finger; other site 96561008694 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 96561008695 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 96561008696 S-adenosylmethionine binding site [chemical binding]; other site 96561008697 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 96561008698 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 96561008699 active site 96561008700 (T/H)XGH motif; other site 96561008701 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 96561008702 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 96561008703 S-adenosylmethionine binding site [chemical binding]; other site 96561008704 Ion channel; Region: Ion_trans_2; pfam07885 96561008705 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 96561008706 TrkA-N domain; Region: TrkA_N; pfam02254 96561008707 TrkA-C domain; Region: TrkA_C; pfam02080 96561008708 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 96561008709 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 96561008710 seryl-tRNA synthetase; Provisional; Region: PRK05431 96561008711 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 96561008712 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 96561008713 dimer interface [polypeptide binding]; other site 96561008714 active site 96561008715 motif 1; other site 96561008716 motif 2; other site 96561008717 motif 3; other site 96561008718 threonine synthase; Validated; Region: PRK06260 96561008719 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 96561008720 homodimer interface [polypeptide binding]; other site 96561008721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561008722 catalytic residue [active] 96561008723 TPR repeat; Region: TPR_11; pfam13414 96561008724 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 96561008725 TPR motif; other site 96561008726 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561008727 binding surface 96561008728 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 96561008729 binding surface 96561008730 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561008731 TPR motif; other site 96561008732 CAAX protease self-immunity; Region: Abi; pfam02517 96561008733 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 96561008734 ATP-grasp domain; Region: ATP-grasp_4; cl17255 96561008735 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 96561008736 HicB family; Region: HicB; pfam05534 96561008737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 96561008738 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 96561008739 short chain dehydrogenase; Provisional; Region: PRK06181 96561008740 classical (c) SDRs; Region: SDR_c; cd05233 96561008741 NAD(P) binding site [chemical binding]; other site 96561008742 active site 96561008743 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 96561008744 DHH family; Region: DHH; pfam01368 96561008745 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 96561008746 FOG: CBS domain [General function prediction only]; Region: COG0517 96561008747 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 96561008748 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 96561008749 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 96561008750 active site 96561008751 NTP binding site [chemical binding]; other site 96561008752 metal binding triad [ion binding]; metal-binding site 96561008753 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 96561008754 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 96561008755 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 96561008756 Peptidase family M50; Region: Peptidase_M50; pfam02163 96561008757 active site 96561008758 putative substrate binding region [chemical binding]; other site 96561008759 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 96561008760 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 96561008761 active site 96561008762 HIGH motif; other site 96561008763 dimer interface [polypeptide binding]; other site 96561008764 KMSKS motif; other site 96561008765 ScpA/B protein; Region: ScpA_ScpB; cl00598 96561008766 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 96561008767 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 96561008768 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 96561008769 ligand binding site [chemical binding]; other site 96561008770 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 96561008771 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 96561008772 FeS/SAM binding site; other site 96561008773 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 96561008774 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 96561008775 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 96561008776 dimer interface [polypeptide binding]; other site 96561008777 conserved gate region; other site 96561008778 putative PBP binding loops; other site 96561008779 ABC-ATPase subunit interface; other site 96561008780 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 96561008781 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 96561008782 Walker A/P-loop; other site 96561008783 ATP binding site [chemical binding]; other site 96561008784 Q-loop/lid; other site 96561008785 ABC transporter signature motif; other site 96561008786 Walker B; other site 96561008787 D-loop; other site 96561008788 H-loop/switch region; other site 96561008789 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 96561008790 Right handed beta helix region; Region: Beta_helix; pfam13229 96561008791 Right handed beta helix region; Region: Beta_helix; pfam13229 96561008792 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 96561008793 Disaggregatase related; Region: Disaggr_assoc; pfam08480 96561008794 Transcriptional regulators [Transcription]; Region: GntR; COG1802 96561008795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 96561008796 DNA-binding site [nucleotide binding]; DNA binding site 96561008797 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 96561008798 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 96561008799 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 96561008800 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 96561008801 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 96561008802 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 96561008803 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 96561008804 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 96561008805 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 96561008806 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 96561008807 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 96561008808 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 96561008809 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 96561008810 P-loop; other site 96561008811 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 96561008812 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 96561008813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561008814 homodimer interface [polypeptide binding]; other site 96561008815 catalytic residue [active] 96561008816 cell division protein FtsZ; Validated; Region: PRK09330 96561008817 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 96561008818 nucleotide binding site [chemical binding]; other site 96561008819 SulA interaction site; other site 96561008820 cell division protein FtsA; Region: ftsA; TIGR01174 96561008821 Cell division protein FtsA; Region: FtsA; smart00842 96561008822 Cell division protein FtsA; Region: FtsA; pfam14450 96561008823 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 96561008824 Cell division protein FtsQ; Region: FtsQ; pfam03799 96561008825 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 96561008826 FAD binding domain; Region: FAD_binding_4; pfam01565 96561008827 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 96561008828 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 96561008829 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 96561008830 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 96561008831 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 96561008832 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 96561008833 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 96561008834 active site 96561008835 homodimer interface [polypeptide binding]; other site 96561008836 cell division protein FtsW; Region: ftsW; TIGR02614 96561008837 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 96561008838 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 96561008839 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 96561008840 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 96561008841 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 96561008842 Mg++ binding site [ion binding]; other site 96561008843 putative catalytic motif [active] 96561008844 putative substrate binding site [chemical binding]; other site 96561008845 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 96561008846 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 96561008847 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 96561008848 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 96561008849 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 96561008850 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 96561008851 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 96561008852 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 96561008853 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 96561008854 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 96561008855 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 96561008856 Septum formation initiator; Region: DivIC; cl17659 96561008857 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 96561008858 MraW methylase family; Region: Methyltransf_5; pfam01795 96561008859 cell division protein MraZ; Reviewed; Region: PRK00326 96561008860 MraZ protein; Region: MraZ; pfam02381 96561008861 MraZ protein; Region: MraZ; pfam02381 96561008862 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 96561008863 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 96561008864 Ligand Binding Site [chemical binding]; other site 96561008865 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 96561008866 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 96561008867 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 96561008868 active site 96561008869 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 96561008870 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 96561008871 PGAP1-like protein; Region: PGAP1; pfam07819 96561008872 GTPase RsgA; Reviewed; Region: PRK01889 96561008873 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 96561008874 GTPase/Zn-binding domain interface [polypeptide binding]; other site 96561008875 GTP/Mg2+ binding site [chemical binding]; other site 96561008876 G4 box; other site 96561008877 G5 box; other site 96561008878 G1 box; other site 96561008879 Switch I region; other site 96561008880 G2 box; other site 96561008881 G3 box; other site 96561008882 Switch II region; other site 96561008883 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 96561008884 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 96561008885 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 96561008886 motif II; other site 96561008887 Sulphur transport; Region: Sulf_transp; pfam04143 96561008888 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 96561008889 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 96561008890 active site residue [active] 96561008891 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 96561008892 active site residue [active] 96561008893 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 96561008894 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 96561008895 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96561008896 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 96561008897 active site 96561008898 phosphorylation site [posttranslational modification] 96561008899 intermolecular recognition site; other site 96561008900 dimerization interface [polypeptide binding]; other site 96561008901 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 96561008902 Walker A motif; other site 96561008903 ATP binding site [chemical binding]; other site 96561008904 Walker B motif; other site 96561008905 arginine finger; other site 96561008906 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561008907 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 96561008908 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; cl02459 96561008909 putative active site [active] 96561008910 heme pocket [chemical binding]; other site 96561008911 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 96561008912 dimer interface [polypeptide binding]; other site 96561008913 phosphorylation site [posttranslational modification] 96561008914 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 96561008915 ATP binding site [chemical binding]; other site 96561008916 Mg2+ binding site [ion binding]; other site 96561008917 G-X-G motif; other site 96561008918 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 96561008919 dimer interface [polypeptide binding]; other site 96561008920 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96561008921 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 96561008922 active site 96561008923 phosphorylation site [posttranslational modification] 96561008924 intermolecular recognition site; other site 96561008925 dimerization interface [polypeptide binding]; other site 96561008926 Response regulator receiver domain; Region: Response_reg; pfam00072 96561008927 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 96561008928 active site 96561008929 phosphorylation site [posttranslational modification] 96561008930 intermolecular recognition site; other site 96561008931 dimerization interface [polypeptide binding]; other site 96561008932 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 96561008933 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 96561008934 putative active site [active] 96561008935 heme pocket [chemical binding]; other site 96561008936 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 96561008937 dimer interface [polypeptide binding]; other site 96561008938 phosphorylation site [posttranslational modification] 96561008939 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 96561008940 ATP binding site [chemical binding]; other site 96561008941 Mg2+ binding site [ion binding]; other site 96561008942 G-X-G motif; other site 96561008943 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 96561008944 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 96561008945 putative active site [active] 96561008946 heme pocket [chemical binding]; other site 96561008947 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 96561008948 dimer interface [polypeptide binding]; other site 96561008949 phosphorylation site [posttranslational modification] 96561008950 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 96561008951 ATP binding site [chemical binding]; other site 96561008952 Mg2+ binding site [ion binding]; other site 96561008953 G-X-G motif; other site 96561008954 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 96561008955 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 96561008956 ligand binding site [chemical binding]; other site 96561008957 NAD binding site [chemical binding]; other site 96561008958 dimerization interface [polypeptide binding]; other site 96561008959 catalytic site [active] 96561008960 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 96561008961 putative L-serine binding site [chemical binding]; other site 96561008962 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 96561008963 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 96561008964 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 96561008965 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 96561008966 protein binding site [polypeptide binding]; other site 96561008967 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 96561008968 protein binding site [polypeptide binding]; other site 96561008969 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 96561008970 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 96561008971 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 96561008972 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 96561008973 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 96561008974 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96561008975 active site 96561008976 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 96561008977 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 96561008978 5S rRNA interface [nucleotide binding]; other site 96561008979 CTC domain interface [polypeptide binding]; other site 96561008980 L16 interface [polypeptide binding]; other site 96561008981 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 96561008982 putative active site [active] 96561008983 catalytic residue [active] 96561008984 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 96561008985 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 96561008986 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 96561008987 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 96561008988 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 96561008989 RNA binding surface [nucleotide binding]; other site 96561008990 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 96561008991 active site 96561008992 short chain dehydrogenase; Provisional; Region: PRK07832 96561008993 classical (c) SDRs; Region: SDR_c; cd05233 96561008994 NAD(P) binding site [chemical binding]; other site 96561008995 active site 96561008996 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96561008997 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 96561008998 4Fe-4S binding domain; Region: Fer4; pfam00037 96561008999 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 96561009000 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 96561009001 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96561009002 Predicted NADH:ubiquinone oxidoreductase, subunit RnfA [Energy production and conversion]; Region: RnfA; COG4657 96561009003 electron transport complex RsxE subunit; Provisional; Region: PRK12405 96561009004 FMN-binding domain; Region: FMN_bind; cl01081 96561009005 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 96561009006 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561009007 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 96561009008 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 96561009009 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561009010 heme-binding residues [chemical binding]; other site 96561009011 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 96561009012 N-acetyl-D-glucosamine binding site [chemical binding]; other site 96561009013 catalytic residue [active] 96561009014 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 96561009015 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 96561009016 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 96561009017 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 96561009018 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 96561009019 Walker A/P-loop; other site 96561009020 ATP binding site [chemical binding]; other site 96561009021 Q-loop/lid; other site 96561009022 ABC transporter signature motif; other site 96561009023 Walker B; other site 96561009024 D-loop; other site 96561009025 H-loop/switch region; other site 96561009026 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 96561009027 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 96561009028 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 96561009029 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 96561009030 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 96561009031 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 96561009032 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 96561009033 active site 96561009034 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 96561009035 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 96561009036 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 96561009037 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 96561009038 trimer interface [polypeptide binding]; other site 96561009039 active site 96561009040 UDP-GlcNAc binding site [chemical binding]; other site 96561009041 lipid binding site [chemical binding]; lipid-binding site 96561009042 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 96561009043 periplasmic chaperone; Provisional; Region: PRK10780 96561009044 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 96561009045 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 96561009046 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 96561009047 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 96561009048 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 96561009049 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 96561009050 Surface antigen; Region: Bac_surface_Ag; pfam01103 96561009051 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 96561009052 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 96561009053 Walker A/P-loop; other site 96561009054 ATP binding site [chemical binding]; other site 96561009055 Q-loop/lid; other site 96561009056 ABC transporter signature motif; other site 96561009057 Walker B; other site 96561009058 D-loop; other site 96561009059 H-loop/switch region; other site 96561009060 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 96561009061 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 96561009062 FtsX-like permease family; Region: FtsX; pfam02687 96561009063 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 96561009064 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 96561009065 dimer interface [polypeptide binding]; other site 96561009066 putative anticodon binding site; other site 96561009067 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 96561009068 motif 1; other site 96561009069 active site 96561009070 motif 2; other site 96561009071 motif 3; other site 96561009072 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561009073 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 96561009074 dimer interface [polypeptide binding]; other site 96561009075 phosphorylation site [posttranslational modification] 96561009076 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 96561009077 ATP binding site [chemical binding]; other site 96561009078 Mg2+ binding site [ion binding]; other site 96561009079 G-X-G motif; other site 96561009080 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 96561009081 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 96561009082 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 96561009083 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 96561009084 S-adenosylmethionine synthetase; Validated; Region: PRK05250 96561009085 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 96561009086 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 96561009087 Uncharacterized conserved protein [Function unknown]; Region: COG4198 96561009088 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 96561009089 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 96561009090 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 96561009091 ligand binding site [chemical binding]; other site 96561009092 NAD binding site [chemical binding]; other site 96561009093 dimerization interface [polypeptide binding]; other site 96561009094 catalytic site [active] 96561009095 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 96561009096 putative L-serine binding site [chemical binding]; other site 96561009097 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 96561009098 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 96561009099 substrate binding pocket [chemical binding]; other site 96561009100 dimer interface [polypeptide binding]; other site 96561009101 inhibitor binding site; inhibition site 96561009102 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 96561009103 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 96561009104 substrate binding site [chemical binding]; other site 96561009105 ATP binding site [chemical binding]; other site 96561009106 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 96561009107 Tetratricopeptide repeat; Region: TPR_6; pfam13174 96561009108 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 96561009109 Major Facilitator Superfamily; Region: MFS_1; pfam07690 96561009110 putative substrate translocation pore; other site 96561009111 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 96561009112 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 96561009113 putative acyl-acceptor binding pocket; other site 96561009114 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 96561009115 IHF - DNA interface [nucleotide binding]; other site 96561009116 IHF dimer interface [polypeptide binding]; other site 96561009117 PII uridylyl-transferase; Provisional; Region: PRK05092 96561009118 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 96561009119 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 96561009120 FeS/SAM binding site; other site 96561009121 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 96561009122 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 96561009123 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 96561009124 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 96561009125 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 96561009126 putative metal binding site [ion binding]; other site 96561009127 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 96561009128 catalytic core [active] 96561009129 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96561009130 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 96561009131 substrate binding site [chemical binding]; other site 96561009132 oxyanion hole (OAH) forming residues; other site 96561009133 trimer interface [polypeptide binding]; other site 96561009134 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 96561009135 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 96561009136 FMN binding site [chemical binding]; other site 96561009137 active site 96561009138 catalytic residues [active] 96561009139 substrate binding site [chemical binding]; other site 96561009140 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 96561009141 Protein of unknown function (DUF983); Region: DUF983; cl02211 96561009142 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 96561009143 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 96561009144 non-heme iron binding site [ion binding]; other site 96561009145 dimer interface [polypeptide binding]; other site 96561009146 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 96561009147 non-heme iron binding site [ion binding]; other site 96561009148 dimer interface [polypeptide binding]; other site 96561009149 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 96561009150 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 96561009151 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 96561009152 Peptidase M16C associated; Region: M16C_assoc; pfam08367 96561009153 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 96561009154 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561009155 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 96561009156 FeS/SAM binding site; other site 96561009157 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 96561009158 active site 96561009159 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 96561009160 hybrid cluster protein; Provisional; Region: PRK05290 96561009161 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561009162 ACS interaction site; other site 96561009163 CODH interaction site; other site 96561009164 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561009165 ACS interaction site; other site 96561009166 CODH interaction site; other site 96561009167 metal cluster binding site [ion binding]; other site 96561009168 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 96561009169 putative DNA binding site [nucleotide binding]; other site 96561009170 dimerization interface [polypeptide binding]; other site 96561009171 putative Zn2+ binding site [ion binding]; other site 96561009172 Predicted permease; Region: DUF318; cl17795 96561009173 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 96561009174 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 96561009175 Putative Fe-S cluster; Region: FeS; cl17515 96561009176 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 96561009177 Low molecular weight phosphatase family; Region: LMWPc; cd00115 96561009178 active site 96561009179 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 96561009180 Sodium Bile acid symporter family; Region: SBF; cl17470 96561009181 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 96561009182 active site residue [active] 96561009183 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 96561009184 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 96561009185 Methylamine utilisation protein MauE; Region: MauE; pfam07291 96561009186 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 96561009187 catalytic residues [active] 96561009188 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 96561009189 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 96561009190 Flagellin N-methylase; Region: FliB; pfam03692 96561009191 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 96561009192 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 96561009193 non-specific DNA binding site [nucleotide binding]; other site 96561009194 salt bridge; other site 96561009195 sequence-specific DNA binding site [nucleotide binding]; other site 96561009196 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 96561009197 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 96561009198 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561009199 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561009200 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 96561009201 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 96561009202 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 96561009203 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 96561009204 HlyD family secretion protein; Region: HlyD_3; pfam13437 96561009205 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 96561009206 Protein export membrane protein; Region: SecD_SecF; cl14618 96561009207 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 96561009208 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; cl00248 96561009209 substrate binding site [chemical binding]; other site 96561009210 dimerization interface [polypeptide binding]; other site 96561009211 active site 96561009212 calcium binding site [ion binding]; other site 96561009213 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 96561009214 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561009215 Caspase domain; Region: Peptidase_C14; pfam00656 96561009216 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 96561009217 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561009218 Caspase domain; Region: Peptidase_C14; pfam00656 96561009219 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 96561009220 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 96561009221 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 96561009222 Caspase domain; Region: Peptidase_C14; pfam00656 96561009223 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 96561009224 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 96561009225 nucleoside/Zn binding site; other site 96561009226 dimer interface [polypeptide binding]; other site 96561009227 catalytic motif [active] 96561009228 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561009229 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 96561009230 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 96561009231 active site 96561009232 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561009233 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561009234 active site 96561009235 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 96561009236 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96561009237 integrase; Provisional; Region: int; PHA02601 96561009238 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 96561009239 active site 96561009240 catalytic residues [active] 96561009241 DNA binding site [nucleotide binding] 96561009242 Int/Topo IB signature motif; other site 96561009243 D5 N terminal like; Region: D5_N; smart00885 96561009244 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 96561009245 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 96561009246 MPN+ (JAMM) motif; other site 96561009247 Zinc-binding site [ion binding]; other site 96561009248 Domain of unknown function (DUF932); Region: DUF932; cl12129 96561009249 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 96561009250 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 96561009251 Part of AAA domain; Region: AAA_19; pfam13245 96561009252 Family description; Region: UvrD_C_2; pfam13538 96561009253 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 96561009254 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 96561009255 SWIM zinc finger; Region: SWIM; pfam04434 96561009256 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 96561009257 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 96561009258 dimer interface [polypeptide binding]; other site 96561009259 ssDNA binding site [nucleotide binding]; other site 96561009260 tetramer (dimer of dimers) interface [polypeptide binding]; other site 96561009261 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 96561009262 HsdM N-terminal domain; Region: HsdM_N; pfam12161 96561009263 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 96561009264 Methyltransferase domain; Region: Methyltransf_26; pfam13659 96561009265 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 96561009266 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 96561009267 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 96561009268 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 96561009269 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 96561009270 ATP binding site [chemical binding]; other site 96561009271 putative Mg++ binding site [ion binding]; other site 96561009272 Protein of unknown function DUF45; Region: DUF45; pfam01863 96561009273 Staphylococcal nuclease homologues; Region: SNc; smart00318 96561009274 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 96561009275 Catalytic site; other site 96561009276 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 96561009277 SEC-C motif; Region: SEC-C; pfam02810 96561009278 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 96561009279 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 96561009280 PQ loop repeat; Region: PQ-loop; pfam04193 96561009281 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 96561009282 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 96561009283 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 96561009284 Uncharacterized proteins similar to Bacteroides ovatus 4320; Region: Bacova_04320_like; cd12190 96561009285 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 96561009286 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 96561009287 active site 96561009288 catalytic residues [active] 96561009289 DNA binding site [nucleotide binding] 96561009290 Int/Topo IB signature motif; other site 96561009291 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 96561009292 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 96561009293 Walker A motif; other site 96561009294 ATP binding site [chemical binding]; other site 96561009295 Walker B motif; other site 96561009296 arginine finger; other site 96561009297 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 96561009298 Helix-turn-helix domain; Region: HTH_18; pfam12833 96561009299 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 96561009300 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 96561009301 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561009302 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 96561009303 B12 binding site [chemical binding]; other site 96561009304 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 96561009305 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 96561009306 putative active site [active] 96561009307 PhoH-like protein; Region: PhoH; pfam02562 96561009308 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 96561009309 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 96561009310 B12 binding domain; Region: B12-binding_2; pfam02607 96561009311 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 96561009312 B12 binding site [chemical binding]; other site 96561009313 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561009314 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561009315 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 96561009316 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 96561009317 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 96561009318 catalytic residues [active] 96561009319 Nitroreductase-like family 1. 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_1; cd02137 96561009320 dimer interface [polypeptide binding]; other site 96561009321 FMN binding site [chemical binding]; other site 96561009322 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 96561009323 putative acyl-acceptor binding pocket; other site 96561009324 Peptidase family M48; Region: Peptidase_M48; cl12018 96561009325 TPR repeat; Region: TPR_11; pfam13414 96561009326 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 96561009327 binding surface 96561009328 TPR motif; other site 96561009329 TPR repeat; Region: TPR_11; pfam13414 96561009330 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 96561009331 Walker A motif; other site 96561009332 ATP binding site [chemical binding]; other site 96561009333 Walker B motif; other site 96561009334 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 96561009335 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561009336 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561009337 WHG domain; Region: WHG; pfam13305 96561009338 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 96561009339 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 96561009340 N- and C-terminal domain interface [polypeptide binding]; other site 96561009341 active site 96561009342 MgATP binding site [chemical binding]; other site 96561009343 catalytic site [active] 96561009344 metal binding site [ion binding]; metal-binding site 96561009345 xylulose binding site [chemical binding]; other site 96561009346 putative homodimer interface [polypeptide binding]; other site 96561009347 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 96561009348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 96561009349 AAA domain; Region: AAA_14; pfam13173 96561009350 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 96561009351 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 96561009352 camphor resistance protein CrcB; Provisional; Region: PRK14212 96561009353 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 96561009354 FOG: CBS domain [General function prediction only]; Region: COG0517 96561009355 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 96561009356 FOG: CBS domain [General function prediction only]; Region: COG0517 96561009357 FOG: CBS domain [General function prediction only]; Region: COG0517 96561009358 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 96561009359 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 96561009360 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 96561009361 non-specific DNA binding site [nucleotide binding]; other site 96561009362 salt bridge; other site 96561009363 sequence-specific DNA binding site [nucleotide binding]; other site 96561009364 Domain of unknown function (DUF955); Region: DUF955; cl01076 96561009365 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 96561009366 nucleotide binding site [chemical binding]; other site 96561009367 putative NEF/HSP70 interaction site [polypeptide binding]; other site 96561009368 SBD interface [polypeptide binding]; other site 96561009369 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 96561009370 binding surface 96561009371 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561009372 TPR motif; other site 96561009373 Tetratricopeptide repeat; Region: TPR_16; pfam13432 96561009374 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561009375 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 96561009376 binding surface 96561009377 TPR motif; other site 96561009378 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 96561009379 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 96561009380 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 96561009381 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 96561009382 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 96561009383 CT1975-like protein; Region: Cas_CT1975; pfam09344 96561009384 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 96561009385 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 96561009386 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 96561009387 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 96561009388 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 96561009389 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 96561009390 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 96561009391 phosphopeptide binding site; other site 96561009392 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 96561009393 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 96561009394 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 96561009395 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 96561009396 active site 96561009397 nucleophile elbow; other site 96561009398 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 96561009399 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 96561009400 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 96561009401 GIY-YIG motif/motif A; other site 96561009402 putative active site [active] 96561009403 putative metal binding site [ion binding]; other site 96561009404 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 96561009405 B12 binding domain; Region: B12-binding; pfam02310 96561009406 B12 binding site [chemical binding]; other site 96561009407 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561009408 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; cl15377 96561009409 FeS/SAM binding site; other site 96561009410 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 96561009411 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 96561009412 D-galactonate transporter; Region: 2A0114; TIGR00893 96561009413 putative substrate translocation pore; other site 96561009414 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 96561009415 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 96561009416 putative acyl-acceptor binding pocket; other site 96561009417 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 96561009418 nucleoside/Zn binding site; other site 96561009419 dimer interface [polypeptide binding]; other site 96561009420 catalytic motif [active] 96561009421 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 96561009422 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; cl00859 96561009423 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 96561009424 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 96561009425 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 96561009426 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561009427 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561009428 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 96561009429 acyl-activating enzyme (AAE) consensus motif; other site 96561009430 acyl-activating enzyme (AAE) consensus motif; other site 96561009431 putative AMP binding site [chemical binding]; other site 96561009432 putative active site [active] 96561009433 putative CoA binding site [chemical binding]; other site 96561009434 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 96561009435 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 96561009436 Walker A/P-loop; other site 96561009437 ATP binding site [chemical binding]; other site 96561009438 Q-loop/lid; other site 96561009439 ABC transporter signature motif; other site 96561009440 Walker B; other site 96561009441 D-loop; other site 96561009442 H-loop/switch region; other site 96561009443 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 96561009444 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 96561009445 Walker A/P-loop; other site 96561009446 ATP binding site [chemical binding]; other site 96561009447 Q-loop/lid; other site 96561009448 ABC transporter signature motif; other site 96561009449 Walker B; other site 96561009450 D-loop; other site 96561009451 H-loop/switch region; other site 96561009452 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 96561009453 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 96561009454 putative ligand binding site [chemical binding]; other site 96561009455 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 96561009456 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 96561009457 TM-ABC transporter signature motif; other site 96561009458 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 96561009459 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 96561009460 TM-ABC transporter signature motif; other site 96561009461 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 96561009462 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 96561009463 oligomer interface [polypeptide binding]; other site 96561009464 metal binding site [ion binding]; metal-binding site 96561009465 metal binding site [ion binding]; metal-binding site 96561009466 Cl binding site [ion binding]; other site 96561009467 aspartate ring; other site 96561009468 basic sphincter; other site 96561009469 putative hydrophobic gate; other site 96561009470 periplasmic entrance; other site 96561009471 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 96561009472 Mechanosensitive ion channel; Region: MS_channel; pfam00924 96561009473 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 96561009474 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 96561009475 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 96561009476 Mechanosensitive ion channel; Region: MS_channel; pfam00924 96561009477 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 96561009478 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 96561009479 FeS/SAM binding site; other site 96561009480 HemN C-terminal domain; Region: HemN_C; pfam06969 96561009481 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 96561009482 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 96561009483 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 96561009484 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 96561009485 TPP-binding site [chemical binding]; other site 96561009486 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 96561009487 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 96561009488 dimer interface [polypeptide binding]; other site 96561009489 PYR/PP interface [polypeptide binding]; other site 96561009490 TPP binding site [chemical binding]; other site 96561009491 substrate binding site [chemical binding]; other site 96561009492 Ferredoxin [Energy production and conversion]; Region: COG1146 96561009493 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561009494 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 96561009495 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; cl15377 96561009496 FeS/SAM binding site; other site 96561009497 Fibronectin type 3 domain; Region: FN3; smart00060 96561009498 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 96561009499 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 96561009500 binding surface 96561009501 TPR motif; other site 96561009502 TPR repeat; Region: TPR_11; pfam13414 96561009503 Tetratricopeptide repeat; Region: TPR_6; pfam13174 96561009504 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 96561009505 substrate binding site [chemical binding]; other site 96561009506 activation loop (A-loop); other site 96561009507 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 96561009508 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 96561009509 trimer interface [polypeptide binding]; other site 96561009510 active site 96561009511 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 96561009512 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 96561009513 RNase E interface [polypeptide binding]; other site 96561009514 trimer interface [polypeptide binding]; other site 96561009515 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 96561009516 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 96561009517 RNase E interface [polypeptide binding]; other site 96561009518 trimer interface [polypeptide binding]; other site 96561009519 active site 96561009520 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 96561009521 putative nucleic acid binding region [nucleotide binding]; other site 96561009522 G-X-X-G motif; other site 96561009523 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 96561009524 RNA binding site [nucleotide binding]; other site 96561009525 domain interface; other site 96561009526 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 96561009527 16S/18S rRNA binding site [nucleotide binding]; other site 96561009528 S13e-L30e interaction site [polypeptide binding]; other site 96561009529 25S rRNA binding site [nucleotide binding]; other site 96561009530 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 96561009531 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 96561009532 RNA binding site [nucleotide binding]; other site 96561009533 active site 96561009534 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 96561009535 DHH family; Region: DHH; pfam01368 96561009536 Ribosome-binding factor A; Region: RBFA; pfam02033 96561009537 Protein of unknown function (DUF503); Region: DUF503; pfam04456 96561009538 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 96561009539 translation initiation factor IF-2; Region: IF-2; TIGR00487 96561009540 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 96561009541 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 96561009542 G1 box; other site 96561009543 putative GEF interaction site [polypeptide binding]; other site 96561009544 GTP/Mg2+ binding site [chemical binding]; other site 96561009545 Switch I region; other site 96561009546 G2 box; other site 96561009547 G3 box; other site 96561009548 Switch II region; other site 96561009549 G4 box; other site 96561009550 G5 box; other site 96561009551 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 96561009552 Translation-initiation factor 2; Region: IF-2; pfam11987 96561009553 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 96561009554 NusA N-terminal domain; Region: NusA_N; pfam08529 96561009555 transcription termination factor NusA; Region: NusA; TIGR01953 96561009556 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 96561009557 RNA binding site [nucleotide binding]; other site 96561009558 homodimer interface [polypeptide binding]; other site 96561009559 NusA-like KH domain; Region: KH_5; pfam13184 96561009560 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 96561009561 G-X-X-G motif; other site 96561009562 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 96561009563 ribosome maturation protein RimP; Reviewed; Region: PRK00092 96561009564 Sm and related proteins; Region: Sm_like; cl00259 96561009565 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 96561009566 putative oligomer interface [polypeptide binding]; other site 96561009567 putative RNA binding site [nucleotide binding]; other site 96561009568 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 96561009569 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 96561009570 DNA binding residues [nucleotide binding] 96561009571 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 96561009572 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 96561009573 putative tRNA-binding site [nucleotide binding]; other site 96561009574 B3/4 domain; Region: B3_4; pfam03483 96561009575 tRNA synthetase B5 domain; Region: B5; pfam03484 96561009576 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 96561009577 dimer interface [polypeptide binding]; other site 96561009578 motif 1; other site 96561009579 motif 3; other site 96561009580 motif 2; other site 96561009581 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 96561009582 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 96561009583 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 96561009584 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 96561009585 dimer interface [polypeptide binding]; other site 96561009586 motif 1; other site 96561009587 active site 96561009588 motif 2; other site 96561009589 motif 3; other site 96561009590 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 96561009591 23S rRNA binding site [nucleotide binding]; other site 96561009592 L21 binding site [polypeptide binding]; other site 96561009593 L13 binding site [polypeptide binding]; other site 96561009594 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 96561009595 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 96561009596 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 96561009597 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 96561009598 FtsH Extracellular; Region: FtsH_ext; pfam06480 96561009599 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 96561009600 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 96561009601 Walker A motif; other site 96561009602 ATP binding site [chemical binding]; other site 96561009603 Walker B motif; other site 96561009604 arginine finger; other site 96561009605 Peptidase family M41; Region: Peptidase_M41; pfam01434 96561009606 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 96561009607 dihydropteroate synthase; Region: DHPS; TIGR01496 96561009608 substrate binding pocket [chemical binding]; other site 96561009609 dimer interface [polypeptide binding]; other site 96561009610 inhibitor binding site; inhibition site 96561009611 pantothenate kinase; Reviewed; Region: PRK13318 96561009612 TIR domain; Region: TIR_2; pfam13676 96561009613 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 96561009614 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 96561009615 FMN binding site [chemical binding]; other site 96561009616 dimer interface [polypeptide binding]; other site 96561009617 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 96561009618 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 96561009619 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 96561009620 ATP binding site [chemical binding]; other site 96561009621 Walker B motif; other site 96561009622 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 96561009623 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 96561009624 Walker A motif; other site 96561009625 ATP binding site [chemical binding]; other site 96561009626 Walker B motif; other site 96561009627 YGGT family; Region: YGGT; pfam02325 96561009628 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 96561009629 dinuclear metal binding motif [ion binding]; other site 96561009630 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 96561009631 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 96561009632 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 96561009633 FeS/SAM binding site; other site 96561009634 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 96561009635 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 96561009636 Potassium binding sites [ion binding]; other site 96561009637 Cesium cation binding sites [ion binding]; other site 96561009638 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 96561009639 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 96561009640 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 96561009641 catalytic residue [active] 96561009642 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 96561009643 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 96561009644 diphthine synthase; Region: dph5; TIGR00522 96561009645 active site 96561009646 SAM binding site [chemical binding]; other site 96561009647 homodimer interface [polypeptide binding]; other site 96561009648 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 96561009649 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 96561009650 active site 96561009651 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 96561009652 CoA binding domain; Region: CoA_binding_2; pfam13380 96561009653 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 96561009654 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 96561009655 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 96561009656 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 96561009657 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 96561009658 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 96561009659 DNA-binding site [nucleotide binding]; DNA binding site 96561009660 RNA-binding motif; other site 96561009661 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 96561009662 putative hydrophobic ligand binding site [chemical binding]; other site 96561009663 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 96561009664 TIGR01777 family protein; Region: yfcH 96561009665 putative NAD(P) binding site [chemical binding]; other site 96561009666 putative active site [active] 96561009667 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 96561009668 PAS domain; Region: PAS_9; pfam13426 96561009669 putative active site [active] 96561009670 heme pocket [chemical binding]; other site 96561009671 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96561009672 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 96561009673 Walker A motif; other site 96561009674 ATP binding site [chemical binding]; other site 96561009675 Walker B motif; other site 96561009676 arginine finger; other site 96561009677 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561009678 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 96561009679 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 96561009680 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 96561009681 catalytic residues [active] 96561009682 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 96561009683 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 96561009684 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 96561009685 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 96561009686 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 96561009687 Methyltransferase domain; Region: Methyltransf_26; pfam13659 96561009688 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96561009689 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 96561009690 DctM-like transporters; Region: DctM; pfam06808 96561009691 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 96561009692 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 96561009693 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96561009694 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 96561009695 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 96561009696 hydrophobic ligand binding site; other site 96561009697 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 96561009698 Ligand Binding Site [chemical binding]; other site 96561009699 Short C-terminal domain; Region: SHOCT; pfam09851 96561009700 Tic20-like protein; Region: Tic20; pfam09685 96561009701 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96561009702 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 96561009703 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 96561009704 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 96561009705 Putative transposase; Region: Y2_Tnp; pfam04986 96561009706 SprT-like family; Region: SprT-like; pfam10263 96561009707 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 96561009708 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 96561009709 Methyltransferase domain; Region: Methyltransf_26; pfam13659 96561009710 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 96561009711 Transposase domain (DUF772); Region: DUF772; pfam05598 96561009712 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 96561009713 DDE superfamily endonuclease; Region: DDE_4; cl17710 96561009714 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 96561009715 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 96561009716 putative [Fe4-S4] binding site [ion binding]; other site 96561009717 putative molybdopterin cofactor binding site [chemical binding]; other site 96561009718 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 96561009719 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 96561009720 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 96561009721 putative molybdopterin cofactor binding site; other site 96561009722 Nitroreductase family; Region: Nitroreductase; pfam00881 96561009723 FMN binding site [chemical binding]; other site 96561009724 dimer interface [polypeptide binding]; other site 96561009725 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 96561009726 dimer interface [polypeptide binding]; other site 96561009727 Dihaem cytochrome c; Region: DHC; pfam09626 96561009728 MarC family integral membrane protein; Region: MarC; pfam01914 96561009729 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 96561009730 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 96561009731 Domain of unknown function (DUF955); Region: DUF955; cl01076 96561009732 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 96561009733 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 96561009734 catalytic loop [active] 96561009735 iron binding site [ion binding]; other site 96561009736 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 96561009737 nucleotide binding site [chemical binding]; other site 96561009738 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 96561009739 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 96561009740 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96561009741 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 96561009742 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561009743 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561009744 active site 96561009745 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561009746 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561009747 active site 96561009748 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 96561009749 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 96561009750 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 96561009751 putative lipid binding site [chemical binding]; other site 96561009752 SCP-2 sterol transfer family; Region: SCP2; pfam02036 96561009753 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 96561009754 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 96561009755 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 96561009756 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 96561009757 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 96561009758 shikimate binding site; other site 96561009759 NAD(P) binding site [chemical binding]; other site 96561009760 shikimate kinase; Reviewed; Region: aroK; PRK00131 96561009761 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 96561009762 ADP binding site [chemical binding]; other site 96561009763 magnesium binding site [ion binding]; other site 96561009764 putative shikimate binding site; other site 96561009765 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 96561009766 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 96561009767 TPR motif; other site 96561009768 Tetratricopeptide repeat; Region: TPR_12; pfam13424 96561009769 binding surface 96561009770 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 96561009771 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 96561009772 Ligand binding site; other site 96561009773 Putative Catalytic site; other site 96561009774 DXD motif; other site 96561009775 TPR repeat; Region: TPR_11; pfam13414 96561009776 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 96561009777 binding surface 96561009778 TPR motif; other site 96561009779 TPR repeat; Region: TPR_11; pfam13414 96561009780 TPR repeat; Region: TPR_11; pfam13414 96561009781 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 96561009782 binding surface 96561009783 TPR motif; other site 96561009784 TPR repeat; Region: TPR_11; pfam13414 96561009785 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 96561009786 binding surface 96561009787 TPR motif; other site 96561009788 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 96561009789 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 96561009790 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 96561009791 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 96561009792 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 96561009793 Ligand binding site; other site 96561009794 Putative Catalytic site; other site 96561009795 DXD motif; other site 96561009796 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561009797 4Fe-4S binding domain; Region: Fer4; pfam00037 96561009798 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 96561009799 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 para-rossmann type of...; Region: vWFA; cl00057 96561009800 MoxR-like ATPases [General function prediction only]; Region: COG0714 96561009801 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561009802 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 96561009803 active site 96561009804 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 96561009805 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 96561009806 substrate binding site [chemical binding]; other site 96561009807 oxyanion hole (OAH) forming residues; other site 96561009808 trimer interface [polypeptide binding]; other site 96561009809 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 96561009810 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 96561009811 Walker A motif; other site 96561009812 ATP binding site [chemical binding]; other site 96561009813 Walker B motif; other site 96561009814 arginine finger; other site 96561009815 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 96561009816 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 96561009817 GAF domain; Region: GAF_3; pfam13492 96561009818 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 96561009819 Walker A motif; other site 96561009820 ATP binding site [chemical binding]; other site 96561009821 Walker B motif; other site 96561009822 arginine finger; other site 96561009823 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 96561009824 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 96561009825 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 96561009826 putative active site [active] 96561009827 catalytic triad [active] 96561009828 putative dimer interface [polypeptide binding]; other site 96561009829 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 96561009830 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 96561009831 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 96561009832 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 96561009833 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 96561009834 Walker A motif; other site 96561009835 ATP binding site [chemical binding]; other site 96561009836 Walker B motif; other site 96561009837 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 96561009838 arginine finger; other site 96561009839 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 96561009840 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 96561009841 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 96561009842 metal ion-dependent adhesion site (MIDAS); other site 96561009843 MoxR-like ATPases [General function prediction only]; Region: COG0714 96561009844 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 96561009845 Walker A motif; other site 96561009846 ATP binding site [chemical binding]; other site 96561009847 Walker B motif; other site 96561009848 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 96561009849 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; cd09881 96561009850 oligomeric interface; other site 96561009851 putative active site [active] 96561009852 homodimer interface [polypeptide binding]; other site 96561009853 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 96561009854 AAA domain; Region: AAA_14; pfam13173 96561009855 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 96561009856 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 96561009857 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 96561009858 S-adenosylmethionine binding site [chemical binding]; other site 96561009859 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 96561009860 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 96561009861 DNA binding residues [nucleotide binding] 96561009862 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 96561009863 GAF domain; Region: GAF; pfam01590 96561009864 GAF domain; Region: GAF_2; pfam13185 96561009865 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561009866 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 96561009867 ATP binding site [chemical binding]; other site 96561009868 Mg2+ binding site [ion binding]; other site 96561009869 G-X-G motif; other site 96561009870 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 96561009871 generic binding surface II; other site 96561009872 generic binding surface I; other site 96561009873 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 96561009874 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 96561009875 DNA binding site [nucleotide binding] 96561009876 active site 96561009877 Int/Topo IB signature motif; other site 96561009878 catalytic residues [active] 96561009879 DctM-like transporters; Region: DctM; pfam06808 96561009880 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 96561009881 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 96561009882 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 96561009883 3-isopropylmalate dehydratase small subunit [Amino acid transport and metabolism]; Region: LeuD; COG0066 96561009884 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 96561009885 substrate binding site [chemical binding]; other site 96561009886 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 96561009887 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 96561009888 substrate binding site [chemical binding]; other site 96561009889 ligand binding site [chemical binding]; other site 96561009890 diaminopimelate epimerase; Provisional; Region: PRK13577 96561009891 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 96561009892 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 96561009893 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 96561009894 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 96561009895 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 96561009896 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 96561009897 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 96561009898 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 96561009899 active site 96561009900 Zn binding site [ion binding]; other site 96561009901 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 96561009902 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 96561009903 motif 1; other site 96561009904 dimer interface [polypeptide binding]; other site 96561009905 active site 96561009906 motif 2; other site 96561009907 motif 3; other site 96561009908 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 96561009909 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 96561009910 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 96561009911 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 96561009912 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 96561009913 putative active site [active] 96561009914 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 96561009915 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 96561009916 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 96561009917 heme-binding residues [chemical binding]; other site 96561009918 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 96561009919 twin arginine translocase protein A; Provisional; Region: tatA; PRK14858 96561009920 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 96561009921 trimer interface [polypeptide binding]; other site 96561009922 dimer interface [polypeptide binding]; other site 96561009923 putative active site [active] 96561009924 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; cl00399 96561009925 MoaD interaction [polypeptide binding]; other site 96561009926 active site residues [active] 96561009927 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 96561009928 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 96561009929 GTP binding site; other site 96561009930 PilZ domain; Region: PilZ; pfam07238 96561009931 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96561009932 active site 96561009933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 96561009934 Coenzyme A binding pocket [chemical binding]; other site 96561009935 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 96561009936 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 96561009937 active site 96561009938 Zn binding site [ion binding]; other site 96561009939 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 96561009940 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 96561009941 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 96561009942 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 96561009943 TrkA-N domain; Region: TrkA_N; pfam02254 96561009944 TrkA-C domain; Region: TrkA_C; pfam02080 96561009945 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 96561009946 active site 96561009947 phosphorylation site [posttranslational modification] 96561009948 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 96561009949 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 96561009950 Cl- selectivity filter; other site 96561009951 Cl- binding residues [ion binding]; other site 96561009952 pore gating glutamate residue; other site 96561009953 dimer interface [polypeptide binding]; other site 96561009954 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 96561009955 TrkA-C domain; Region: TrkA_C; pfam02080 96561009956 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 96561009957 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 96561009958 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 96561009959 substrate binding pocket [chemical binding]; other site 96561009960 dimer interface [polypeptide binding]; other site 96561009961 inhibitor binding site; inhibition site 96561009962 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 96561009963 Putative Fe-S cluster; Region: FeS; pfam04060 96561009964 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 96561009965 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 96561009966 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561009967 ACS interaction site; other site 96561009968 CODH interaction site; other site 96561009969 metal cluster binding site [ion binding]; other site 96561009970 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 96561009971 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 96561009972 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 96561009973 ACS interaction site; other site 96561009974 CODH interaction site; other site 96561009975 metal cluster binding site [ion binding]; other site 96561009976 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 96561009977 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 96561009978 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 96561009979 putative active site; other site 96561009980 catalytic residue [active] 96561009981 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 96561009982 FeS/SAM binding site; other site 96561009983 Radical SAM superfamily; Region: Radical_SAM; pfam04055 96561009984 Methyltransferase domain; Region: Methyltransf_31; pfam13847 96561009985 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 96561009986 S-adenosylmethionine binding site [chemical binding]; other site 96561009987 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 96561009988 Serine hydrolase; Region: Ser_hydrolase; cl17834 96561009989 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 96561009990 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 96561009991 catalytic site [active] 96561009992 putative active site [active] 96561009993 putative substrate binding site [chemical binding]; other site 96561009994 HRDC domain; Region: HRDC; pfam00570 96561009995 HRDC domain; Region: HRDC; pfam00570 96561009996 CHASE3 domain; Region: CHASE3; cl05000 96561009997 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 96561009998 dimerization interface [polypeptide binding]; other site 96561009999 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 96561010000 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 96561010001 metal binding site [ion binding]; metal-binding site 96561010002 active site 96561010003 I-site; other site 96561010004 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 96561010005 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 96561010006 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 96561010007 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 96561010008 active site 96561010009 dimer interface [polypeptide binding]; other site 96561010010 motif 1; other site 96561010011 motif 2; other site 96561010012 motif 3; other site 96561010013 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 96561010014 anticodon binding site; other site 96561010015 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 96561010016 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 96561010017 active site 96561010018 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 96561010019 MPT binding site; other site 96561010020 trimer interface [polypeptide binding]; other site 96561010021 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 96561010022 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 96561010023 acyl-activating enzyme (AAE) consensus motif; other site 96561010024 AMP binding site [chemical binding]; other site 96561010025 active site 96561010026 CoA binding site [chemical binding]; other site 96561010027 glucosamine-fructose-6-phosphate aminotransferase; Provisional; Region: PTZ00394 96561010028 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 96561010029 active site 96561010030 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 96561010031 dimer interface [polypeptide binding]; other site 96561010032 active site 96561010033 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 96561010034 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 96561010035 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 96561010036 active site 96561010037 NAD binding site [chemical binding]; other site 96561010038 metal binding site [ion binding]; metal-binding site 96561010039 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 96561010040 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 96561010041 inhibitor-cofactor binding pocket; inhibition site 96561010042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561010043 catalytic residue [active] 96561010044 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 96561010045 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 96561010046 active site 96561010047 HIGH motif; other site 96561010048 KMSKS motif; other site 96561010049 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 96561010050 tRNA binding surface [nucleotide binding]; other site 96561010051 anticodon binding site; other site 96561010052 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 96561010053 dimer interface [polypeptide binding]; other site 96561010054 putative tRNA-binding site [nucleotide binding]; other site 96561010055 PSP1 C-terminal conserved region; Region: PSP1; cl00770 96561010056 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 96561010057 DNA polymerase III subunit delta'; Validated; Region: PRK08485 96561010058 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 96561010059 IHF dimer interface [polypeptide binding]; other site 96561010060 IHF - DNA interface [nucleotide binding]; other site 96561010061 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 96561010062 Organic solvent tolerance protein; Region: OstA_C; pfam04453 96561010063 RmuC family; Region: RmuC; pfam02646 96561010064 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 96561010065 UbiA prenyltransferase family; Region: UbiA; pfam01040 96561010066 aromatic acid decarboxylase; Validated; Region: PRK05920 96561010067 Flavoprotein; Region: Flavoprotein; pfam02441 96561010068 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 96561010069 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 96561010070 PilZ domain; Region: PilZ; pfam07238 96561010071 Sporulation related domain; Region: SPOR; pfam05036 96561010072 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 96561010073 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 96561010074 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 96561010075 active site 96561010076 HIGH motif; other site 96561010077 KMSK motif region; other site 96561010078 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 96561010079 tRNA binding surface [nucleotide binding]; other site 96561010080 anticodon binding site; other site 96561010081 Cation transport protein; Region: TrkH; cl17365 96561010082 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 96561010083 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 96561010084 TrkA-N domain; Region: TrkA_N; pfam02254 96561010085 TrkA-C domain; Region: TrkA_C; pfam02080 96561010086 TrkA-N domain; Region: TrkA_N; pfam02254 96561010087 TrkA-C domain; Region: TrkA_C; pfam02080 96561010088 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 96561010089 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 96561010090 trimer interface [polypeptide binding]; other site 96561010091 active site 96561010092 substrate binding site [chemical binding]; other site 96561010093 CoA binding site [chemical binding]; other site 96561010094 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 96561010095 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 96561010096 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 96561010097 homodimer interface [polypeptide binding]; other site 96561010098 substrate-cofactor binding pocket; other site 96561010099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 96561010100 catalytic residue [active] 96561010101 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 96561010102 histidinol dehydrogenase; Region: hisD; TIGR00069 96561010103 NAD binding site [chemical binding]; other site 96561010104 dimerization interface [polypeptide binding]; other site 96561010105 product binding site; other site 96561010106 substrate binding site [chemical binding]; other site 96561010107 zinc binding site [ion binding]; other site 96561010108 catalytic residues [active] 96561010109 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 96561010110 dimer interface [polypeptide binding]; other site 96561010111 phosphorylation site [posttranslational modification] 96561010112 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 96561010113 ATP binding site [chemical binding]; other site 96561010114 Mg2+ binding site [ion binding]; other site 96561010115 G-X-G motif; other site 96561010116 Response regulator receiver domain; Region: Response_reg; pfam00072 96561010117 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 96561010118 active site 96561010119 phosphorylation site [posttranslational modification] 96561010120 intermolecular recognition site; other site 96561010121 dimerization interface [polypeptide binding]; other site 96561010122 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 96561010123 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 96561010124 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 96561010125 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 96561010126 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 96561010127 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 96561010128 Walker A/P-loop; other site 96561010129 ATP binding site [chemical binding]; other site 96561010130 Q-loop/lid; other site 96561010131 ABC transporter signature motif; other site 96561010132 Walker B; other site 96561010133 D-loop; other site 96561010134 H-loop/switch region; other site 96561010135 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 96561010136 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 96561010137 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 96561010138 Walker A/P-loop; other site 96561010139 ATP binding site [chemical binding]; other site 96561010140 Q-loop/lid; other site 96561010141 ABC transporter signature motif; other site 96561010142 Walker B; other site 96561010143 D-loop; other site 96561010144 H-loop/switch region; other site 96561010145 NAD-dependent deacetylase; Provisional; Region: PRK00481 96561010146 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 96561010147 NAD+ binding site [chemical binding]; other site 96561010148 substrate binding site [chemical binding]; other site 96561010149 Zn binding site [ion binding]; other site 96561010150 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 96561010151 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 96561010152 substrate binding pocket [chemical binding]; other site 96561010153 chain length determination region; other site 96561010154 substrate-Mg2+ binding site; other site 96561010155 catalytic residues [active] 96561010156 aspartate-rich region 1; other site 96561010157 active site lid residues [active] 96561010158 aspartate-rich region 2; other site 96561010159 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 96561010160 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 96561010161 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 96561010162 FeS/SAM binding site; other site 96561010163 TRAM domain; Region: TRAM; cl01282 96561010164 enoyl-CoA hydratase; Provisional; Region: PRK06142 96561010165 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 96561010166 substrate binding site [chemical binding]; other site 96561010167 oxyanion hole (OAH) forming residues; other site 96561010168 trimer interface [polypeptide binding]; other site 96561010169 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 96561010170 ApbE family; Region: ApbE; pfam02424 96561010171 Predicted amidohydrolase [General function prediction only]; Region: COG0388 96561010172 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 96561010173 active site 96561010174 catalytic triad [active] 96561010175 dimer interface [polypeptide binding]; other site 96561010176 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 96561010177 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 96561010178 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 96561010179 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 96561010180 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 96561010181 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 96561010182 tRNA; other site 96561010183 putative tRNA binding site [nucleotide binding]; other site 96561010184 putative NADP binding site [chemical binding]; other site 96561010185 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 96561010186 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 96561010187 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 96561010188 Walker A motif; other site 96561010189 ATP binding site [chemical binding]; other site 96561010190 Walker B motif; other site 96561010191 arginine finger; other site 96561010192 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 96561010193 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 96561010194 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 96561010195 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 96561010196 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 96561010197 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 96561010198 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 96561010199 catalytic residue [active] 96561010200 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 96561010201 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 96561010202 CPxP motif; other site 96561010203 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 96561010204 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 96561010205 ATP binding site [chemical binding]; other site 96561010206 substrate binding site [chemical binding]; other site 96561010207 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 96561010208 dimerization interface [polypeptide binding]; other site 96561010209 putative ATP binding site [chemical binding]; other site 96561010210 Transposase domain (DUF772); Region: DUF772; pfam05598 96561010211 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 96561010212 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 96561010213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 96561010214 Domain of unknown function DUF11; Region: DUF11; cl17728 96561010215 conserved repeat domain; Region: B_ant_repeat; TIGR01451 96561010216 conserved repeat domain; Region: B_ant_repeat; TIGR01451 96561010217 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 96561010218 ligand binding site [chemical binding]; other site 96561010219 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 96561010220 Domain of unknown function DUF11; Region: DUF11; pfam01345 96561010221 PAS domain S-box; Region: sensory_box; TIGR00229 96561010222 PAS fold; Region: PAS_3; pfam08447 96561010223 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 96561010224 putative active site [active] 96561010225 heme pocket [chemical binding]; other site 96561010226 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 96561010227 dimer interface [polypeptide binding]; other site 96561010228 phosphorylation site [posttranslational modification] 96561010229 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 96561010230 ATP binding site [chemical binding]; other site 96561010231 Mg2+ binding site [ion binding]; other site 96561010232 G-X-G motif; other site 96561010233 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96561010234 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 96561010235 active site 96561010236 phosphorylation site [posttranslational modification] 96561010237 intermolecular recognition site; other site 96561010238 dimerization interface [polypeptide binding]; other site 96561010239 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 96561010240 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 96561010241 active site 96561010242 phosphorylation site [posttranslational modification] 96561010243 intermolecular recognition site; other site 96561010244 dimerization interface [polypeptide binding]; other site 96561010245 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 96561010246 Zn2+ binding site [ion binding]; other site 96561010247 Mg2+ binding site [ion binding]; other site 96561010248 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 96561010249 dockerin binding interface; other site 96561010250 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 96561010251 dockerin binding interface; other site 96561010252 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 96561010253 dockerin binding interface; other site 96561010254 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 96561010255 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 96561010256 active site 96561010257 phosphorylation site [posttranslational modification] 96561010258 intermolecular recognition site; other site 96561010259 dimerization interface [polypeptide binding]; other site 96561010260 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 96561010261 Walker A motif; other site 96561010262 ATP binding site [chemical binding]; other site 96561010263 Walker B motif; other site 96561010264 arginine finger; other site 96561010265 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 96561010266 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 96561010267 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561010268 putative active site [active] 96561010269 heme pocket [chemical binding]; other site 96561010270 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 96561010271 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 96561010272 putative active site [active] 96561010273 heme pocket [chemical binding]; other site 96561010274 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 96561010275 dimer interface [polypeptide binding]; other site 96561010276 phosphorylation site [posttranslational modification] 96561010277 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 96561010278 ATP binding site [chemical binding]; other site 96561010279 Mg2+ binding site [ion binding]; other site 96561010280 G-X-G motif; other site 96561010281 Response regulator receiver domain; Region: Response_reg; pfam00072 96561010282 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 96561010283 active site 96561010284 phosphorylation site [posttranslational modification] 96561010285 intermolecular recognition site; other site 96561010286 dimerization interface [polypeptide binding]; other site 96561010287 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 96561010288 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561010289 putative active site [active] 96561010290 heme pocket [chemical binding]; other site 96561010291 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 96561010292 putative active site [active] 96561010293 heme pocket [chemical binding]; other site 96561010294 PAS domain S-box; Region: sensory_box; TIGR00229 96561010295 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 96561010296 putative active site [active] 96561010297 heme pocket [chemical binding]; other site 96561010298 PAS domain S-box; Region: sensory_box; TIGR00229 96561010299 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 96561010300 putative active site [active] 96561010301 heme pocket [chemical binding]; other site 96561010302 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561010303 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 96561010304 dimer interface [polypeptide binding]; other site 96561010305 phosphorylation site [posttranslational modification] 96561010306 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 96561010307 ATP binding site [chemical binding]; other site 96561010308 Mg2+ binding site [ion binding]; other site 96561010309 G-X-G motif; other site 96561010310 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96561010311 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 96561010312 active site 96561010313 phosphorylation site [posttranslational modification] 96561010314 intermolecular recognition site; other site 96561010315 dimerization interface [polypeptide binding]; other site 96561010316 PAS domain S-box; Region: sensory_box; TIGR00229 96561010317 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 96561010318 putative active site [active] 96561010319 heme pocket [chemical binding]; other site 96561010320 PAS domain S-box; Region: sensory_box; TIGR00229 96561010321 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 96561010322 putative active site [active] 96561010323 heme pocket [chemical binding]; other site 96561010324 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 96561010325 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 96561010326 putative active site [active] 96561010327 heme pocket [chemical binding]; other site 96561010328 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 96561010329 dimer interface [polypeptide binding]; other site 96561010330 phosphorylation site [posttranslational modification] 96561010331 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 96561010332 ATP binding site [chemical binding]; other site 96561010333 Mg2+ binding site [ion binding]; other site 96561010334 G-X-G motif; other site 96561010335 Response regulator receiver domain; Region: Response_reg; pfam00072 96561010336 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 96561010337 active site 96561010338 phosphorylation site [posttranslational modification] 96561010339 intermolecular recognition site; other site 96561010340 dimerization interface [polypeptide binding]; other site 96561010341 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 96561010342 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96561010343 substrate binding pocket [chemical binding]; other site 96561010344 membrane-bound complex binding site; other site 96561010345 hinge residues; other site 96561010346 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 96561010347 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 96561010348 substrate binding pocket [chemical binding]; other site 96561010349 membrane-bound complex binding site; other site 96561010350 hinge residues; other site 96561010351 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 96561010352 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561010353 putative active site [active] 96561010354 heme pocket [chemical binding]; other site 96561010355 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 96561010356 putative active site [active] 96561010357 heme pocket [chemical binding]; other site 96561010358 PAS fold; Region: PAS_4; pfam08448 96561010359 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 96561010360 putative active site [active] 96561010361 heme pocket [chemical binding]; other site 96561010362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561010363 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 96561010364 dimer interface [polypeptide binding]; other site 96561010365 phosphorylation site [posttranslational modification] 96561010366 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 96561010367 ATP binding site [chemical binding]; other site 96561010368 Mg2+ binding site [ion binding]; other site 96561010369 G-X-G motif; other site 96561010370 Response regulator receiver domain; Region: Response_reg; pfam00072 96561010371 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 96561010372 active site 96561010373 phosphorylation site [posttranslational modification] 96561010374 intermolecular recognition site; other site 96561010375 dimerization interface [polypeptide binding]; other site 96561010376 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 96561010377 PAS domain S-box; Region: sensory_box; TIGR00229 96561010378 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 96561010379 putative active site [active] 96561010380 heme pocket [chemical binding]; other site 96561010381 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 96561010382 PAS fold; Region: PAS_3; pfam08447 96561010383 putative active site [active] 96561010384 heme pocket [chemical binding]; other site 96561010385 PAS domain S-box; Region: sensory_box; TIGR00229 96561010386 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 96561010387 putative active site [active] 96561010388 heme pocket [chemical binding]; other site 96561010389 PAS domain S-box; Region: sensory_box; TIGR00229 96561010390 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 96561010391 putative active site [active] 96561010392 heme pocket [chemical binding]; other site 96561010393 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561010394 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 96561010395 dimer interface [polypeptide binding]; other site 96561010396 phosphorylation site [posttranslational modification] 96561010397 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 96561010398 ATP binding site [chemical binding]; other site 96561010399 Mg2+ binding site [ion binding]; other site 96561010400 G-X-G motif; other site 96561010401 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96561010402 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 96561010403 active site 96561010404 phosphorylation site [posttranslational modification] 96561010405 intermolecular recognition site; other site 96561010406 dimerization interface [polypeptide binding]; other site 96561010407 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 96561010408 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 96561010409 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 96561010410 substrate binding pocket [chemical binding]; other site 96561010411 membrane-bound complex binding site; other site 96561010412 hinge residues; other site 96561010413 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561010414 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 96561010415 dimer interface [polypeptide binding]; other site 96561010416 phosphorylation site [posttranslational modification] 96561010417 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 96561010418 ATP binding site [chemical binding]; other site 96561010419 Mg2+ binding site [ion binding]; other site 96561010420 G-X-G motif; other site 96561010421 Response regulator receiver domain; Region: Response_reg; pfam00072 96561010422 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 96561010423 active site 96561010424 phosphorylation site [posttranslational modification] 96561010425 intermolecular recognition site; other site 96561010426 dimerization interface [polypeptide binding]; other site 96561010427 Response regulator receiver domain; Region: Response_reg; pfam00072 96561010428 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 96561010429 active site 96561010430 phosphorylation site [posttranslational modification] 96561010431 intermolecular recognition site; other site 96561010432 dimerization interface [polypeptide binding]; other site 96561010433 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 96561010434 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 96561010435 putative active site [active] 96561010436 heme pocket [chemical binding]; other site 96561010437 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 96561010438 putative active site [active] 96561010439 heme pocket [chemical binding]; other site 96561010440 PAS domain S-box; Region: sensory_box; TIGR00229 96561010441 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 96561010442 putative active site [active] 96561010443 heme pocket [chemical binding]; other site 96561010444 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 96561010445 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 96561010446 dimer interface [polypeptide binding]; other site 96561010447 phosphorylation site [posttranslational modification] 96561010448 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 96561010449 ATP binding site [chemical binding]; other site 96561010450 Mg2+ binding site [ion binding]; other site 96561010451 G-X-G motif; other site 96561010452 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 96561010453 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 96561010454 active site 96561010455 phosphorylation site [posttranslational modification] 96561010456 intermolecular recognition site; other site 96561010457 dimerization interface [polypeptide binding]; other site