-- dump date 20140619_094031 -- class Genbank::misc_feature -- table misc_feature_note -- id note 376686000001 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 376686000002 catalytic motif [active] 376686000003 Zn binding site [ion binding]; other site 376686000004 RibD C-terminal domain; Region: RibD_C; pfam01872 376686000005 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 376686000006 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 376686000007 motif II; other site 376686000008 Uncharacterized conserved protein [Function unknown]; Region: COG1739 376686000009 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 376686000010 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 376686000011 active site 376686000012 DnaA N-terminal domain; Region: DnaA_N; pfam11638 376686000013 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 376686000014 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 376686000015 Walker A motif; other site 376686000016 ATP binding site [chemical binding]; other site 376686000017 Walker B motif; other site 376686000018 arginine finger; other site 376686000019 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 376686000020 DnaA box-binding interface [nucleotide binding]; other site 376686000021 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 376686000022 Low molecular weight phosphatase family; Region: LMWPc; cd00115 376686000023 active site 376686000024 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 376686000025 putative SAM binding site [chemical binding]; other site 376686000026 homodimer interface [polypeptide binding]; other site 376686000027 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 376686000028 methionine aminotransferase; Validated; Region: PRK09082 376686000029 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 376686000030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000031 homodimer interface [polypeptide binding]; other site 376686000032 catalytic residue [active] 376686000033 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 376686000034 short chain dehydrogenase; Provisional; Region: PRK07677 376686000035 NAD(P) binding site [chemical binding]; other site 376686000036 substrate binding site [chemical binding]; other site 376686000037 homotetramer interface [polypeptide binding]; other site 376686000038 active site 376686000039 homodimer interface [polypeptide binding]; other site 376686000040 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 376686000041 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 376686000042 ATP-binding site [chemical binding]; other site 376686000043 Sugar specificity; other site 376686000044 Pyrimidine base specificity; other site 376686000045 Septum formation initiator; Region: DivIC; pfam04977 376686000046 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 376686000047 heterodimer interface [polypeptide binding]; other site 376686000048 substrate interaction site [chemical binding]; other site 376686000049 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 376686000050 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 376686000051 active site 376686000052 substrate binding site [chemical binding]; other site 376686000053 coenzyme B12 binding site [chemical binding]; other site 376686000054 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 376686000055 B12 binding site [chemical binding]; other site 376686000056 cobalt ligand [ion binding]; other site 376686000057 YceG-like family; Region: YceG; pfam02618 376686000058 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 376686000059 dimerization interface [polypeptide binding]; other site 376686000060 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 376686000061 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 376686000062 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 376686000063 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 376686000064 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 376686000065 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 376686000066 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 376686000067 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 376686000068 protein binding site [polypeptide binding]; other site 376686000069 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 376686000070 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 376686000071 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 376686000072 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 376686000073 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 376686000074 putative DNA binding site [nucleotide binding]; other site 376686000075 putative Zn2+ binding site [ion binding]; other site 376686000076 AsnC family; Region: AsnC_trans_reg; pfam01037 376686000077 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 376686000078 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 376686000079 hexamer interface [polypeptide binding]; other site 376686000080 ligand binding site [chemical binding]; other site 376686000081 putative active site [active] 376686000082 NAD(P) binding site [chemical binding]; other site 376686000083 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 376686000084 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 376686000085 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 376686000086 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 376686000087 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 376686000088 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 376686000089 active site 376686000090 dimer interface [polypeptide binding]; other site 376686000091 motif 1; other site 376686000092 motif 2; other site 376686000093 motif 3; other site 376686000094 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 376686000095 anticodon binding site; other site 376686000096 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 376686000097 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 376686000098 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 376686000099 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 376686000100 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 376686000101 23S rRNA binding site [nucleotide binding]; other site 376686000102 L21 binding site [polypeptide binding]; other site 376686000103 L13 binding site [polypeptide binding]; other site 376686000104 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686000105 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 376686000106 ligand binding site [chemical binding]; other site 376686000107 flexible hinge region; other site 376686000108 Uncharacterized conserved protein [Function unknown]; Region: COG2128 376686000109 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 376686000110 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686000111 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 376686000112 TPR motif; other site 376686000113 binding surface 376686000114 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686000115 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 376686000116 ATP binding site [chemical binding]; other site 376686000117 Mg2+ binding site [ion binding]; other site 376686000118 G-X-G motif; other site 376686000119 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686000120 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 376686000121 binding surface 376686000122 TPR motif; other site 376686000123 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686000124 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 376686000125 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 376686000126 TPR motif; other site 376686000127 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686000128 binding surface 376686000129 Response regulator receiver domain; Region: Response_reg; pfam00072 376686000130 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 376686000131 active site 376686000132 phosphorylation site [posttranslational modification] 376686000133 intermolecular recognition site; other site 376686000134 dimerization interface [polypeptide binding]; other site 376686000135 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 376686000136 putative active site [active] 376686000137 putative catalytic site [active] 376686000138 putative Mg binding site IVb [ion binding]; other site 376686000139 putative phosphate binding site [ion binding]; other site 376686000140 putative DNA binding site [nucleotide binding]; other site 376686000141 putative Mg binding site IVa [ion binding]; other site 376686000142 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686000143 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686000144 active site 376686000145 phosphorylation site [posttranslational modification] 376686000146 intermolecular recognition site; other site 376686000147 dimerization interface [polypeptide binding]; other site 376686000148 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 376686000149 DNA binding residues [nucleotide binding] 376686000150 dimerization interface [polypeptide binding]; other site 376686000151 Histidine kinase; Region: HisKA_3; pfam07730 376686000152 replicative DNA helicase; Region: DnaB; TIGR00665 376686000153 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 376686000154 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 376686000155 Walker A motif; other site 376686000156 ATP binding site [chemical binding]; other site 376686000157 Walker B motif; other site 376686000158 DNA binding loops [nucleotide binding] 376686000159 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 376686000160 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 376686000161 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 376686000162 EamA-like transporter family; Region: EamA; cl17759 376686000163 Predicted permeases [General function prediction only]; Region: COG0795 376686000164 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 376686000165 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 376686000166 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 376686000167 Thermus thermophiles TTHB029 and similar proteins; Region: YdjC_TTHB029_like; cd10802 376686000168 putative active site [active] 376686000169 YdjC motif; other site 376686000170 Mg binding site [ion binding]; other site 376686000171 homodimer interface [polypeptide binding]; other site 376686000172 transketolase; Reviewed; Region: PRK05899 376686000173 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 376686000174 TPP-binding site [chemical binding]; other site 376686000175 dimer interface [polypeptide binding]; other site 376686000176 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 376686000177 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 376686000178 PYR/PP interface [polypeptide binding]; other site 376686000179 dimer interface [polypeptide binding]; other site 376686000180 TPP binding site [chemical binding]; other site 376686000181 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 376686000182 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 376686000183 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 376686000184 RNA binding surface [nucleotide binding]; other site 376686000185 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 376686000186 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686000187 active site 376686000188 shikimate kinase; Reviewed; Region: aroK; PRK00131 376686000189 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 376686000190 ADP binding site [chemical binding]; other site 376686000191 magnesium binding site [ion binding]; other site 376686000192 putative shikimate binding site; other site 376686000193 Helix-turn-helix domain; Region: HTH_19; pfam12844 376686000194 non-specific DNA binding site [nucleotide binding]; other site 376686000195 salt bridge; other site 376686000196 sequence-specific DNA binding site [nucleotide binding]; other site 376686000197 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 376686000198 binding surface 376686000199 TPR repeat; Region: TPR_11; pfam13414 376686000200 TPR motif; other site 376686000201 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 376686000202 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 376686000203 DNA binding residues [nucleotide binding] 376686000204 B12 binding domain; Region: B12-binding_2; pfam02607 376686000205 phytoene desaturase; Region: crtI_fam; TIGR02734 376686000206 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 376686000207 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 376686000208 active site lid residues [active] 376686000209 substrate binding pocket [chemical binding]; other site 376686000210 catalytic residues [active] 376686000211 substrate-Mg2+ binding site; other site 376686000212 aspartate-rich region 1; other site 376686000213 aspartate-rich region 2; other site 376686000214 beta-carotene hydroxylase; Region: PLN02601 376686000215 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 376686000216 putative hydrophobic ligand binding site [chemical binding]; other site 376686000217 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 376686000218 DNA photolyase; Region: DNA_photolyase; pfam00875 376686000219 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 376686000220 ABC1 family; Region: ABC1; cl17513 376686000221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000222 TIGR01777 family protein; Region: yfcH 376686000223 NAD(P) binding site [chemical binding]; other site 376686000224 active site 376686000225 YceI-like domain; Region: YceI; pfam04264 376686000226 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686000227 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_15; cd07264 376686000228 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 376686000229 DNA recombination protein RmuC; Provisional; Region: PRK10361 376686000230 RmuC family; Region: RmuC; pfam02646 376686000231 PrcB C-terminal; Region: PrcB_C; pfam14343 376686000232 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686000233 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000234 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 376686000235 DNA binding residues [nucleotide binding] 376686000236 MepB protein; Region: MepB; cl01985 376686000237 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 376686000238 putative catalytic site [active] 376686000239 putative metal binding site [ion binding]; other site 376686000240 putative phosphate binding site [ion binding]; other site 376686000241 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686000242 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 376686000243 classical (c) SDRs; Region: SDR_c; cd05233 376686000244 NAD(P) binding site [chemical binding]; other site 376686000245 active site 376686000246 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 376686000247 pseudouridine synthase; Region: TIGR00093 376686000248 active site 376686000249 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 376686000250 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 376686000251 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 376686000252 Walker A/P-loop; other site 376686000253 ATP binding site [chemical binding]; other site 376686000254 Q-loop/lid; other site 376686000255 ABC transporter signature motif; other site 376686000256 Walker B; other site 376686000257 D-loop; other site 376686000258 H-loop/switch region; other site 376686000259 GxxExxY protein; Region: GxxExxY; TIGR04256 376686000260 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 376686000261 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 376686000262 ABC-ATPase subunit interface; other site 376686000263 dimer interface [polypeptide binding]; other site 376686000264 putative PBP binding regions; other site 376686000265 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 376686000266 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 376686000267 putative ligand binding site [chemical binding]; other site 376686000268 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 376686000269 hypothetical protein; Reviewed; Region: PRK12275 376686000270 four helix bundle protein; Region: TIGR02436 376686000271 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 376686000272 homotrimer interface [polypeptide binding]; other site 376686000273 Walker A motif; other site 376686000274 GTP binding site [chemical binding]; other site 376686000275 Walker B motif; other site 376686000276 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 376686000277 FMN binding site [chemical binding]; other site 376686000278 dimer interface [polypeptide binding]; other site 376686000279 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 376686000280 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 376686000281 putative dimer interface [polypeptide binding]; other site 376686000282 active site pocket [active] 376686000283 putative cataytic base [active] 376686000284 Transposase IS200 like; Region: Y1_Tnp; pfam01797 376686000285 cobalamin synthase; Reviewed; Region: cobS; PRK00235 376686000286 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 376686000287 catalytic core [active] 376686000288 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 376686000289 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 376686000290 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686000291 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 376686000292 Catalytic dyad [active] 376686000293 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686000294 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000295 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 376686000296 DNA binding residues [nucleotide binding] 376686000297 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 376686000298 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 376686000299 Predicted membrane protein [Function unknown]; Region: COG4682 376686000300 yiaA/B two helix domain; Region: YiaAB; pfam05360 376686000301 yiaA/B two helix domain; Region: YiaAB; pfam05360 376686000302 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 376686000303 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 376686000304 ATP-grasp domain; Region: ATP-grasp_4; cl17255 376686000305 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 376686000306 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 376686000307 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 376686000308 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 376686000309 ATP-grasp domain; Region: ATP-grasp_4; cl17255 376686000310 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 376686000311 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 376686000312 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 376686000313 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 376686000314 transmembrane helices; other site 376686000315 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 376686000316 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 376686000317 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686000318 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686000319 ABC transporter; Region: ABC_tran_2; pfam12848 376686000320 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686000321 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686000322 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686000323 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 376686000324 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 376686000325 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif...; Region: LbH_unknown; cd05635 376686000326 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 376686000327 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 376686000328 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 376686000329 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 376686000330 Ligand binding site; other site 376686000331 Putative Catalytic site; other site 376686000332 DXD motif; other site 376686000333 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 376686000334 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 376686000335 active site 376686000336 substrate binding site [chemical binding]; other site 376686000337 metal binding site [ion binding]; metal-binding site 376686000338 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686000339 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686000340 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 376686000341 dimer interface [polypeptide binding]; other site 376686000342 FMN binding site [chemical binding]; other site 376686000343 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 376686000344 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 376686000345 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 376686000346 Walker A/P-loop; other site 376686000347 ATP binding site [chemical binding]; other site 376686000348 Q-loop/lid; other site 376686000349 ABC transporter signature motif; other site 376686000350 Walker B; other site 376686000351 D-loop; other site 376686000352 H-loop/switch region; other site 376686000353 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 376686000354 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686000355 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 376686000356 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686000357 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 376686000358 Peptidase family M23; Region: Peptidase_M23; pfam01551 376686000359 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 376686000360 Cell division protein ZapA; Region: ZapA; pfam05164 376686000361 phosphodiesterase; Provisional; Region: PRK12704 376686000362 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 376686000363 Zn2+ binding site [ion binding]; other site 376686000364 Mg2+ binding site [ion binding]; other site 376686000365 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 376686000366 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 376686000367 putative active site [active] 376686000368 heme pocket [chemical binding]; other site 376686000369 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 376686000370 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686000371 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 376686000372 ATP binding site [chemical binding]; other site 376686000373 Mg2+ binding site [ion binding]; other site 376686000374 G-X-G motif; other site 376686000375 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 376686000376 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 376686000377 active site 376686000378 Int/Topo IB signature motif; other site 376686000379 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 376686000380 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 376686000381 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 376686000382 Dehydroquinase class II; Region: DHquinase_II; pfam01220 376686000383 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 376686000384 trimer interface [polypeptide binding]; other site 376686000385 active site 376686000386 dimer interface [polypeptide binding]; other site 376686000387 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686000388 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 376686000389 Cation efflux family; Region: Cation_efflux; pfam01545 376686000390 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 376686000391 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 376686000392 hinge; other site 376686000393 active site 376686000394 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 376686000395 Protein of unknown function (DUF493); Region: DUF493; pfam04359 376686000396 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 376686000397 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686000398 Predicted ATPase [General function prediction only]; Region: COG3911 376686000399 AAA domain; Region: AAA_28; pfam13521 376686000400 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 376686000401 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 376686000402 ATP binding site [chemical binding]; other site 376686000403 putative Mg++ binding site [ion binding]; other site 376686000404 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 376686000405 nucleotide binding region [chemical binding]; other site 376686000406 ATP-binding site [chemical binding]; other site 376686000407 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 376686000408 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 376686000409 putative active site [active] 376686000410 substrate binding site [chemical binding]; other site 376686000411 putative cosubstrate binding site; other site 376686000412 catalytic site [active] 376686000413 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 376686000414 substrate binding site [chemical binding]; other site 376686000415 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 376686000416 IHF - DNA interface [nucleotide binding]; other site 376686000417 IHF dimer interface [polypeptide binding]; other site 376686000418 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 376686000419 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 376686000420 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 376686000421 homodimer interface [polypeptide binding]; other site 376686000422 substrate-cofactor binding pocket; other site 376686000423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000424 catalytic residue [active] 376686000425 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 376686000426 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 376686000427 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686000428 DNA-binding site [nucleotide binding]; DNA binding site 376686000429 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 376686000430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000431 homodimer interface [polypeptide binding]; other site 376686000432 catalytic residue [active] 376686000433 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686000434 Coenzyme A binding pocket [chemical binding]; other site 376686000435 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686000436 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000437 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 376686000438 DNA binding residues [nucleotide binding] 376686000439 FecR protein; Region: FecR; pfam04773 376686000440 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686000441 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 376686000442 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686000443 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686000444 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686000445 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 376686000446 NADP binding site [chemical binding]; other site 376686000447 putative substrate binding site [chemical binding]; other site 376686000448 active site 376686000449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000450 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 376686000451 NAD(P) binding site [chemical binding]; other site 376686000452 active site 376686000453 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 376686000454 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 376686000455 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686000456 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686000457 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 376686000458 RibD C-terminal domain; Region: RibD_C; cl17279 376686000459 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 376686000460 active site 376686000461 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686000462 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000463 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 376686000464 DNA binding residues [nucleotide binding] 376686000465 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 376686000466 FecR protein; Region: FecR; pfam04773 376686000467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 376686000468 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 376686000469 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 376686000470 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 376686000471 YceI-like domain; Region: YceI; pfam04264 376686000472 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 376686000473 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 376686000474 active site 376686000475 catalytic tetrad [active] 376686000476 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686000477 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686000478 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 376686000479 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686000480 active site 376686000481 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686000482 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 376686000483 DNA binding residues [nucleotide binding] 376686000484 dimerization interface [polypeptide binding]; other site 376686000485 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 376686000486 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 376686000487 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 376686000488 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 376686000489 FeS/SAM binding site; other site 376686000490 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686000491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686000492 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 376686000493 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 376686000494 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 376686000495 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 376686000496 Interdomain contacts; other site 376686000497 Cytokine receptor motif; other site 376686000498 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686000499 SusD family; Region: SusD; pfam07980 376686000500 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686000501 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686000502 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 376686000503 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686000504 MFS transport protein AraJ; Provisional; Region: PRK10091 376686000505 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686000506 putative substrate translocation pore; other site 376686000507 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 376686000508 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686000509 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686000510 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686000511 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 376686000512 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686000513 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686000514 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 376686000515 metal-binding site [ion binding] 376686000516 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 376686000517 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686000518 Soluble P-type ATPase [General function prediction only]; Region: COG4087 376686000519 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 376686000520 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 376686000521 Multicopper oxidase; Region: Cu-oxidase; pfam00394 376686000522 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 376686000523 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 376686000524 active site 2 [active] 376686000525 active site 1 [active] 376686000526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 376686000527 Predicted transcriptional regulators [Transcription]; Region: COG1695 376686000528 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 376686000529 PspC domain; Region: PspC; pfam04024 376686000530 Predicted membrane protein [Function unknown]; Region: COG2259 376686000531 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 376686000532 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 376686000533 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 376686000534 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 376686000535 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686000536 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 376686000537 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 376686000538 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 376686000539 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 376686000540 P-loop; other site 376686000541 Magnesium ion binding site [ion binding]; other site 376686000542 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 376686000543 Magnesium ion binding site [ion binding]; other site 376686000544 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 376686000545 ParB-like nuclease domain; Region: ParB; smart00470 376686000546 dihydrodipicolinate reductase; Provisional; Region: PRK00048 376686000547 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 376686000548 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 376686000549 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 376686000550 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 376686000551 Catalytic site [active] 376686000552 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 376686000553 WbqC-like protein family; Region: WbqC; pfam08889 376686000554 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 376686000555 putative catalytic site [active] 376686000556 putative metal binding site [ion binding]; other site 376686000557 putative phosphate binding site [ion binding]; other site 376686000558 Rhomboid family; Region: Rhomboid; pfam01694 376686000559 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 376686000560 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 376686000561 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 376686000562 ATP binding site [chemical binding]; other site 376686000563 Mg2+ binding site [ion binding]; other site 376686000564 G-X-G motif; other site 376686000565 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 376686000566 ATP binding site [chemical binding]; other site 376686000567 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 376686000568 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 376686000569 homopentamer interface [polypeptide binding]; other site 376686000570 active site 376686000571 recombination protein F; Reviewed; Region: recF; PRK00064 376686000572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686000573 Walker A/P-loop; other site 376686000574 ATP binding site [chemical binding]; other site 376686000575 Q-loop/lid; other site 376686000576 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686000577 ABC transporter signature motif; other site 376686000578 Walker B; other site 376686000579 D-loop; other site 376686000580 H-loop/switch region; other site 376686000581 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 376686000582 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 376686000583 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000584 putative aminotransferase; Provisional; Region: PRK09105 376686000585 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 376686000586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000587 homodimer interface [polypeptide binding]; other site 376686000588 catalytic residue [active] 376686000589 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 376686000590 FAD binding domain; Region: FAD_binding_4; pfam01565 376686000591 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 376686000592 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686000593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686000594 Coenzyme A binding pocket [chemical binding]; other site 376686000595 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 376686000596 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 376686000597 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 376686000598 active site 376686000599 RNA polymerase sigma factor; Provisional; Region: PRK11924 376686000600 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000601 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 376686000602 DNA binding residues [nucleotide binding] 376686000603 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 376686000604 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 376686000605 pentamer interface [polypeptide binding]; other site 376686000606 dodecaamer interface [polypeptide binding]; other site 376686000607 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 376686000608 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 376686000609 lipoyl synthase; Provisional; Region: PRK05481 376686000610 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 376686000611 FeS/SAM binding site; other site 376686000612 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 376686000613 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 376686000614 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 376686000615 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 376686000616 binding surface 376686000617 TPR motif; other site 376686000618 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686000619 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 376686000620 binding surface 376686000621 TPR motif; other site 376686000622 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686000623 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 376686000624 dimer interface [polypeptide binding]; other site 376686000625 phosphorylation site [posttranslational modification] 376686000626 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 376686000627 ATP binding site [chemical binding]; other site 376686000628 Mg2+ binding site [ion binding]; other site 376686000629 G-X-G motif; other site 376686000630 Response regulator receiver domain; Region: Response_reg; pfam00072 376686000631 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686000632 active site 376686000633 phosphorylation site [posttranslational modification] 376686000634 intermolecular recognition site; other site 376686000635 dimerization interface [polypeptide binding]; other site 376686000636 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 376686000637 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 376686000638 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 376686000639 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 376686000640 Uncharacterized conserved protein [Function unknown]; Region: COG0327 376686000641 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 376686000642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 376686000643 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 376686000644 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 376686000645 Putative zinc ribbon domain; Region: DUF164; pfam02591 376686000646 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686000647 Secretory lipase; Region: LIP; pfam03583 376686000648 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 376686000649 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 376686000650 RNA binding surface [nucleotide binding]; other site 376686000651 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 376686000652 probable active site [active] 376686000653 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 376686000654 Trp docking motif [polypeptide binding]; other site 376686000655 PQQ-like domain; Region: PQQ_2; pfam13360 376686000656 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 376686000657 Trp docking motif [polypeptide binding]; other site 376686000658 active site 376686000659 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 376686000660 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 376686000661 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686000662 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686000663 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 376686000664 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 376686000665 Cl binding site [ion binding]; other site 376686000666 oligomer interface [polypeptide binding]; other site 376686000667 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 376686000668 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 376686000669 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 376686000670 homodimer interface [polypeptide binding]; other site 376686000671 NADP binding site [chemical binding]; other site 376686000672 substrate binding site [chemical binding]; other site 376686000673 signal recognition particle protein; Provisional; Region: PRK10867 376686000674 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 376686000675 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 376686000676 P loop; other site 376686000677 GTP binding site [chemical binding]; other site 376686000678 Signal peptide binding domain; Region: SRP_SPB; pfam02978 376686000679 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 376686000680 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 376686000681 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 376686000682 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686000683 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 376686000684 active site 376686000685 oxyanion hole [active] 376686000686 catalytic triad [active] 376686000687 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 376686000688 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 376686000689 active site 376686000690 catalytic triad [active] 376686000691 oxyanion hole [active] 376686000692 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 376686000693 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 376686000694 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 376686000695 N-terminal plug; other site 376686000696 ligand-binding site [chemical binding]; other site 376686000697 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 376686000698 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 376686000699 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686000700 active site 376686000701 HIGH motif; other site 376686000702 nucleotide binding site [chemical binding]; other site 376686000703 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 376686000704 KMSK motif region; other site 376686000705 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 376686000706 tRNA binding surface [nucleotide binding]; other site 376686000707 anticodon binding site; other site 376686000708 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686000709 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686000710 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 376686000711 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 376686000712 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 376686000713 GIY-YIG motif/motif A; other site 376686000714 putative active site [active] 376686000715 putative metal binding site [ion binding]; other site 376686000716 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 376686000717 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 376686000718 dimer interface [polypeptide binding]; other site 376686000719 active site 376686000720 CoA binding pocket [chemical binding]; other site 376686000721 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 376686000722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686000723 Walker A/P-loop; other site 376686000724 ATP binding site [chemical binding]; other site 376686000725 Q-loop/lid; other site 376686000726 ABC transporter signature motif; other site 376686000727 Walker B; other site 376686000728 D-loop; other site 376686000729 H-loop/switch region; other site 376686000730 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686000731 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686000732 ligand binding site [chemical binding]; other site 376686000733 heat shock protein 90; Provisional; Region: PRK05218 376686000734 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 376686000735 ATP binding site [chemical binding]; other site 376686000736 Mg2+ binding site [ion binding]; other site 376686000737 G-X-G motif; other site 376686000738 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686000739 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 376686000740 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 376686000741 ligand binding site [chemical binding]; other site 376686000742 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 376686000743 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686000744 catalytic triad [active] 376686000745 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 376686000746 active site 376686000747 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 376686000748 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 376686000749 active site 376686000750 metal binding site [ion binding]; metal-binding site 376686000751 nudix motif; other site 376686000752 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 376686000753 SelR domain; Region: SelR; pfam01641 376686000754 methionine sulfoxide reductase A; Provisional; Region: PRK14054 376686000755 Uncharacterized conserved protein [Function unknown]; Region: COG2128 376686000756 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 376686000757 YCII-related domain; Region: YCII; cl00999 376686000758 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 376686000759 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000760 META domain; Region: META; pfam03724 376686000761 proline aminopeptidase P II; Provisional; Region: PRK10879 376686000762 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 376686000763 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 376686000764 active site 376686000765 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 376686000766 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 376686000767 NADP binding site [chemical binding]; other site 376686000768 dimer interface [polypeptide binding]; other site 376686000769 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 376686000770 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 376686000771 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 376686000772 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 376686000773 ATP binding site [chemical binding]; other site 376686000774 putative Mg++ binding site [ion binding]; other site 376686000775 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 376686000776 nucleotide binding region [chemical binding]; other site 376686000777 ATP-binding site [chemical binding]; other site 376686000778 RQC domain; Region: RQC; pfam09382 376686000779 HRDC domain; Region: HRDC; pfam00570 376686000780 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 376686000781 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 376686000782 putative active site [active] 376686000783 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 376686000784 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 376686000785 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 376686000786 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 376686000787 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 376686000788 Walker A/P-loop; other site 376686000789 ATP binding site [chemical binding]; other site 376686000790 Q-loop/lid; other site 376686000791 ABC transporter signature motif; other site 376686000792 Walker B; other site 376686000793 D-loop; other site 376686000794 H-loop/switch region; other site 376686000795 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 376686000796 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 376686000797 active site 376686000798 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 376686000799 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 376686000800 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 376686000801 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 376686000802 Bacterial sugar transferase; Region: Bac_transf; pfam02397 376686000803 O-Antigen ligase; Region: Wzy_C; pfam04932 376686000804 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000805 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 376686000806 putative ADP-binding pocket [chemical binding]; other site 376686000807 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000808 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 376686000809 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 376686000810 trimer interface [polypeptide binding]; other site 376686000811 active site 376686000812 substrate binding site [chemical binding]; other site 376686000813 CoA binding site [chemical binding]; other site 376686000814 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686000815 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 376686000816 active site 376686000817 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 376686000818 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 376686000819 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 376686000820 active site 376686000821 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000822 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 376686000823 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 376686000824 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 376686000825 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 376686000826 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 376686000827 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 376686000828 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 376686000829 active site 376686000830 homodimer interface [polypeptide binding]; other site 376686000831 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 376686000832 NeuB family; Region: NeuB; pfam03102 376686000833 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 376686000834 NeuB binding interface [polypeptide binding]; other site 376686000835 putative substrate binding site [chemical binding]; other site 376686000836 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 376686000837 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 376686000838 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 376686000839 ligand binding site; other site 376686000840 tetramer interface; other site 376686000841 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000842 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 376686000843 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 376686000844 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 376686000845 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; pfam02709 376686000846 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 376686000847 metal-binding site 376686000848 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 376686000849 active site 376686000850 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 376686000851 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 376686000852 GDP-Fucose binding site [chemical binding]; other site 376686000853 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686000854 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 376686000855 active site 376686000856 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686000857 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 376686000858 active site 376686000859 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 376686000860 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 376686000861 active site 376686000862 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686000863 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 376686000864 active site 376686000865 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686000866 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 376686000867 active site 376686000868 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686000869 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 376686000870 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 376686000871 putative trimer interface [polypeptide binding]; other site 376686000872 putative CoA binding site [chemical binding]; other site 376686000873 Methyltransferase domain; Region: Methyltransf_23; pfam13489 376686000874 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 376686000875 S-adenosylmethionine binding site [chemical binding]; other site 376686000876 WbqC-like protein family; Region: WbqC; pfam08889 376686000877 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 376686000878 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 376686000879 inhibitor-cofactor binding pocket; inhibition site 376686000880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000881 catalytic residue [active] 376686000882 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 376686000883 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 376686000884 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 376686000885 Walker A/P-loop; other site 376686000886 ATP binding site [chemical binding]; other site 376686000887 Q-loop/lid; other site 376686000888 ABC transporter signature motif; other site 376686000889 Walker B; other site 376686000890 D-loop; other site 376686000891 H-loop/switch region; other site 376686000892 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000893 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 376686000894 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 376686000895 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 376686000896 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 376686000897 NAD(P) binding site [chemical binding]; other site 376686000898 homodimer interface [polypeptide binding]; other site 376686000899 substrate binding site [chemical binding]; other site 376686000900 active site 376686000901 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 376686000902 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 376686000903 NADP binding site [chemical binding]; other site 376686000904 active site 376686000905 putative substrate binding site [chemical binding]; other site 376686000906 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 376686000907 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 376686000908 NADP-binding site; other site 376686000909 homotetramer interface [polypeptide binding]; other site 376686000910 substrate binding site [chemical binding]; other site 376686000911 homodimer interface [polypeptide binding]; other site 376686000912 active site 376686000913 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 376686000914 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 376686000915 substrate binding site; other site 376686000916 tetramer interface; other site 376686000917 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 376686000918 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 376686000919 NADP binding site [chemical binding]; other site 376686000920 active site 376686000921 putative substrate binding site [chemical binding]; other site 376686000922 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 376686000923 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 376686000924 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 376686000925 inhibitor-cofactor binding pocket; inhibition site 376686000926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000927 catalytic residue [active] 376686000928 WxcM-like, C-terminal; Region: FdtA; pfam05523 376686000929 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 376686000930 Mg++ binding site [ion binding]; other site 376686000931 putative catalytic motif [active] 376686000932 putative substrate binding site [chemical binding]; other site 376686000933 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686000934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000935 NAD(P) binding site [chemical binding]; other site 376686000936 active site 376686000937 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000938 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 376686000939 Methyltransferase domain; Region: Methyltransf_23; pfam13489 376686000940 Methyltransferase domain; Region: Methyltransf_11; pfam08241 376686000941 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 376686000942 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000943 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 376686000944 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000945 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686000946 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 376686000947 active site 376686000948 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000949 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 376686000950 WavE lipopolysaccharide synthesis; Region: WavE; pfam07507 376686000951 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 376686000952 Ligand binding site; other site 376686000953 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 376686000954 Ligand binding site; other site 376686000955 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 376686000956 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 376686000957 motif II; other site 376686000958 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar2; cd08584 376686000959 putative active site [active] 376686000960 catalytic site [active] 376686000961 Chain length determinant protein; Region: Wzz; cl15801 376686000962 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 376686000963 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 376686000964 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 376686000965 SLBB domain; Region: SLBB; pfam10531 376686000966 SLBB domain; Region: SLBB; pfam10531 376686000967 SLBB domain; Region: SLBB; pfam10531 376686000968 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 376686000969 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 376686000970 NAD binding site [chemical binding]; other site 376686000971 substrate binding site [chemical binding]; other site 376686000972 homodimer interface [polypeptide binding]; other site 376686000973 active site 376686000974 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 376686000975 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 376686000976 Substrate binding site; other site 376686000977 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 376686000978 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 376686000979 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 376686000980 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 376686000981 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 376686000982 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 376686000983 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 376686000984 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 376686000985 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 376686000986 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 376686000987 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 376686000988 NAD binding site [chemical binding]; other site 376686000989 substrate binding site [chemical binding]; other site 376686000990 homodimer interface [polypeptide binding]; other site 376686000991 active site 376686000992 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 376686000993 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 376686000994 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 376686000995 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 376686000996 recombination protein RecR; Reviewed; Region: recR; PRK00076 376686000997 RecR protein; Region: RecR; pfam02132 376686000998 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 376686000999 putative active site [active] 376686001000 putative metal-binding site [ion binding]; other site 376686001001 tetramer interface [polypeptide binding]; other site 376686001002 CoA binding domain; Region: CoA_binding_2; pfam13380 376686001003 MarC family integral membrane protein; Region: MarC; cl00919 376686001004 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 376686001005 Amidinotransferase; Region: Amidinotransf; pfam02274 376686001006 Amidinotransferase; Region: Amidinotransf; cl12043 376686001007 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 376686001008 dimer interface [polypeptide binding]; other site 376686001009 Citrate synthase; Region: Citrate_synt; pfam00285 376686001010 active site 376686001011 citrylCoA binding site [chemical binding]; other site 376686001012 NADH binding [chemical binding]; other site 376686001013 cationic pore residues; other site 376686001014 oxalacetate/citrate binding site [chemical binding]; other site 376686001015 coenzyme A binding site [chemical binding]; other site 376686001016 catalytic triad [active] 376686001017 enolase; Provisional; Region: eno; PRK00077 376686001018 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 376686001019 dimer interface [polypeptide binding]; other site 376686001020 metal binding site [ion binding]; metal-binding site 376686001021 substrate binding pocket [chemical binding]; other site 376686001022 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 376686001023 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 376686001024 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 376686001025 catalytic site [active] 376686001026 subunit interface [polypeptide binding]; other site 376686001027 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 376686001028 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 376686001029 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 376686001030 alphaNTD homodimer interface [polypeptide binding]; other site 376686001031 alphaNTD - beta interaction site [polypeptide binding]; other site 376686001032 alphaNTD - beta' interaction site [polypeptide binding]; other site 376686001033 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 376686001034 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 376686001035 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 376686001036 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 376686001037 RNA binding surface [nucleotide binding]; other site 376686001038 30S ribosomal protein S11; Validated; Region: PRK05309 376686001039 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 376686001040 30S ribosomal protein S13; Region: bact_S13; TIGR03631 376686001041 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 376686001042 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 376686001043 rRNA binding site [nucleotide binding]; other site 376686001044 predicted 30S ribosome binding site; other site 376686001045 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 376686001046 SecY translocase; Region: SecY; pfam00344 376686001047 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 376686001048 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 376686001049 23S rRNA binding site [nucleotide binding]; other site 376686001050 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 376686001051 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 376686001052 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 376686001053 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 376686001054 23S rRNA interface [nucleotide binding]; other site 376686001055 L21e interface [polypeptide binding]; other site 376686001056 5S rRNA interface [nucleotide binding]; other site 376686001057 L27 interface [polypeptide binding]; other site 376686001058 L5 interface [polypeptide binding]; other site 376686001059 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 376686001060 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 376686001061 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 376686001062 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 376686001063 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 376686001064 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 376686001065 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 376686001066 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 376686001067 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 376686001068 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 376686001069 RNA binding site [nucleotide binding]; other site 376686001070 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 376686001071 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 376686001072 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 376686001073 23S rRNA interface [nucleotide binding]; other site 376686001074 putative translocon interaction site; other site 376686001075 signal recognition particle (SRP54) interaction site; other site 376686001076 L23 interface [polypeptide binding]; other site 376686001077 trigger factor interaction site; other site 376686001078 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 376686001079 23S rRNA interface [nucleotide binding]; other site 376686001080 5S rRNA interface [nucleotide binding]; other site 376686001081 putative antibiotic binding site [chemical binding]; other site 376686001082 L25 interface [polypeptide binding]; other site 376686001083 L27 interface [polypeptide binding]; other site 376686001084 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 376686001085 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 376686001086 G-X-X-G motif; other site 376686001087 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 376686001088 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 376686001089 putative translocon binding site; other site 376686001090 protein-rRNA interface [nucleotide binding]; other site 376686001091 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 376686001092 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 376686001093 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 376686001094 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 376686001095 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 376686001096 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 376686001097 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 376686001098 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 376686001099 elongation factor G; Reviewed; Region: PRK12739 376686001100 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 376686001101 G1 box; other site 376686001102 putative GEF interaction site [polypeptide binding]; other site 376686001103 GTP/Mg2+ binding site [chemical binding]; other site 376686001104 Switch I region; other site 376686001105 G2 box; other site 376686001106 G3 box; other site 376686001107 Switch II region; other site 376686001108 G4 box; other site 376686001109 G5 box; other site 376686001110 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 376686001111 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 376686001112 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 376686001113 30S ribosomal protein S7; Validated; Region: PRK05302 376686001114 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 376686001115 S17 interaction site [polypeptide binding]; other site 376686001116 S8 interaction site; other site 376686001117 16S rRNA interaction site [nucleotide binding]; other site 376686001118 streptomycin interaction site [chemical binding]; other site 376686001119 23S rRNA interaction site [nucleotide binding]; other site 376686001120 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 376686001121 Surface antigen; Region: Bac_surface_Ag; pfam01103 376686001122 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686001123 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686001124 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 376686001125 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 376686001126 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 376686001127 starch binding outer membrane protein SusD; Region: SusD; cl17845 376686001128 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 376686001129 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 376686001130 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 376686001131 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 376686001132 Rhomboid family; Region: Rhomboid; cl11446 376686001133 recombination factor protein RarA; Reviewed; Region: PRK13342 376686001134 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 376686001135 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 376686001136 Walker A motif; other site 376686001137 ATP binding site [chemical binding]; other site 376686001138 Walker B motif; other site 376686001139 arginine finger; other site 376686001140 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 376686001141 dUMP phosphatase; Provisional; Region: PRK09449 376686001142 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 376686001143 motif II; other site 376686001144 hypothetical protein; Reviewed; Region: PRK00024 376686001145 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 376686001146 MPN+ (JAMM) motif; other site 376686001147 Zinc-binding site [ion binding]; other site 376686001148 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 376686001149 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 376686001150 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686001151 MG2 domain; Region: A2M_N; pfam01835 376686001152 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 376686001153 Alpha-2-macroglobulin family; Region: A2M; pfam00207 376686001154 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 376686001155 Peptidase S46; Region: Peptidase_S46; pfam10459 376686001156 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 376686001157 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 376686001158 GTPase CgtA; Reviewed; Region: obgE; PRK12299 376686001159 GTP1/OBG; Region: GTP1_OBG; pfam01018 376686001160 Obg GTPase; Region: Obg; cd01898 376686001161 G1 box; other site 376686001162 GTP/Mg2+ binding site [chemical binding]; other site 376686001163 Switch I region; other site 376686001164 G2 box; other site 376686001165 G3 box; other site 376686001166 Switch II region; other site 376686001167 G4 box; other site 376686001168 G5 box; other site 376686001169 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 376686001170 Domain of unknown function DUF21; Region: DUF21; pfam01595 376686001171 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 376686001172 Transporter associated domain; Region: CorC_HlyC; smart01091 376686001173 adenylate kinase; Reviewed; Region: adk; PRK00279 376686001174 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 376686001175 AMP-binding site [chemical binding]; other site 376686001176 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 376686001177 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686001178 active site 376686001179 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 376686001180 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686001181 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 376686001182 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 376686001183 ATP-grasp domain; Region: ATP-grasp; pfam02222 376686001184 AIR carboxylase; Region: AIRC; pfam00731 376686001185 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 376686001186 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 376686001187 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 376686001188 active site 376686001189 Zn binding site [ion binding]; other site 376686001190 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 376686001191 putative active site [active] 376686001192 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 376686001193 HicB family; Region: HicB; pfam05534 376686001194 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 376686001195 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 376686001196 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 376686001197 Predicted transcriptional regulators [Transcription]; Region: COG1510 376686001198 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 376686001199 dimerization interface [polypeptide binding]; other site 376686001200 putative DNA binding site [nucleotide binding]; other site 376686001201 putative Zn2+ binding site [ion binding]; other site 376686001202 Uncharacterized conserved protein (COG2071); Region: DUF2071; pfam09844 376686001203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001204 TIGR01777 family protein; Region: yfcH 376686001205 NAD(P) binding site [chemical binding]; other site 376686001206 active site 376686001207 glycine dehydrogenase; Provisional; Region: PRK05367 376686001208 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 376686001209 tetramer interface [polypeptide binding]; other site 376686001210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686001211 catalytic residue [active] 376686001212 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 376686001213 tetramer interface [polypeptide binding]; other site 376686001214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686001215 catalytic residue [active] 376686001216 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 376686001217 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 376686001218 dimer interface [polypeptide binding]; other site 376686001219 active site 376686001220 CoA binding pocket [chemical binding]; other site 376686001221 Methyltransferase domain; Region: Methyltransf_23; pfam13489 376686001222 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686001223 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 376686001224 DXD motif; other site 376686001225 Permease; Region: Permease; pfam02405 376686001226 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 376686001227 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 376686001228 Walker A/P-loop; other site 376686001229 ATP binding site [chemical binding]; other site 376686001230 Q-loop/lid; other site 376686001231 ABC transporter signature motif; other site 376686001232 Walker B; other site 376686001233 D-loop; other site 376686001234 H-loop/switch region; other site 376686001235 SprT-like family; Region: SprT-like; pfam10263 376686001236 SprT homologues; Region: SprT; cl01182 376686001237 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686001238 four helix bundle protein; Region: TIGR02436 376686001239 short chain dehydrogenase; Provisional; Region: PRK12828 376686001240 classical (c) SDRs; Region: SDR_c; cd05233 376686001241 NAD(P) binding site [chemical binding]; other site 376686001242 active site 376686001243 M28 Zn-Peptidase IAP aminopeptidase may contain PA domain insert; Region: M28_like_5; cd08021 376686001244 Peptidase family M28; Region: Peptidase_M28; pfam04389 376686001245 metal binding site [ion binding]; metal-binding site 376686001246 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 376686001247 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 376686001248 FAD binding site [chemical binding]; other site 376686001249 homotetramer interface [polypeptide binding]; other site 376686001250 substrate binding pocket [chemical binding]; other site 376686001251 catalytic base [active] 376686001252 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 376686001253 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 376686001254 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 376686001255 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 376686001256 NAD(P) binding pocket [chemical binding]; other site 376686001257 Gram-negative bacterial tonB protein; Region: TonB; cl10048 376686001258 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 376686001259 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 376686001260 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 376686001261 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686001262 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 376686001263 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 376686001264 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 376686001265 S-adenosylmethionine binding site [chemical binding]; other site 376686001266 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 376686001267 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686001268 active site 376686001269 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 376686001270 MarR family; Region: MarR; pfam01047 376686001271 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686001272 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 376686001273 non-specific DNA binding site [nucleotide binding]; other site 376686001274 salt bridge; other site 376686001275 sequence-specific DNA binding site [nucleotide binding]; other site 376686001276 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 376686001277 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 376686001278 DNA binding residues [nucleotide binding] 376686001279 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686001280 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686001281 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 376686001282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686001283 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 376686001284 dimer interface [polypeptide binding]; other site 376686001285 phosphorylation site [posttranslational modification] 376686001286 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 376686001287 ATP binding site [chemical binding]; other site 376686001288 Mg2+ binding site [ion binding]; other site 376686001289 G-X-G motif; other site 376686001290 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 376686001291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686001292 active site 376686001293 phosphorylation site [posttranslational modification] 376686001294 intermolecular recognition site; other site 376686001295 dimerization interface [polypeptide binding]; other site 376686001296 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 376686001297 Walker A motif; other site 376686001298 ATP binding site [chemical binding]; other site 376686001299 Walker B motif; other site 376686001300 arginine finger; other site 376686001301 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 376686001302 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 376686001303 Walker A/P-loop; other site 376686001304 ATP binding site [chemical binding]; other site 376686001305 Q-loop/lid; other site 376686001306 ABC transporter signature motif; other site 376686001307 Walker B; other site 376686001308 D-loop; other site 376686001309 H-loop/switch region; other site 376686001310 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686001311 FtsX-like permease family; Region: FtsX; pfam02687 376686001312 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686001313 FtsX-like permease family; Region: FtsX; pfam02687 376686001314 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686001315 FtsX-like permease family; Region: FtsX; pfam02687 376686001316 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686001317 FtsX-like permease family; Region: FtsX; pfam02687 376686001318 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 376686001319 short chain dehydrogenase; Provisional; Region: PRK12828 376686001320 NADP binding site [chemical binding]; other site 376686001321 substrate binding site [chemical binding]; other site 376686001322 active site 376686001323 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686001324 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 376686001325 ligand binding site [chemical binding]; other site 376686001326 flexible hinge region; other site 376686001327 Nucleoside Triphosphate Pyrophosphohydrolase EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u6; cd11543 376686001328 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686001329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686001330 short chain dehydrogenase; Provisional; Region: PRK06180 376686001331 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686001332 NADP binding site [chemical binding]; other site 376686001333 active site 376686001334 steroid binding site; other site 376686001335 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cl00653 376686001336 Active_site [active] 376686001337 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 376686001338 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 376686001339 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686001340 FtsX-like permease family; Region: FtsX; pfam02687 376686001341 Flagellin N-methylase; Region: FliB; pfam03692 376686001342 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 376686001343 S-adenosylmethionine binding site [chemical binding]; other site 376686001344 metal-dependent hydrolase; Provisional; Region: PRK13291 376686001345 DinB superfamily; Region: DinB_2; pfam12867 376686001346 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 376686001347 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 376686001348 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 376686001349 TPR motif; other site 376686001350 binding surface 376686001351 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686001352 PBP superfamily domain; Region: PBP_like_2; pfam12849 376686001353 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 376686001354 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 376686001355 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 376686001356 AAA-like domain; Region: AAA_10; pfam12846 376686001357 Zonular occludens toxin (Zot); Region: Zot; cl17485 376686001358 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 376686001359 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 376686001360 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 376686001361 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 376686001362 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 376686001363 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686001364 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686001365 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686001366 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686001367 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686001368 Tetratricopeptide repeat; Region: TPR_16; pfam13432 376686001369 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 376686001370 TPR motif; other site 376686001371 Penicillin amidase; Region: Penicil_amidase; pfam01804 376686001372 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 376686001373 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 376686001374 active site 376686001375 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 376686001376 kynureninase; Region: kynureninase; TIGR01814 376686001377 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 376686001378 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 376686001379 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 376686001380 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 376686001381 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 376686001382 hinge; other site 376686001383 active site 376686001384 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 376686001385 homodimer interface [polypeptide binding]; other site 376686001386 metal binding site [ion binding]; metal-binding site 376686001387 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 376686001388 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 376686001389 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 376686001390 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 376686001391 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 376686001392 putative active site [active] 376686001393 dimerization interface [polypeptide binding]; other site 376686001394 putative tRNAtyr binding site [nucleotide binding]; other site 376686001395 GTPase RsgA; Reviewed; Region: PRK00098 376686001396 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 376686001397 RNA binding site [nucleotide binding]; other site 376686001398 homodimer interface [polypeptide binding]; other site 376686001399 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 376686001400 GTPase/Zn-binding domain interface [polypeptide binding]; other site 376686001401 GTP/Mg2+ binding site [chemical binding]; other site 376686001402 G4 box; other site 376686001403 G5 box; other site 376686001404 G1 box; other site 376686001405 Switch I region; other site 376686001406 G2 box; other site 376686001407 G3 box; other site 376686001408 Switch II region; other site 376686001409 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 376686001410 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 376686001411 Chorismate mutase type II; Region: CM_2; smart00830 376686001412 prephenate dehydrogenase; Validated; Region: PRK08507 376686001413 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 376686001414 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 376686001415 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 376686001416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686001417 homodimer interface [polypeptide binding]; other site 376686001418 catalytic residue [active] 376686001419 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 376686001420 Prephenate dehydratase; Region: PDT; pfam00800 376686001421 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 376686001422 putative L-Phe binding site [chemical binding]; other site 376686001423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 376686001424 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 376686001425 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 376686001426 ATP cone domain; Region: ATP-cone; pfam03477 376686001427 Class I ribonucleotide reductase; Region: RNR_I; cd01679 376686001428 active site 376686001429 dimer interface [polypeptide binding]; other site 376686001430 catalytic residues [active] 376686001431 effector binding site; other site 376686001432 R2 peptide binding site; other site 376686001433 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 376686001434 dimer interface [polypeptide binding]; other site 376686001435 putative radical transfer pathway; other site 376686001436 diiron center [ion binding]; other site 376686001437 tyrosyl radical; other site 376686001438 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 376686001439 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 376686001440 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 376686001441 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 376686001442 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686001443 C-terminal peptidase (prc); Region: prc; TIGR00225 376686001444 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 376686001445 protein binding site [polypeptide binding]; other site 376686001446 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 376686001447 Catalytic dyad [active] 376686001448 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 376686001449 catalytic motif [active] 376686001450 Zn binding site [ion binding]; other site 376686001451 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 376686001452 tellurium resistance terB-like protein; Region: terB_like; cd07177 376686001453 metal binding site [ion binding]; metal-binding site 376686001454 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 376686001455 AMP binding site [chemical binding]; other site 376686001456 metal binding site [ion binding]; metal-binding site 376686001457 active site 376686001458 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 376686001459 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686001460 Coenzyme A binding pocket [chemical binding]; other site 376686001461 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 376686001462 nucleotide binding site [chemical binding]; other site 376686001463 substrate binding site [chemical binding]; other site 376686001464 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686001465 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 376686001466 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686001467 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686001468 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686001469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686001470 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 376686001471 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 376686001472 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 376686001473 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 376686001474 dimer interface [polypeptide binding]; other site 376686001475 phosphorylation site [posttranslational modification] 376686001476 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 376686001477 ATP binding site [chemical binding]; other site 376686001478 Mg2+ binding site [ion binding]; other site 376686001479 G-X-G motif; other site 376686001480 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686001481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686001482 active site 376686001483 phosphorylation site [posttranslational modification] 376686001484 intermolecular recognition site; other site 376686001485 dimerization interface [polypeptide binding]; other site 376686001486 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 376686001487 DNA binding site [nucleotide binding] 376686001488 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686001489 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 376686001490 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 376686001491 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 376686001492 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686001493 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 376686001494 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686001495 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 376686001496 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 376686001497 active site 376686001498 HIGH motif; other site 376686001499 dimer interface [polypeptide binding]; other site 376686001500 KMSKS motif; other site 376686001501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001502 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 376686001503 NAD(P) binding site [chemical binding]; other site 376686001504 active site 376686001505 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 376686001506 dihydroorotase; Reviewed; Region: PRK09236 376686001507 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 376686001508 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 376686001509 active site 376686001510 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 376686001511 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 376686001512 Ligand binding site; other site 376686001513 Putative Catalytic site; other site 376686001514 DXD motif; other site 376686001515 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 376686001516 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 376686001517 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 376686001518 active site 376686001519 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 376686001520 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 376686001521 putative DNA binding site [nucleotide binding]; other site 376686001522 putative Zn2+ binding site [ion binding]; other site 376686001523 AsnC family; Region: AsnC_trans_reg; pfam01037 376686001524 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 376686001525 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686001526 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686001527 active site 376686001528 phosphorylation site [posttranslational modification] 376686001529 intermolecular recognition site; other site 376686001530 dimerization interface [polypeptide binding]; other site 376686001531 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 376686001532 DNA binding residues [nucleotide binding] 376686001533 dimerization interface [polypeptide binding]; other site 376686001534 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 376686001535 binding surface 376686001536 TPR motif; other site 376686001537 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686001538 Histidine kinase; Region: HisKA_3; pfam07730 376686001539 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 376686001540 ATP binding site [chemical binding]; other site 376686001541 Mg2+ binding site [ion binding]; other site 376686001542 G-X-G motif; other site 376686001543 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686001544 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686001545 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 376686001546 DNA binding residues [nucleotide binding] 376686001547 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 376686001548 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 376686001549 aminoacyl-tRNA ligase; Region: PLN02563 376686001550 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001551 active site 376686001552 HIGH motif; other site 376686001553 nucleotide binding site [chemical binding]; other site 376686001554 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001555 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 376686001556 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001557 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001558 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001559 active site 376686001560 KMSKS motif; other site 376686001561 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 376686001562 tRNA binding surface [nucleotide binding]; other site 376686001563 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 376686001564 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 376686001565 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 376686001566 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 376686001567 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 376686001568 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 376686001569 RNA binding site [nucleotide binding]; other site 376686001570 active site 376686001571 Thiol-disulfide isomerase and thioredoxins [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: TrxA; COG0526 376686001572 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 376686001573 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 376686001574 putative nucleotide binding site [chemical binding]; other site 376686001575 uridine monophosphate binding site [chemical binding]; other site 376686001576 homohexameric interface [polypeptide binding]; other site 376686001577 ribosome recycling factor; Reviewed; Region: frr; PRK00083 376686001578 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 376686001579 hinge region; other site 376686001580 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686001581 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 376686001582 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686001583 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 376686001584 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 376686001585 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686001586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686001587 active site 376686001588 phosphorylation site [posttranslational modification] 376686001589 intermolecular recognition site; other site 376686001590 dimerization interface [polypeptide binding]; other site 376686001591 LytTr DNA-binding domain; Region: LytTR; smart00850 376686001592 Histidine kinase; Region: His_kinase; pfam06580 376686001593 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 376686001594 Protein export membrane protein; Region: SecD_SecF; cl14618 376686001595 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 376686001596 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 376686001597 putative dimer interface [polypeptide binding]; other site 376686001598 putative anticodon binding site; other site 376686001599 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 376686001600 homodimer interface [polypeptide binding]; other site 376686001601 motif 1; other site 376686001602 motif 2; other site 376686001603 active site 376686001604 motif 3; other site 376686001605 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 376686001606 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 376686001607 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 376686001608 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 376686001609 thymidine kinase; Provisional; Region: PRK04296 376686001610 Predicted methyltransferases [General function prediction only]; Region: COG0313 376686001611 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 376686001612 putative SAM binding site [chemical binding]; other site 376686001613 putative homodimer interface [polypeptide binding]; other site 376686001614 HopJ type III effector protein; Region: HopJ; pfam08888 376686001615 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 376686001616 DHH family; Region: DHH; pfam01368 376686001617 DHHA1 domain; Region: DHHA1; pfam02272 376686001618 enterobactin exporter EntS; Provisional; Region: PRK10489 376686001619 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686001620 putative substrate translocation pore; other site 376686001621 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 376686001622 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 376686001623 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 376686001624 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 376686001625 heme-binding residues [chemical binding]; other site 376686001626 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 376686001627 putative active site [active] 376686001628 putative metal binding site [ion binding]; other site 376686001629 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 376686001630 active site 376686001631 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 376686001632 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 376686001633 substrate binding site [chemical binding]; other site 376686001634 oxyanion hole (OAH) forming residues; other site 376686001635 trimer interface [polypeptide binding]; other site 376686001636 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 376686001637 periplasmic chaperone; Provisional; Region: PRK10780 376686001638 Leucine rich repeat; Region: LRR_8; pfam13855 376686001639 Leucine rich repeat; Region: LRR_8; pfam13855 376686001640 Leucine rich repeat; Region: LRR_8; pfam13855 376686001641 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686001642 FOG: PKD repeat [General function prediction only]; Region: COG3291 376686001643 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686001644 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 376686001645 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 376686001646 Substrate binding site [chemical binding]; other site 376686001647 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 376686001648 Leucine rich repeat; Region: LRR_8; pfam13855 376686001649 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 376686001650 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; cd00198 376686001651 metal ion-dependent adhesion site (MIDAS); other site 376686001652 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686001653 Cytochrome c; Region: Cytochrom_C; cl11414 376686001654 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 376686001655 active site 376686001656 DNA binding site [nucleotide binding] 376686001657 Int/Topo IB signature motif; other site 376686001658 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686001659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 376686001660 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 376686001661 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 376686001662 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 376686001663 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 376686001664 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 376686001665 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 376686001666 Walker A motif; other site 376686001667 ATP binding site [chemical binding]; other site 376686001668 Walker B motif; other site 376686001669 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 376686001670 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 376686001671 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 376686001672 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686001673 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 376686001674 non-specific DNA binding site [nucleotide binding]; other site 376686001675 salt bridge; other site 376686001676 sequence-specific DNA binding site [nucleotide binding]; other site 376686001677 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 376686001678 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 376686001679 Transglycosylase; Region: Transgly; cl17702 376686001680 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 376686001681 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 376686001682 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 376686001683 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686001684 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686001685 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 376686001686 dimer interface [polypeptide binding]; other site 376686001687 phosphorylation site [posttranslational modification] 376686001688 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 376686001689 ATP binding site [chemical binding]; other site 376686001690 Mg2+ binding site [ion binding]; other site 376686001691 G-X-G motif; other site 376686001692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686001693 Response regulator receiver domain; Region: Response_reg; pfam00072 376686001694 active site 376686001695 phosphorylation site [posttranslational modification] 376686001696 intermolecular recognition site; other site 376686001697 dimerization interface [polypeptide binding]; other site 376686001698 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 376686001699 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686001700 active site 376686001701 phosphorylation site [posttranslational modification] 376686001702 intermolecular recognition site; other site 376686001703 dimerization interface [polypeptide binding]; other site 376686001704 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 376686001705 Walker A motif; other site 376686001706 ATP binding site [chemical binding]; other site 376686001707 Walker B motif; other site 376686001708 arginine finger; other site 376686001709 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 376686001710 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686001711 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686001712 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686001713 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686001714 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686001715 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 376686001716 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 376686001717 ATP-grasp domain; Region: ATP-grasp_4; cl17255 376686001718 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 376686001719 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 376686001720 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 376686001721 carboxyltransferase (CT) interaction site; other site 376686001722 biotinylation site [posttranslational modification]; other site 376686001723 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 376686001724 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 376686001725 dimer interface [polypeptide binding]; other site 376686001726 active site 376686001727 CoA binding pocket [chemical binding]; other site 376686001728 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 376686001729 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 376686001730 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 376686001731 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 376686001732 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 376686001733 Lumazine binding domain; Region: Lum_binding; pfam00677 376686001734 Lumazine binding domain; Region: Lum_binding; pfam00677 376686001735 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 376686001736 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 376686001737 cofactor binding site; other site 376686001738 DNA binding site [nucleotide binding] 376686001739 substrate interaction site [chemical binding]; other site 376686001740 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 376686001741 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 376686001742 mismatch recognition site; other site 376686001743 additional DNA contacts [nucleotide binding]; other site 376686001744 active site 376686001745 zinc binding site [ion binding]; other site 376686001746 DNA intercalation site [nucleotide binding]; other site 376686001747 Helix-turn-helix domain; Region: HTH_19; pfam12844 376686001748 non-specific DNA binding site [nucleotide binding]; other site 376686001749 salt bridge; other site 376686001750 sequence-specific DNA binding site [nucleotide binding]; other site 376686001751 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686001752 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 376686001753 dimer interface [polypeptide binding]; other site 376686001754 substrate binding site [chemical binding]; other site 376686001755 metal binding site [ion binding]; metal-binding site 376686001756 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 376686001757 Bacterial Ig-like domain; Region: Big_5; pfam13205 376686001758 Predicted amidohydrolase [General function prediction only]; Region: COG0388 376686001759 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 376686001760 putative active site [active] 376686001761 catalytic triad [active] 376686001762 dimer interface [polypeptide binding]; other site 376686001763 multimer interface [polypeptide binding]; other site 376686001764 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686001765 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686001766 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686001767 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 376686001768 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 376686001769 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686001770 fructuronate transporter; Provisional; Region: PRK10034; cl15264 376686001771 gluconate transporter; Region: gntP; TIGR00791 376686001772 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 376686001773 homotrimer interaction site [polypeptide binding]; other site 376686001774 putative active site [active] 376686001775 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 376686001776 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 376686001777 substrate binding site [chemical binding]; other site 376686001778 ATP binding site [chemical binding]; other site 376686001779 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 376686001780 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 376686001781 active site 376686001782 intersubunit interface [polypeptide binding]; other site 376686001783 catalytic residue [active] 376686001784 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase; Region: PLPDE_III_D-TA; cd06821 376686001785 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 376686001786 dimer interface [polypeptide binding]; other site 376686001787 active site 376686001788 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686001789 substrate binding site [chemical binding]; other site 376686001790 catalytic residue [active] 376686001791 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 376686001792 active site 376686001793 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 376686001794 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 376686001795 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 376686001796 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 376686001797 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 376686001798 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 376686001799 active site 376686001800 Fn3 associated; Region: Fn3_assoc; pfam13287 376686001801 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 376686001802 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 376686001803 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 376686001804 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 376686001805 L-aspartate oxidase; Provisional; Region: PRK06175 376686001806 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 376686001807 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 376686001808 putative Iron-sulfur protein interface [polypeptide binding]; other site 376686001809 proximal heme binding site [chemical binding]; other site 376686001810 distal heme binding site [chemical binding]; other site 376686001811 putative dimer interface [polypeptide binding]; other site 376686001812 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 376686001813 "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 376686001814 dimer interface [polypeptide binding]; other site 376686001815 active site 376686001816 LytTr DNA-binding domain; Region: LytTR; smart00850 376686001817 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686001818 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686001819 Coenzyme A binding pocket [chemical binding]; other site 376686001820 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 376686001821 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 376686001822 non-specific DNA binding site [nucleotide binding]; other site 376686001823 salt bridge; other site 376686001824 sequence-specific DNA binding site [nucleotide binding]; other site 376686001825 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 376686001826 proline aminopeptidase P II; Provisional; Region: PRK10879 376686001827 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 376686001828 active site 376686001829 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 376686001830 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 376686001831 Ferritin-like domain; Region: Ferritin; pfam00210 376686001832 ferroxidase diiron center [ion binding]; other site 376686001833 Uncharacterized conserved protein [Function unknown]; Region: COG2013 376686001834 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 376686001835 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 376686001836 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 376686001837 catalytic site [active] 376686001838 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 376686001839 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 376686001840 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686001841 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686001842 ligand binding site [chemical binding]; other site 376686001843 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 376686001844 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 376686001845 substrate-cofactor binding pocket; other site 376686001846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686001847 catalytic residue [active] 376686001848 Part of AAA domain; Region: AAA_19; pfam13245 376686001849 putative recombination protein RecB; Provisional; Region: PRK13909 376686001850 Family description; Region: UvrD_C_2; pfam13538 376686001851 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 376686001852 lipoprotein signal peptidase; Provisional; Region: PRK14787 376686001853 lipoprotein signal peptidase; Provisional; Region: PRK14788 376686001854 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 376686001855 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 376686001856 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 376686001857 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001858 active site 376686001859 HIGH motif; other site 376686001860 nucleotide binding site [chemical binding]; other site 376686001861 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001862 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001863 active site 376686001864 KMSKS motif; other site 376686001865 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 376686001866 tRNA binding surface [nucleotide binding]; other site 376686001867 anticodon binding site; other site 376686001868 Recombination protein O N terminal; Region: RecO_N; pfam11967 376686001869 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 376686001870 Recombination protein O C terminal; Region: RecO_C; pfam02565 376686001871 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686001872 glutamate dehydrogenase; Provisional; Region: PRK09414 376686001873 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 376686001874 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 376686001875 NAD(P) binding site [chemical binding]; other site 376686001876 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 376686001877 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 376686001878 homodimer interface [polypeptide binding]; other site 376686001879 substrate-cofactor binding pocket; other site 376686001880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686001881 catalytic residue [active] 376686001882 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 376686001883 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 376686001884 Divergent AAA domain; Region: AAA_4; pfam04326 376686001885 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 376686001886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001887 NAD(P) binding site [chemical binding]; other site 376686001888 active site 376686001889 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 376686001890 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 376686001891 active site 376686001892 catalytic tetrad [active] 376686001893 MoxR-like ATPases [General function prediction only]; Region: COG0714 376686001894 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 376686001895 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 376686001896 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; cd00198 376686001897 metal ion-dependent adhesion site (MIDAS); other site 376686001898 four helix bundle protein; Region: TIGR02436 376686001899 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686001900 Oxygen tolerance; Region: BatD; pfam13584 376686001901 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 376686001902 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 376686001903 metal ion-dependent adhesion site (MIDAS); other site 376686001904 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 376686001905 metal ion-dependent adhesion site (MIDAS); other site 376686001906 TPR repeat; Region: TPR_11; pfam13414 376686001907 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 376686001908 binding surface 376686001909 TPR motif; other site 376686001910 Oxygen tolerance; Region: BatD; pfam13584 376686001911 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 376686001912 binding surface 376686001913 Tetratricopeptide repeat; Region: TPR_16; pfam13432 376686001914 TPR motif; other site 376686001915 Bacterial SH3 domain; Region: SH3_4; pfam06347 376686001916 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 376686001917 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 376686001918 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 376686001919 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 376686001920 putative active site [active] 376686001921 Zn binding site [ion binding]; other site 376686001922 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 376686001923 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 376686001924 GIY-YIG motif/motif A; other site 376686001925 active site 376686001926 catalytic site [active] 376686001927 putative DNA binding site [nucleotide binding]; other site 376686001928 metal binding site [ion binding]; metal-binding site 376686001929 UvrB/uvrC motif; Region: UVR; pfam02151 376686001930 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 376686001931 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 376686001932 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 376686001933 active site 376686001934 nucleophile elbow; other site 376686001935 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 376686001936 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 376686001937 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 376686001938 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 376686001939 dimer interface [polypeptide binding]; other site 376686001940 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 376686001941 active site 376686001942 Fe binding site [ion binding]; other site 376686001943 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 376686001944 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 376686001945 putative peptidase; Provisional; Region: PRK11649 376686001946 Peptidase family M23; Region: Peptidase_M23; pfam01551 376686001947 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 376686001948 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 376686001949 active site 376686001950 dimer interface [polypeptide binding]; other site 376686001951 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 376686001952 dimer interface [polypeptide binding]; other site 376686001953 active site 376686001954 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686001955 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686001956 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686001957 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 376686001958 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 376686001959 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 376686001960 DinB superfamily; Region: DinB_2; pfam12867 376686001961 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 376686001962 ArsC family; Region: ArsC; pfam03960 376686001963 catalytic residue [active] 376686001964 hypothetical protein; Provisional; Region: PRK11820 376686001965 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 376686001966 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 376686001967 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 376686001968 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 376686001969 catalytic site [active] 376686001970 G-X2-G-X-G-K; other site 376686001971 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 376686001972 four helix bundle protein; Region: TIGR02436 376686001973 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 376686001974 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 376686001975 active site 376686001976 (T/H)XGH motif; other site 376686001977 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 376686001978 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 376686001979 active site 376686001980 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 376686001981 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686001982 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 376686001983 active site 376686001984 metal binding site [ion binding]; metal-binding site 376686001985 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 376686001986 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 376686001987 Macro domain, Poa1p_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 ADP-ribose...; Region: Macro_Poa1p_like; cd02901 376686001988 ADP-ribose binding site [chemical binding]; other site 376686001989 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 376686001990 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 376686001991 TIGR02452 family protein; Region: TIGR02452 376686001992 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 376686001993 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 376686001994 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 376686001995 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686001996 active site 376686001997 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 376686001998 nudix motif; other site 376686001999 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 376686002000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 376686002001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 376686002002 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 376686002003 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 376686002004 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 376686002005 dimer interface [polypeptide binding]; other site 376686002006 active site 376686002007 metal binding site [ion binding]; metal-binding site 376686002008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 376686002009 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 376686002010 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 376686002011 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 376686002012 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686002013 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686002014 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 376686002015 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686002016 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 376686002017 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 376686002018 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 376686002019 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 376686002020 dimer interface [polypeptide binding]; other site 376686002021 motif 1; other site 376686002022 active site 376686002023 motif 2; other site 376686002024 motif 3; other site 376686002025 Colicin V production protein; Region: Colicin_V; pfam02674 376686002026 maltose phosphorylase; Provisional; Region: PRK13807 376686002027 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686002028 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686002029 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686002030 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 376686002031 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 376686002032 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686002033 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686002034 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 376686002035 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 376686002036 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686002037 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 376686002038 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 376686002039 active site 376686002040 catalytic site [active] 376686002041 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 376686002042 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686002043 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686002044 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686002045 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 376686002046 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686002047 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686002048 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686002049 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686002050 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 376686002051 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 376686002052 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 376686002053 nudix motif; other site 376686002054 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 376686002055 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 376686002056 nudix motif; other site 376686002057 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 376686002058 GTP-binding protein LepA; Provisional; Region: PRK05433 376686002059 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 376686002060 G1 box; other site 376686002061 putative GEF interaction site [polypeptide binding]; other site 376686002062 GTP/Mg2+ binding site [chemical binding]; other site 376686002063 Switch I region; other site 376686002064 G2 box; other site 376686002065 G3 box; other site 376686002066 Switch II region; other site 376686002067 G4 box; other site 376686002068 G5 box; other site 376686002069 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 376686002070 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 376686002071 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 376686002072 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 376686002073 Predicted transcriptional regulator [Transcription]; Region: COG2378 376686002074 HTH domain; Region: HTH_11; pfam08279 376686002075 WYL domain; Region: WYL; pfam13280 376686002076 DinB family; Region: DinB; cl17821 376686002077 DinB superfamily; Region: DinB_2; pfam12867 376686002078 DinB family; Region: DinB; cl17821 376686002079 DinB superfamily; Region: DinB_2; pfam12867 376686002080 thiamine-monophosphate kinase; Region: thiL; TIGR01379 376686002081 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 376686002082 ATP binding site [chemical binding]; other site 376686002083 dimerization interface [polypeptide binding]; other site 376686002084 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686002085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686002086 active site 376686002087 phosphorylation site [posttranslational modification] 376686002088 intermolecular recognition site; other site 376686002089 dimerization interface [polypeptide binding]; other site 376686002090 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686002091 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 376686002092 binding surface 376686002093 TPR motif; other site 376686002094 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686002095 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686002096 Histidine kinase; Region: HisKA_3; pfam07730 376686002097 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 376686002098 ATP binding site [chemical binding]; other site 376686002099 Mg2+ binding site [ion binding]; other site 376686002100 G-X-G motif; other site 376686002101 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686002102 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686002103 active site 376686002104 phosphorylation site [posttranslational modification] 376686002105 intermolecular recognition site; other site 376686002106 dimerization interface [polypeptide binding]; other site 376686002107 LytTr DNA-binding domain; Region: LytTR; smart00850 376686002108 glycyl-tRNA synthetase; Provisional; Region: PRK04173 376686002109 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 376686002110 motif 1; other site 376686002111 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 376686002112 active site 376686002113 motif 2; other site 376686002114 motif 3; other site 376686002115 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 376686002116 anticodon binding site; other site 376686002117 comF family protein; Region: comF; TIGR00201 376686002118 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686002119 active site 376686002120 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 376686002121 active site 376686002122 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 376686002123 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 376686002124 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686002125 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 376686002126 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 376686002127 active site 376686002128 Riboflavin kinase; Region: Flavokinase; pfam01687 376686002129 biotin synthase; Region: bioB; TIGR00433 376686002130 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 376686002131 FeS/SAM binding site; other site 376686002132 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 376686002133 Cupin-like domain; Region: Cupin_8; pfam13621 376686002134 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686002135 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002136 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002137 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002138 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002139 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002140 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002141 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686002142 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686002143 PA14 domain; Region: PA14; cl08459 376686002144 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686002145 RecX family; Region: RecX; pfam02631 376686002146 Galactose binding lectin domain; Region: Gal_Lectin; pfam02140 376686002147 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686002148 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 376686002149 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 376686002150 active site 376686002151 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 376686002152 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 376686002153 inhibitor-cofactor binding pocket; inhibition site 376686002154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686002155 catalytic residue [active] 376686002156 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 376686002157 AAA domain; Region: AAA_26; pfam13500 376686002158 TraB family; Region: TraB; pfam01963 376686002159 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 376686002160 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 376686002161 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 376686002162 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686002163 catalytic residue [active] 376686002164 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 376686002165 NADH(P)-binding; Region: NAD_binding_10; pfam13460 376686002166 NAD binding site [chemical binding]; other site 376686002167 substrate binding site [chemical binding]; other site 376686002168 putative active site [active] 376686002169 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 376686002170 gamma subunit interface [polypeptide binding]; other site 376686002171 LBP interface [polypeptide binding]; other site 376686002172 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 376686002173 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 376686002174 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 376686002175 alpha subunit interaction interface [polypeptide binding]; other site 376686002176 Walker A motif; other site 376686002177 ATP binding site [chemical binding]; other site 376686002178 Walker B motif; other site 376686002179 inhibitor binding site; inhibition site 376686002180 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 376686002181 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 376686002182 catalytic triad [active] 376686002183 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686002184 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686002185 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686002186 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 376686002187 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 376686002188 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 376686002189 glutaminase active site [active] 376686002190 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 376686002191 dimer interface [polypeptide binding]; other site 376686002192 active site 376686002193 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 376686002194 dimer interface [polypeptide binding]; other site 376686002195 active site 376686002196 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 376686002197 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 376686002198 Pantoate-beta-alanine ligase; Region: PanC; cd00560 376686002199 pantoate--beta-alanine ligase; Region: panC; TIGR00018 376686002200 active site 376686002201 ATP-binding site [chemical binding]; other site 376686002202 pantoate-binding site; other site 376686002203 HXXH motif; other site 376686002204 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 376686002205 tetramerization interface [polypeptide binding]; other site 376686002206 active site 376686002207 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 376686002208 DNA repair protein RadA; Provisional; Region: PRK11823 376686002209 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 376686002210 Walker A motif/ATP binding site; other site 376686002211 ATP binding site [chemical binding]; other site 376686002212 Walker B motif; other site 376686002213 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 376686002214 Transglycosylase; Region: Transgly; pfam00912 376686002215 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 376686002216 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 376686002217 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 376686002218 active site 376686002219 catalytic tetrad [active] 376686002220 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686002221 ligand binding site [chemical binding]; other site 376686002222 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 376686002223 putative active site [active] 376686002224 putative catalytic site [active] 376686002225 putative DNA binding site [nucleotide binding]; other site 376686002226 putative phosphate binding site [ion binding]; other site 376686002227 metal binding site A [ion binding]; metal-binding site 376686002228 putative AP binding site [nucleotide binding]; other site 376686002229 putative metal binding site B [ion binding]; other site 376686002230 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 376686002231 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 376686002232 putative acyl-acceptor binding pocket; other site 376686002233 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 376686002234 Protein of unknown function (DUF805); Region: DUF805; pfam05656 376686002235 TM2 domain; Region: TM2; pfam05154 376686002236 Protein of unknown function (DUF805); Region: DUF805; pfam05656 376686002237 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 376686002238 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_14; cd12179 376686002239 putative ligand binding site [chemical binding]; other site 376686002240 putative NAD binding site [chemical binding]; other site 376686002241 catalytic site [active] 376686002242 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 376686002243 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 376686002244 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 376686002245 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 376686002246 MgtE intracellular N domain; Region: MgtE_N; smart00924 376686002247 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 376686002248 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 376686002249 Divalent cation transporter; Region: MgtE; pfam01769 376686002250 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 376686002251 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 376686002252 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 376686002253 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 376686002254 binding surface 376686002255 TPR motif; other site 376686002256 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 376686002257 seryl-tRNA synthetase; Provisional; Region: PRK05431 376686002258 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 376686002259 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 376686002260 dimer interface [polypeptide binding]; other site 376686002261 active site 376686002262 motif 1; other site 376686002263 motif 2; other site 376686002264 motif 3; other site 376686002265 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 376686002266 binding surface 376686002267 TPR motif; other site 376686002268 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 376686002269 binding surface 376686002270 TPR motif; other site 376686002271 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686002272 PrcB C-terminal; Region: PrcB_C; pfam14343 376686002273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 376686002274 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 376686002275 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 376686002276 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 376686002277 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 376686002278 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 376686002279 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 376686002280 active site 376686002281 HIGH motif; other site 376686002282 KMSKS motif; other site 376686002283 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 376686002284 tRNA binding surface [nucleotide binding]; other site 376686002285 anticodon binding site; other site 376686002286 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 376686002287 dimer interface [polypeptide binding]; other site 376686002288 putative tRNA-binding site [nucleotide binding]; other site 376686002289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 376686002290 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 376686002291 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 376686002292 EamA-like transporter family; Region: EamA; pfam00892 376686002293 EamA-like transporter family; Region: EamA; pfam00892 376686002294 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 376686002295 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 376686002296 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 376686002297 motif II; other site 376686002298 Chloramphenicol acetyltransferase; Region: CAT; smart01059 376686002299 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 376686002300 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 376686002301 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686002302 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686002303 ligand binding site [chemical binding]; other site 376686002304 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 376686002305 Ferritin-like domain; Region: Ferritin; pfam00210 376686002306 ferroxidase diiron center [ion binding]; other site 376686002307 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 376686002308 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 376686002309 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 376686002310 dimer interface [polypeptide binding]; other site 376686002311 ssDNA binding site [nucleotide binding]; other site 376686002312 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686002313 Predicted amidohydrolase [General function prediction only]; Region: COG0388 376686002314 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 376686002315 putative active site [active] 376686002316 catalytic triad [active] 376686002317 putative dimer interface [polypeptide binding]; other site 376686002318 M28 Zn-peptidase Endoplasmic reticulum metallopeptidase 1; Region: M28_Fxna_like; cd03875 376686002319 Peptidase family M28; Region: Peptidase_M28; pfam04389 376686002320 metal binding site [ion binding]; metal-binding site 376686002321 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 376686002322 active site residue [active] 376686002323 Transcriptional regulator [Transcription]; Region: LysR; COG0583 376686002324 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 376686002325 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 376686002326 dimerization interface [polypeptide binding]; other site 376686002327 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686002328 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686002329 Coenzyme A binding pocket [chemical binding]; other site 376686002330 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686002331 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 376686002332 putative NAD(P) binding site [chemical binding]; other site 376686002333 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 376686002334 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 376686002335 DNA binding site [nucleotide binding] 376686002336 active site 376686002337 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 376686002338 active site 376686002339 catalytic site [active] 376686002340 substrate binding site [chemical binding]; other site 376686002341 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 376686002342 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 376686002343 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 376686002344 fumarate hydratase; Provisional; Region: PRK15389 376686002345 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 376686002346 Fumarase C-terminus; Region: Fumerase_C; pfam05683 376686002347 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 376686002348 PAS domain; Region: PAS_9; pfam13426 376686002349 putative active site [active] 376686002350 heme pocket [chemical binding]; other site 376686002351 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 376686002352 active site 376686002353 DNA polymerase IV; Validated; Region: PRK02406 376686002354 DNA binding site [nucleotide binding] 376686002355 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686002356 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 376686002357 active site 376686002358 metal binding site [ion binding]; metal-binding site 376686002359 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 376686002360 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 376686002361 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 376686002362 active site 376686002363 Zn binding site [ion binding]; other site 376686002364 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686002365 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 376686002366 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 376686002367 Transglycosylase; Region: Transgly; pfam00912 376686002368 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 376686002369 GldH lipoprotein; Region: GldH_lipo; pfam14109 376686002370 PSP1 C-terminal conserved region; Region: PSP1; cl00770 376686002371 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 376686002372 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 376686002373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 376686002374 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 376686002375 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 376686002376 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 376686002377 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686002378 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 376686002379 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686002380 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 376686002381 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686002382 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 376686002383 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 376686002384 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 376686002385 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686002386 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 376686002387 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 376686002388 Peptidase family U32; Region: Peptidase_U32; pfam01136 376686002389 Transposase IS200 like; Region: Y1_Tnp; pfam01797 376686002390 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 376686002391 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 376686002392 active site residue [active] 376686002393 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686002394 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686002395 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686002396 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 376686002397 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 376686002398 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 376686002399 non-specific DNA binding site [nucleotide binding]; other site 376686002400 salt bridge; other site 376686002401 sequence-specific DNA binding site [nucleotide binding]; other site 376686002402 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 376686002403 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 376686002404 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 376686002405 Domain of unknown function (DUF955); Region: DUF955; pfam06114 376686002406 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 376686002407 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 376686002408 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 376686002409 putative DNA binding site [nucleotide binding]; other site 376686002410 dimerization interface [polypeptide binding]; other site 376686002411 putative Zn2+ binding site [ion binding]; other site 376686002412 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 376686002413 lycopene cyclase; Region: lycopene_cycl; TIGR01789 376686002414 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 376686002415 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686002416 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 376686002417 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 376686002418 N-terminal plug; other site 376686002419 ligand-binding site [chemical binding]; other site 376686002420 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 376686002421 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 376686002422 MerC mercury resistance protein; Region: MerC; cl03934 376686002423 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 376686002424 metal binding site 2 [ion binding]; metal-binding site 376686002425 putative DNA binding helix; other site 376686002426 metal binding site 1 [ion binding]; metal-binding site 376686002427 dimer interface [polypeptide binding]; other site 376686002428 structural Zn2+ binding site [ion binding]; other site 376686002429 manganese transport protein MntH; Reviewed; Region: PRK00701 376686002430 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 376686002431 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 376686002432 Ligand Binding Site [chemical binding]; other site 376686002433 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 376686002434 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 376686002435 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 376686002436 FeoA domain; Region: FeoA; pfam04023 376686002437 enoyl-CoA hydratase; Provisional; Region: PRK07658 376686002438 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 376686002439 substrate binding site [chemical binding]; other site 376686002440 oxyanion hole (OAH) forming residues; other site 376686002441 trimer interface [polypeptide binding]; other site 376686002442 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686002443 HAMP domain; Region: HAMP; pfam00672 376686002444 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 376686002445 dimer interface [polypeptide binding]; other site 376686002446 phosphorylation site [posttranslational modification] 376686002447 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 376686002448 ATP binding site [chemical binding]; other site 376686002449 Mg2+ binding site [ion binding]; other site 376686002450 G-X-G motif; other site 376686002451 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 376686002452 ferrochelatase; Reviewed; Region: hemH; PRK00035 376686002453 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 376686002454 C-terminal domain interface [polypeptide binding]; other site 376686002455 active site 376686002456 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 376686002457 active site 376686002458 N-terminal domain interface [polypeptide binding]; other site 376686002459 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 376686002460 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686002461 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686002462 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 376686002463 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 376686002464 NAD(P) binding pocket [chemical binding]; other site 376686002465 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 376686002466 GxxExxY protein; Region: GxxExxY; TIGR04256 376686002467 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 376686002468 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 376686002469 domain interfaces; other site 376686002470 active site 376686002471 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 376686002472 active site 376686002473 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 376686002474 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 376686002475 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 376686002476 substrate binding site [chemical binding]; other site 376686002477 active site 376686002478 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 376686002479 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686002480 Coenzyme A binding pocket [chemical binding]; other site 376686002481 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 376686002482 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 376686002483 Transposase IS200 like; Region: Y1_Tnp; pfam01797 376686002484 Domain of unknown function (DUF4421); Region: DUF4421; pfam14391 376686002485 Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria; Region: FBP_aldolase_I_bact; cd00949 376686002486 putative active site [active] 376686002487 catalytic residue [active] 376686002488 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 376686002489 dimer interface [polypeptide binding]; other site 376686002490 allosteric magnesium binding site [ion binding]; other site 376686002491 active site 376686002492 aspartate-rich active site metal binding site; other site 376686002493 Schiff base residues; other site 376686002494 Cytochrome c; Region: Cytochrom_C; cl11414 376686002495 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 376686002496 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 376686002497 active site 376686002498 Zn binding site [ion binding]; other site 376686002499 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 376686002500 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 376686002501 Cu(I) binding site [ion binding]; other site 376686002502 FeoA domain; Region: FeoA; pfam04023 376686002503 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 376686002504 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 376686002505 G1 box; other site 376686002506 GTP/Mg2+ binding site [chemical binding]; other site 376686002507 Switch I region; other site 376686002508 G2 box; other site 376686002509 G3 box; other site 376686002510 Switch II region; other site 376686002511 G4 box; other site 376686002512 G5 box; other site 376686002513 Nucleoside recognition; Region: Gate; pfam07670 376686002514 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 376686002515 Nucleoside recognition; Region: Gate; pfam07670 376686002516 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 376686002517 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 376686002518 Zn2+ binding site [ion binding]; other site 376686002519 Mg2+ binding site [ion binding]; other site 376686002520 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 376686002521 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 376686002522 homodimer interface [polypeptide binding]; other site 376686002523 putative substrate binding pocket [chemical binding]; other site 376686002524 diiron center [ion binding]; other site 376686002525 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 376686002526 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 376686002527 putative acyl-acceptor binding pocket; other site 376686002528 ribonuclease P; Reviewed; Region: rnpA; PRK01903 376686002529 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 376686002530 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 376686002531 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686002532 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 376686002533 protein binding site [polypeptide binding]; other site 376686002534 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 376686002535 Catalytic dyad [active] 376686002536 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686002537 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686002538 ligand binding site [chemical binding]; other site 376686002539 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686002540 ligand binding site [chemical binding]; other site 376686002541 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 376686002542 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 376686002543 N-acetyl-D-glucosamine binding site [chemical binding]; other site 376686002544 catalytic residue [active] 376686002545 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686002546 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686002547 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686002548 Phosphoglycerate kinase; Region: PGK; pfam00162 376686002549 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 376686002550 substrate binding site [chemical binding]; other site 376686002551 hinge regions; other site 376686002552 ADP binding site [chemical binding]; other site 376686002553 catalytic site [active] 376686002554 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 376686002555 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002556 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002557 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002558 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002559 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002560 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002561 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002562 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 376686002563 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 376686002564 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 376686002565 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 376686002566 DNA polymerase III subunit delta'; Validated; Region: PRK08485 376686002567 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 376686002568 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 376686002569 recombinase A; Provisional; Region: recA; PRK09354 376686002570 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 376686002571 hexamer interface [polypeptide binding]; other site 376686002572 Walker A motif; other site 376686002573 ATP binding site [chemical binding]; other site 376686002574 Walker B motif; other site 376686002575 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 376686002576 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 376686002577 putative acyl-acceptor binding pocket; other site 376686002578 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 376686002579 active site 376686002580 HIGH motif; other site 376686002581 dimer interface [polypeptide binding]; other site 376686002582 KMSKS motif; other site 376686002583 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686002584 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686002585 active site 376686002586 phosphorylation site [posttranslational modification] 376686002587 intermolecular recognition site; other site 376686002588 dimerization interface [polypeptide binding]; other site 376686002589 LytTr DNA-binding domain; Region: LytTR; smart00850 376686002590 Histidine kinase; Region: His_kinase; pfam06580 376686002591 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 376686002592 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 376686002593 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 376686002594 DNA protecting protein DprA; Region: dprA; TIGR00732 376686002595 Sporulation related domain; Region: SPOR; pfam05036 376686002596 PIF1-like helicase; Region: PIF1; pfam05970 376686002597 AAA domain; Region: AAA_30; pfam13604 376686002598 Helicase; Region: Herpes_Helicase; pfam02689 376686002599 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 376686002600 Methyltransferase domain; Region: Methyltransf_31; pfam13847 376686002601 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 376686002602 S-adenosylmethionine binding site [chemical binding]; other site 376686002603 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 376686002604 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 376686002605 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 376686002606 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 376686002607 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 376686002608 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 376686002609 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 376686002610 HIGH motif; other site 376686002611 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 376686002612 active site 376686002613 KMSKS motif; other site 376686002614 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 376686002615 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 376686002616 YtxH-like protein; Region: YtxH; pfam12732 376686002617 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 376686002618 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686002619 active site 376686002620 HIGH motif; other site 376686002621 nucleotide binding site [chemical binding]; other site 376686002622 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686002623 active site 376686002624 KMSKS motif; other site 376686002625 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 376686002626 Dihydroneopterin aldolase; Region: FolB; pfam02152 376686002627 active site 376686002628 LysE type translocator; Region: LysE; cl00565 376686002629 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 376686002630 ribonuclease R; Region: RNase_R; TIGR02063 376686002631 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 376686002632 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 376686002633 RNB domain; Region: RNB; pfam00773 376686002634 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 376686002635 RNA binding site [nucleotide binding]; other site 376686002636 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 376686002637 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 376686002638 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 376686002639 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 376686002640 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 376686002641 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 376686002642 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 376686002643 RNA binding site [nucleotide binding]; other site 376686002644 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 376686002645 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686002646 GH3 auxin-responsive promoter; Region: GH3; pfam03321 376686002647 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 376686002648 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 376686002649 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 376686002650 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686002651 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 376686002652 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686002653 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 376686002654 putative ADP-binding pocket [chemical binding]; other site 376686002655 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686002656 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 376686002657 NAD binding site [chemical binding]; other site 376686002658 putative substrate binding site 2 [chemical binding]; other site 376686002659 putative substrate binding site 1 [chemical binding]; other site 376686002660 active site 376686002661 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686002662 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 376686002663 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 376686002664 active site 376686002665 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 376686002666 homodimer interface [polypeptide binding]; other site 376686002667 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 376686002668 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 376686002669 active site 376686002670 AMP binding site [chemical binding]; other site 376686002671 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 376686002672 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 376686002673 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 376686002674 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 376686002675 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686002676 active site 376686002677 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 376686002678 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 376686002679 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 376686002680 putative active site [active] 376686002681 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 376686002682 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 376686002683 FAD binding pocket [chemical binding]; other site 376686002684 FAD binding motif [chemical binding]; other site 376686002685 phosphate binding motif [ion binding]; other site 376686002686 beta-alpha-beta structure motif; other site 376686002687 NAD(p) ribose binding residues [chemical binding]; other site 376686002688 NAD binding pocket [chemical binding]; other site 376686002689 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 376686002690 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 376686002691 catalytic loop [active] 376686002692 iron binding site [ion binding]; other site 376686002693 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 376686002694 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 376686002695 Walker A/P-loop; other site 376686002696 ATP binding site [chemical binding]; other site 376686002697 Q-loop/lid; other site 376686002698 ABC transporter signature motif; other site 376686002699 Walker B; other site 376686002700 D-loop; other site 376686002701 H-loop/switch region; other site 376686002702 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686002703 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 376686002704 binding surface 376686002705 TPR motif; other site 376686002706 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 376686002707 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 376686002708 ATP synthase A chain; Region: ATP-synt_A; cl00413 376686002709 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471 376686002710 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 376686002711 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 376686002712 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 376686002713 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 376686002714 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 376686002715 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 376686002716 beta subunit interaction interface [polypeptide binding]; other site 376686002717 Walker A motif; other site 376686002718 ATP binding site [chemical binding]; other site 376686002719 Walker B motif; other site 376686002720 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 376686002721 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 376686002722 core domain interface [polypeptide binding]; other site 376686002723 delta subunit interface [polypeptide binding]; other site 376686002724 epsilon subunit interface [polypeptide binding]; other site 376686002725 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686002726 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686002727 Coenzyme A binding pocket [chemical binding]; other site 376686002728 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 376686002729 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 376686002730 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 376686002731 trimer interface [polypeptide binding]; other site 376686002732 active site 376686002733 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 376686002734 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 376686002735 active site 376686002736 Substrate binding site; other site 376686002737 Mg++ binding site; other site 376686002738 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 376686002739 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 376686002740 TPR motif; other site 376686002741 TPR repeat; Region: TPR_11; pfam13414 376686002742 binding surface 376686002743 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 376686002744 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 376686002745 Peptidase family M23; Region: Peptidase_M23; pfam01551 376686002746 FOG: CBS domain [General function prediction only]; Region: COG0517 376686002747 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 376686002748 Ribosome-binding factor A; Region: RBFA; pfam02033 376686002749 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686002750 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 376686002751 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 376686002752 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_14; cd13139 376686002753 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 376686002754 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 376686002755 FMN binding site [chemical binding]; other site 376686002756 active site 376686002757 catalytic residues [active] 376686002758 substrate binding site [chemical binding]; other site 376686002759 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 376686002760 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 376686002761 acyl-activating enzyme (AAE) consensus motif; other site 376686002762 AMP binding site [chemical binding]; other site 376686002763 active site 376686002764 CoA binding site [chemical binding]; other site 376686002765 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 376686002766 active site 376686002767 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 376686002768 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 376686002769 Predicted exporter [General function prediction only]; Region: COG4258 376686002770 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 376686002771 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 376686002772 putative acyl-acceptor binding pocket; other site 376686002773 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686002774 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 376686002775 Ligand binding site; other site 376686002776 Putative Catalytic site; other site 376686002777 DXD motif; other site 376686002778 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 376686002779 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 376686002780 active site 2 [active] 376686002781 dimer interface [polypeptide binding]; other site 376686002782 active site 1 [active] 376686002783 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 376686002784 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 376686002785 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 376686002786 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 376686002787 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 376686002788 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 376686002789 NodB motif; other site 376686002790 active site 376686002791 catalytic site [active] 376686002792 metal binding site [ion binding]; metal-binding site 376686002793 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 376686002794 active site 376686002795 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 376686002796 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 376686002797 dimer interface [polypeptide binding]; other site 376686002798 active site 376686002799 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686002800 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 376686002801 Virulence protein [General function prediction only]; Region: COG3943 376686002802 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 376686002803 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 376686002804 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 376686002805 dimer interface [polypeptide binding]; other site 376686002806 active site 376686002807 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 376686002808 active site 376686002809 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 376686002810 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 376686002811 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 376686002812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686002813 Walker A/P-loop; other site 376686002814 ATP binding site [chemical binding]; other site 376686002815 Q-loop/lid; other site 376686002816 ABC transporter signature motif; other site 376686002817 Walker B; other site 376686002818 D-loop; other site 376686002819 H-loop/switch region; other site 376686002820 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 376686002821 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 376686002822 active site 1 [active] 376686002823 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 376686002824 "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 376686002825 dimer interface [polypeptide binding]; other site 376686002826 active site 376686002827 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 376686002828 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 376686002829 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 376686002830 putative acyl-acceptor binding pocket; other site 376686002831 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686002832 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 376686002833 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 376686002834 dimer interface [polypeptide binding]; other site 376686002835 active site 376686002836 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 376686002837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002838 NAD(P) binding site [chemical binding]; other site 376686002839 active site 376686002840 KWG Leptospira; Region: KWG; pfam07656 376686002841 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 376686002842 active sites [active] 376686002843 tetramer interface [polypeptide binding]; other site 376686002844 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 376686002845 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 376686002846 Na binding site [ion binding]; other site 376686002847 substrate binding site [chemical binding]; other site 376686002848 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 376686002849 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 376686002850 dimer interface [polypeptide binding]; other site 376686002851 active site 376686002852 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 376686002853 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 376686002854 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 376686002855 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 376686002856 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 376686002857 active site 376686002858 catalytic residues [active] 376686002859 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686002860 DNA-binding site [nucleotide binding]; DNA binding site 376686002861 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 376686002862 putative dimerization interface [polypeptide binding]; other site 376686002863 putative ligand binding site [chemical binding]; other site 376686002864 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686002865 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 376686002866 nudix motif; other site 376686002867 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 376686002868 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 376686002869 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 376686002870 ribulokinase; Provisional; Region: PRK04123 376686002871 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 376686002872 N- and C-terminal domain interface [polypeptide binding]; other site 376686002873 active site 376686002874 MgATP binding site [chemical binding]; other site 376686002875 catalytic site [active] 376686002876 metal binding site [ion binding]; metal-binding site 376686002877 carbohydrate binding site [chemical binding]; other site 376686002878 homodimer interface [polypeptide binding]; other site 376686002879 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 376686002880 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 376686002881 intersubunit interface [polypeptide binding]; other site 376686002882 active site 376686002883 Zn2+ binding site [ion binding]; other site 376686002884 L-arabinose isomerase; Provisional; Region: PRK02929 376686002885 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 376686002886 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 376686002887 trimer interface [polypeptide binding]; other site 376686002888 putative substrate binding site [chemical binding]; other site 376686002889 putative metal binding site [ion binding]; other site 376686002890 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 376686002891 active site 376686002892 catalytic residues [active] 376686002893 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 376686002894 OsmC-like protein; Region: OsmC; cl00767 376686002895 Helix-turn-helix domain; Region: HTH_19; pfam12844 376686002896 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 376686002897 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 376686002898 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686002899 active site 376686002900 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 376686002901 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 376686002902 5S rRNA interface [nucleotide binding]; other site 376686002903 CTC domain interface [polypeptide binding]; other site 376686002904 L16 interface [polypeptide binding]; other site 376686002905 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 376686002906 putative active site [active] 376686002907 catalytic residue [active] 376686002908 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 376686002909 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 376686002910 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 376686002911 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 376686002912 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 376686002913 active site 376686002914 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 376686002915 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 376686002916 substrate binding site [chemical binding]; other site 376686002917 ATP binding site [chemical binding]; other site 376686002918 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 376686002919 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686002920 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; cl17257 376686002921 DNA binding residues [nucleotide binding] 376686002922 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 376686002923 RNA/DNA hybrid binding site [nucleotide binding]; other site 376686002924 active site 376686002925 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 376686002926 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 376686002927 active site 376686002928 substrate binding site [chemical binding]; other site 376686002929 cosubstrate binding site; other site 376686002930 catalytic site [active] 376686002931 acyl carrier protein; Provisional; Region: acpP; PRK00982 376686002932 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 376686002933 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 376686002934 dimer interface [polypeptide binding]; other site 376686002935 active site 376686002936 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 376686002937 dimerization interface [polypeptide binding]; other site 376686002938 active site 376686002939 metal binding site [ion binding]; metal-binding site 376686002940 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; cl00054 376686002941 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 376686002942 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 376686002943 domain interfaces; other site 376686002944 active site 376686002945 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686002946 Sulfatase; Region: Sulfatase; pfam00884 376686002947 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 376686002948 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 376686002949 motif II; other site 376686002950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 376686002951 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 376686002952 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 376686002953 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686002954 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 376686002955 Surface antigen; Region: Bac_surface_Ag; pfam01103 376686002956 CAAX protease self-immunity; Region: Abi; pfam02517 376686002957 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686002958 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686002959 Peptidase C1-like family; Region: Peptidase_C1_2; cl17447 376686002960 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 376686002961 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 376686002962 non-specific DNA binding site [nucleotide binding]; other site 376686002963 salt bridge; other site 376686002964 sequence-specific DNA binding site [nucleotide binding]; other site 376686002965 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 376686002966 GIY-YIG motif/motif A; other site 376686002967 putative active site [active] 376686002968 putative metal binding site [ion binding]; other site 376686002969 RIP metalloprotease RseP; Region: TIGR00054 376686002970 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 376686002971 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 376686002972 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 376686002973 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 376686002974 putative substrate binding region [chemical binding]; other site 376686002975 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 376686002976 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 376686002977 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686002978 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686002979 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 376686002980 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_C39B; cd02418 376686002981 putative active site [active] 376686002982 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 376686002983 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686002984 Walker A/P-loop; other site 376686002985 ATP binding site [chemical binding]; other site 376686002986 Q-loop/lid; other site 376686002987 ABC transporter signature motif; other site 376686002988 Walker B; other site 376686002989 D-loop; other site 376686002990 H-loop/switch region; other site 376686002991 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 376686002992 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 376686002993 active site 376686002994 FMN binding site [chemical binding]; other site 376686002995 substrate binding site [chemical binding]; other site 376686002996 homotetramer interface [polypeptide binding]; other site 376686002997 catalytic residue [active] 376686002998 putative oxidoreductase; Provisional; Region: PRK11579 376686002999 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 376686003000 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 376686003001 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686003002 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 376686003003 putative substrate translocation pore; other site 376686003004 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686003005 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686003006 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 376686003007 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 376686003008 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 376686003009 HflX GTPase family; Region: HflX; cd01878 376686003010 G1 box; other site 376686003011 GTP/Mg2+ binding site [chemical binding]; other site 376686003012 Switch I region; other site 376686003013 G2 box; other site 376686003014 G3 box; other site 376686003015 Switch II region; other site 376686003016 G4 box; other site 376686003017 G5 box; other site 376686003018 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 376686003019 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 376686003020 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 376686003021 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 376686003022 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 376686003023 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 376686003024 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686003025 catalytic residue [active] 376686003026 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686003027 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686003028 FeS assembly protein SufD; Region: sufD; TIGR01981 376686003029 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 376686003030 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 376686003031 four helix bundle protein; Region: TIGR02436 376686003032 FeS assembly ATPase SufC; Region: sufC; TIGR01978 376686003033 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 376686003034 Walker A/P-loop; other site 376686003035 ATP binding site [chemical binding]; other site 376686003036 Q-loop/lid; other site 376686003037 ABC transporter signature motif; other site 376686003038 Walker B; other site 376686003039 D-loop; other site 376686003040 H-loop/switch region; other site 376686003041 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 376686003042 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 376686003043 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 376686003044 putative ABC transporter; Region: ycf24; CHL00085 376686003045 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 376686003046 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 376686003047 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686003048 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 376686003049 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686003050 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686003051 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686003052 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686003053 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 376686003054 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686003055 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686003056 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686003057 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686003058 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 376686003059 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 376686003060 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686003061 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 376686003062 Domain of unknown function (DUF3496); Region: DUF3496; pfam12001 376686003063 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 376686003064 active site 376686003065 catalytic triad [active] 376686003066 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 376686003067 Zn binding site [ion binding]; other site 376686003068 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 376686003069 CHAP domain; Region: CHAP; cl17642 376686003070 Predicted membrane protein [Function unknown]; Region: COG2311 376686003071 Protein of unknown function (DUF418); Region: DUF418; pfam04235 376686003072 Predicted membrane protein [Function unknown]; Region: COG2311 376686003073 Protein of unknown function (DUF418); Region: DUF418; pfam04235 376686003074 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 376686003075 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686003076 NAD binding site [chemical binding]; other site 376686003077 homodimer interface [polypeptide binding]; other site 376686003078 active site 376686003079 putative substrate binding site [chemical binding]; other site 376686003080 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 376686003081 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 376686003082 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 376686003083 ATP binding site [chemical binding]; other site 376686003084 putative Mg++ binding site [ion binding]; other site 376686003085 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 376686003086 nucleotide binding region [chemical binding]; other site 376686003087 ATP-binding site [chemical binding]; other site 376686003088 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 376686003089 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 376686003090 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 376686003091 active site 376686003092 catalytic site [active] 376686003093 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 376686003094 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 376686003095 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 376686003096 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 376686003097 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 376686003098 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686003099 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686003100 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 376686003101 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 376686003102 active site 376686003103 catalytic site [active] 376686003104 SusE outer membrane protein; Region: SusE; pfam14292 376686003105 Uncharacterized subgroup of the CBM-SusE-F_like superfamily; Region: CBM_SusE-F_like_u1; cd12967 376686003106 starch binding site [chemical binding]; other site 376686003107 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cd12956 376686003108 starch binding site [chemical binding]; other site 376686003109 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686003110 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686003111 Secretin and TonB N terminus short domain; Region: STN; pfam07660 376686003112 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686003113 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686003114 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 376686003115 FecR protein; Region: FecR; pfam04773 376686003116 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686003117 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686003118 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 376686003119 DNA binding residues [nucleotide binding] 376686003120 Family description; Region: ACT_7; pfam13840 376686003121 hypothetical protein; Provisional; Region: PRK14686 376686003122 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 376686003123 dimer interface [polypeptide binding]; other site 376686003124 catalytic triad [active] 376686003125 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686003126 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686003127 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 376686003128 putative catalytic site [active] 376686003129 putative metal binding site [ion binding]; other site 376686003130 putative phosphate binding site [ion binding]; other site 376686003131 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 376686003132 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 376686003133 aldehyde dehydrogenase family 7 member; Region: PLN02315 376686003134 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 376686003135 tetrameric interface [polypeptide binding]; other site 376686003136 NAD binding site [chemical binding]; other site 376686003137 catalytic residues [active] 376686003138 Leucine rich repeat; Region: LRR_8; pfam13855 376686003139 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 376686003140 Pectate lyase; Region: Pec_lyase_C; cl01593 376686003141 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686003142 Bax inhibitor 1 like; Region: BaxI_1; cl17691 376686003143 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 376686003144 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 376686003145 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 376686003146 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 376686003147 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 376686003148 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 376686003149 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 376686003150 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 376686003151 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 376686003152 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 376686003153 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 376686003154 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 376686003155 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 376686003156 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 376686003157 catalytic loop [active] 376686003158 iron binding site [ion binding]; other site 376686003159 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 376686003160 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 376686003161 SLBB domain; Region: SLBB; pfam10531 376686003162 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 376686003163 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 376686003164 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 376686003165 putative dimer interface [polypeptide binding]; other site 376686003166 [2Fe-2S] cluster binding site [ion binding]; other site 376686003167 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 376686003168 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 376686003169 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 376686003170 NADH dehydrogenase subunit B; Provisional; Region: PRK14820 376686003171 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 376686003172 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 376686003173 DNA-binding site [nucleotide binding]; DNA binding site 376686003174 RNA-binding motif; other site 376686003175 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 376686003176 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 376686003177 dimer interface [polypeptide binding]; other site 376686003178 anticodon binding site; other site 376686003179 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 376686003180 homodimer interface [polypeptide binding]; other site 376686003181 motif 1; other site 376686003182 active site 376686003183 motif 2; other site 376686003184 GAD domain; Region: GAD; pfam02938 376686003185 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 376686003186 active site 376686003187 motif 3; other site 376686003188 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 376686003189 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686003190 catalytic residues [active] 376686003191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 376686003192 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 376686003193 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686003194 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 376686003195 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 376686003196 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 376686003197 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 376686003198 E3 interaction surface; other site 376686003199 lipoyl attachment site [posttranslational modification]; other site 376686003200 e3 binding domain; Region: E3_binding; pfam02817 376686003201 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 376686003202 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 376686003203 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 376686003204 TPP-binding site [chemical binding]; other site 376686003205 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 376686003206 dimer interface [polypeptide binding]; other site 376686003207 PYR/PP interface [polypeptide binding]; other site 376686003208 TPP binding site [chemical binding]; other site 376686003209 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686003210 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686003211 DNA binding site [nucleotide binding] 376686003212 domain linker motif; other site 376686003213 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686003214 dimerization interface [polypeptide binding]; other site 376686003215 ligand binding site [chemical binding]; other site 376686003216 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686003217 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686003218 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 376686003219 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 376686003220 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686003221 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686003222 putative substrate translocation pore; other site 376686003223 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 376686003224 Trehalase; Region: Trehalase; cl17346 376686003225 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 376686003226 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 376686003227 substrate binding pocket [chemical binding]; other site 376686003228 chain length determination region; other site 376686003229 substrate-Mg2+ binding site; other site 376686003230 catalytic residues [active] 376686003231 aspartate-rich region 1; other site 376686003232 active site lid residues [active] 376686003233 aspartate-rich region 2; other site 376686003234 Uncharacterized conserved protein [Function unknown]; Region: COG2353 376686003235 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686003236 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686003237 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 376686003238 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686003239 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 376686003240 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686003241 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686003242 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686003243 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686003244 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686003245 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 376686003246 catalytic motif [active] 376686003247 Catalytic residue [active] 376686003248 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 376686003249 binding surface 376686003250 TPR motif; other site 376686003251 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686003252 CHAT domain; Region: CHAT; pfam12770 376686003253 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686003254 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686003255 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 376686003256 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686003257 C-terminal peptidase (prc); Region: prc; TIGR00225 376686003258 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 376686003259 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686003260 Active site serine [active] 376686003261 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 376686003262 active site 376686003263 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 376686003264 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 376686003265 putative acyl-acceptor binding pocket; other site 376686003266 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 376686003267 active site 376686003268 homodimer interface [polypeptide binding]; other site 376686003269 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686003270 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686003271 putative substrate translocation pore; other site 376686003272 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 376686003273 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 376686003274 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 376686003275 dimerization interface [polypeptide binding]; other site 376686003276 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686003277 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 376686003278 non-specific DNA binding site [nucleotide binding]; other site 376686003279 salt bridge; other site 376686003280 sequence-specific DNA binding site [nucleotide binding]; other site 376686003281 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686003282 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686003283 Coenzyme A binding pocket [chemical binding]; other site 376686003284 Predicted amidohydrolase [General function prediction only]; Region: COG0388 376686003285 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 376686003286 putative active site [active] 376686003287 catalytic triad [active] 376686003288 putative dimer interface [polypeptide binding]; other site 376686003289 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686003290 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686003291 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_1; cd01832 376686003292 active site 376686003293 catalytic triad [active] 376686003294 oxyanion hole [active] 376686003295 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 376686003296 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 376686003297 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 376686003298 active site 376686003299 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 376686003300 binding surface 376686003301 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686003302 TPR motif; other site 376686003303 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686003304 Vitamin K epoxide reductase (VKOR) family in bacteria; Region: VKOR_4; cd12921 376686003305 putative active site [active] 376686003306 redox center [active] 376686003307 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_C39B; cd02418 376686003308 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 376686003309 putative active site [active] 376686003310 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 376686003311 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686003312 Walker A/P-loop; other site 376686003313 ATP binding site [chemical binding]; other site 376686003314 Q-loop/lid; other site 376686003315 ABC transporter signature motif; other site 376686003316 Walker B; other site 376686003317 D-loop; other site 376686003318 H-loop/switch region; other site 376686003319 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 376686003320 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686003321 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 376686003322 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 376686003323 S-adenosylmethionine binding site [chemical binding]; other site 376686003324 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 376686003325 RimM N-terminal domain; Region: RimM; pfam01782 376686003326 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 376686003327 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 376686003328 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 376686003329 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 376686003330 tartrate dehydrogenase; Region: TTC; TIGR02089 376686003331 2-isopropylmalate synthase; Validated; Region: PRK00915 376686003332 Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_CMS; cd07945 376686003333 active site 376686003334 catalytic residues [active] 376686003335 metal binding site [ion binding]; metal-binding site 376686003336 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 376686003337 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 376686003338 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 376686003339 substrate binding site [chemical binding]; other site 376686003340 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 376686003341 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 376686003342 substrate binding site [chemical binding]; other site 376686003343 ligand binding site [chemical binding]; other site 376686003344 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686003345 short chain dehydrogenase; Validated; Region: PRK06182 376686003346 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686003347 NADP binding site [chemical binding]; other site 376686003348 active site 376686003349 steroid binding site; other site 376686003350 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 376686003351 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686003352 active site 376686003353 catalytic site [active] 376686003354 substrate binding site [chemical binding]; other site 376686003355 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 376686003356 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 376686003357 active site 376686003358 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 376686003359 generic binding surface I; other site 376686003360 generic binding surface II; other site 376686003361 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 376686003362 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 376686003363 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 376686003364 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 376686003365 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 376686003366 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686003367 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686003368 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 376686003369 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 376686003370 N-terminal plug; other site 376686003371 ligand-binding site [chemical binding]; other site 376686003372 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 376686003373 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 376686003374 active site 376686003375 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 376686003376 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 376686003377 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686003378 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 376686003379 active site 376686003380 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686003381 dimer interface [polypeptide binding]; other site 376686003382 substrate binding site [chemical binding]; other site 376686003383 catalytic residues [active] 376686003384 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 376686003385 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 376686003386 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 376686003387 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 376686003388 Domain of unknown function (DUF4284); Region: DUF4284; pfam14112 376686003389 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 376686003390 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; cl00159 376686003391 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 376686003392 NifU-like domain; Region: NifU; cl00484 376686003393 Domain of unknown function DUF59; Region: DUF59; pfam01883 376686003394 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 376686003395 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 376686003396 Walker A motif; other site 376686003397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 376686003398 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 376686003399 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686003400 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 376686003401 FtsX-like permease family; Region: FtsX; pfam02687 376686003402 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686003403 FtsX-like permease family; Region: FtsX; pfam02687 376686003404 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 376686003405 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 376686003406 Walker A/P-loop; other site 376686003407 ATP binding site [chemical binding]; other site 376686003408 Q-loop/lid; other site 376686003409 ABC transporter signature motif; other site 376686003410 Walker B; other site 376686003411 D-loop; other site 376686003412 H-loop/switch region; other site 376686003413 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686003414 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686003415 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 376686003416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686003417 active site 376686003418 phosphorylation site [posttranslational modification] 376686003419 intermolecular recognition site; other site 376686003420 dimerization interface [polypeptide binding]; other site 376686003421 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 376686003422 Walker A motif; other site 376686003423 ATP binding site [chemical binding]; other site 376686003424 Walker B motif; other site 376686003425 arginine finger; other site 376686003426 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 376686003427 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686003428 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 376686003429 ATP binding site [chemical binding]; other site 376686003430 Mg2+ binding site [ion binding]; other site 376686003431 G-X-G motif; other site 376686003432 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 376686003433 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 376686003434 DNA binding site [nucleotide binding] 376686003435 active site 376686003436 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 376686003437 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 376686003438 S-adenosylmethionine binding site [chemical binding]; other site 376686003439 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 376686003440 SnoaL-like domain; Region: SnoaL_3; pfam13474 376686003441 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; cl00250 376686003442 30S subunit binding site; other site 376686003443 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 376686003444 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 376686003445 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686003446 catalytic residues [active] 376686003447 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686003448 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686003449 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 376686003450 dimer interface [polypeptide binding]; other site 376686003451 phosphorylation site [posttranslational modification] 376686003452 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 376686003453 ATP binding site [chemical binding]; other site 376686003454 Mg2+ binding site [ion binding]; other site 376686003455 G-X-G motif; other site 376686003456 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686003457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686003458 active site 376686003459 phosphorylation site [posttranslational modification] 376686003460 intermolecular recognition site; other site 376686003461 dimerization interface [polypeptide binding]; other site 376686003462 LytTr DNA-binding domain; Region: LytTR; smart00850 376686003463 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 376686003464 Zn binding site [ion binding]; other site 376686003465 Protein of unknown function DUF58; Region: DUF58; pfam01882 376686003466 von Willebrand factor type A domain; Region: VWA_2; pfam13519 376686003467 Acyltransferase family; Region: Acyl_transf_3; pfam01757 376686003468 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 376686003469 active site 376686003470 catalytic triad [active] 376686003471 oxyanion hole [active] 376686003472 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 376686003473 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686003474 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686003475 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686003476 Outer membrane efflux protein; Region: OEP; pfam02321 376686003477 Outer membrane efflux protein; Region: OEP; pfam02321 376686003478 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 376686003479 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686003480 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686003481 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686003482 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 376686003483 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 376686003484 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 376686003485 motif II; other site 376686003486 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 376686003487 non-specific DNA binding site [nucleotide binding]; other site 376686003488 salt bridge; other site 376686003489 sequence-specific DNA binding site [nucleotide binding]; other site 376686003490 hypothetical protein; Provisional; Region: PRK08201 376686003491 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 376686003492 metal binding site [ion binding]; metal-binding site 376686003493 putative dimer interface [polypeptide binding]; other site 376686003494 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 376686003495 Penicillinase repressor; Region: Pencillinase_R; cl17580 376686003496 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 376686003497 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 376686003498 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 376686003499 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 376686003500 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 376686003501 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 376686003502 active site 376686003503 substrate-binding site [chemical binding]; other site 376686003504 metal-binding site [ion binding] 376686003505 ATP binding site [chemical binding]; other site 376686003506 Phytase; Region: Phytase; cl17685 376686003507 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686003508 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 376686003509 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 376686003510 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 376686003511 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 376686003512 Protein of unknown function (DUF419); Region: DUF419; pfam04237 376686003513 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 376686003514 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686003515 Coenzyme A binding pocket [chemical binding]; other site 376686003516 Putative cyclase; Region: Cyclase; pfam04199 376686003517 GxxExxY protein; Region: GxxExxY; TIGR04256 376686003518 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 376686003519 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 376686003520 FeS/SAM binding site; other site 376686003521 HemN C-terminal domain; Region: HemN_C; pfam06969 376686003522 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 376686003523 active site 376686003524 putative DNA-binding cleft [nucleotide binding]; other site 376686003525 dimer interface [polypeptide binding]; other site 376686003526 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 376686003527 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686003528 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_e; cd04192 376686003529 Protein of unknown function (DUF456); Region: DUF456; pfam04306 376686003530 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 376686003531 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 376686003532 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 376686003533 RNA binding surface [nucleotide binding]; other site 376686003534 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 376686003535 active site 376686003536 UbiA prenyltransferase family; Region: UbiA; pfam01040 376686003537 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 376686003538 Protein of unknown function (DUF502); Region: DUF502; pfam04367 376686003539 mevalonate kinase; Region: mevalon_kin; TIGR00549 376686003540 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 376686003541 hypothetical protein; Reviewed; Region: PRK12275 376686003542 four helix bundle protein; Region: TIGR02436 376686003543 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 376686003544 diphosphomevalonate decarboxylase; Region: PLN02407 376686003545 TspO/MBR family; Region: TspO_MBR; pfam03073 376686003546 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 376686003547 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686003548 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 376686003549 ligand binding site [chemical binding]; other site 376686003550 flexible hinge region; other site 376686003551 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 376686003552 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 376686003553 motif II; other site 376686003554 flavoprotein, HI0933 family; Region: TIGR00275 376686003555 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 376686003556 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 376686003557 active site 376686003558 catalytic site [active] 376686003559 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 376686003560 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 376686003561 active site 376686003562 catalytic site [active] 376686003563 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 376686003564 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 376686003565 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 376686003566 Ca binding site [ion binding]; other site 376686003567 active site 376686003568 homodimer interface [polypeptide binding]; other site 376686003569 catalytic site [active] 376686003570 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 376686003571 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686003572 maltose phosphorylase; Provisional; Region: PRK13807 376686003573 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 376686003574 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 376686003575 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 376686003576 beta-phosphoglucomutase; Region: bPGM; TIGR01990 376686003577 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 376686003578 motif II; other site 376686003579 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686003580 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686003581 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686003582 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686003583 DNA binding site [nucleotide binding] 376686003584 domain linker motif; other site 376686003585 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686003586 ligand binding site [chemical binding]; other site 376686003587 dimerization interface [polypeptide binding]; other site 376686003588 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686003589 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686003590 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686003591 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 376686003592 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686003593 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686003594 SusE outer membrane protein; Region: SusE; pfam14292 376686003595 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cl17376 376686003596 starch binding site [chemical binding]; other site 376686003597 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686003598 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_4; cd11350 376686003599 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 376686003600 active site 376686003601 catalytic site [active] 376686003602 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686003603 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 376686003604 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686003605 putative substrate translocation pore; other site 376686003606 pantothenate kinase; Reviewed; Region: PRK13320 376686003607 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 376686003608 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 376686003609 Domain of unknown function DUF21; Region: DUF21; pfam01595 376686003610 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 376686003611 Transporter associated domain; Region: CorC_HlyC; smart01091 376686003612 SurA N-terminal domain; Region: SurA_N_3; cl07813 376686003613 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 376686003614 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 376686003615 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 376686003616 homodimer interface [polypeptide binding]; other site 376686003617 catalytic residues [active] 376686003618 NAD binding site [chemical binding]; other site 376686003619 substrate binding pocket [chemical binding]; other site 376686003620 flexible flap; other site 376686003621 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 376686003622 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686003623 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686003624 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 376686003625 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686003626 putative substrate translocation pore; other site 376686003627 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 376686003628 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686003629 putative substrate translocation pore; other site 376686003630 POT family; Region: PTR2; cl17359 376686003631 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686003632 Protein Disulfide Isomerase (PDIa) family, redox active TRX domains; composed of eukaryotic proteins involved in oxidative protein folding in the endoplasmic reticulum (ER) by acting as catalysts and folding assistants. Members of this family include PDI...; Region: PDI_a_family; cd02961 376686003633 catalytic residues [active] 376686003634 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 376686003635 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686003636 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 376686003637 Competence protein; Region: Competence; pfam03772 376686003638 NlpC/P60 family; Region: NLPC_P60; pfam00877 376686003639 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 376686003640 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 376686003641 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 376686003642 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 376686003643 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 376686003644 protein binding site [polypeptide binding]; other site 376686003645 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 376686003646 Catalytic dyad [active] 376686003647 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 376686003648 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 376686003649 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 376686003650 active site 376686003651 substrate binding site [chemical binding]; other site 376686003652 Mg2+ binding site [ion binding]; other site 376686003653 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 376686003654 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 376686003655 substrate binding site [chemical binding]; other site 376686003656 hexamer interface [polypeptide binding]; other site 376686003657 metal binding site [ion binding]; metal-binding site 376686003658 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 376686003659 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 376686003660 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686003661 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 376686003662 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 376686003663 DNA binding residues [nucleotide binding] 376686003664 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686003665 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686003666 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686003667 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686003668 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 376686003669 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686003670 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686003671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686003672 active site 376686003673 phosphorylation site [posttranslational modification] 376686003674 intermolecular recognition site; other site 376686003675 dimerization interface [polypeptide binding]; other site 376686003676 LytTr DNA-binding domain; Region: LytTR; smart00850 376686003677 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 376686003678 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686003679 TPR motif; other site 376686003680 binding surface 376686003681 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686003682 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686003683 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686003684 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 376686003685 ATP binding site [chemical binding]; other site 376686003686 Mg2+ binding site [ion binding]; other site 376686003687 G-X-G motif; other site 376686003688 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 376686003689 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 376686003690 RNase E interface [polypeptide binding]; other site 376686003691 trimer interface [polypeptide binding]; other site 376686003692 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 376686003693 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 376686003694 RNase E interface [polypeptide binding]; other site 376686003695 trimer interface [polypeptide binding]; other site 376686003696 active site 376686003697 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 376686003698 putative nucleic acid binding region [nucleotide binding]; other site 376686003699 G-X-X-G motif; other site 376686003700 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 376686003701 RNA binding site [nucleotide binding]; other site 376686003702 domain interface; other site 376686003703 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 376686003704 16S/18S rRNA binding site [nucleotide binding]; other site 376686003705 S13e-L30e interaction site [polypeptide binding]; other site 376686003706 25S rRNA binding site [nucleotide binding]; other site 376686003707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 376686003708 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 376686003709 GAF domain; Region: GAF_2; pfam13185 376686003710 exosortase family protein XrtF; Region: exoso_Fjoh_1448; TIGR04128 376686003711 exosortase F-associated protein; Region: flavo_near_exo; TIGR04127 376686003712 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686003713 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 376686003714 Heavy-metal-associated domain; Region: HMA; pfam00403 376686003715 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 376686003716 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 376686003717 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 376686003718 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 376686003719 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 376686003720 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 376686003721 rod shape-determining protein MreC; Provisional; Region: PRK13922 376686003722 rod shape-determining protein MreC; Region: MreC; pfam04085 376686003723 rod shape-determining protein MreB; Provisional; Region: PRK13927 376686003724 MreB and similar proteins; Region: MreB_like; cd10225 376686003725 nucleotide binding site [chemical binding]; other site 376686003726 Mg binding site [ion binding]; other site 376686003727 putative protofilament interaction site [polypeptide binding]; other site 376686003728 RodZ interaction site [polypeptide binding]; other site 376686003729 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 376686003730 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 376686003731 purine monophosphate binding site [chemical binding]; other site 376686003732 dimer interface [polypeptide binding]; other site 376686003733 putative catalytic residues [active] 376686003734 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 376686003735 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 376686003736 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686003737 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 376686003738 FtsX-like permease family; Region: FtsX; pfam02687 376686003739 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 376686003740 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 376686003741 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 376686003742 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 376686003743 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 376686003744 active site 376686003745 intersubunit interface [polypeptide binding]; other site 376686003746 zinc binding site [ion binding]; other site 376686003747 Na+ binding site [ion binding]; other site 376686003748 Surface antigen; Region: Bac_surface_Ag; pfam01103 376686003749 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 376686003750 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 376686003751 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 376686003752 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 376686003753 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 376686003754 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 376686003755 S-adenosylmethionine binding site [chemical binding]; other site 376686003756 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 376686003757 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 376686003758 folate binding site [chemical binding]; other site 376686003759 NADP+ binding site [chemical binding]; other site 376686003760 2TM domain; Region: 2TM; pfam13239 376686003761 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 376686003762 thymidylate synthase; Reviewed; Region: thyA; PRK01827 376686003763 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 376686003764 dimerization interface [polypeptide binding]; other site 376686003765 active site 376686003766 Bifunctional nuclease; Region: DNase-RNase; pfam02577 376686003767 UvrB/uvrC motif; Region: UVR; pfam02151 376686003768 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 376686003769 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 376686003770 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 376686003771 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 376686003772 Ligand binding site [chemical binding]; other site 376686003773 Electron transfer flavoprotein domain; Region: ETF; pfam01012 376686003774 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 376686003775 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 376686003776 alpha subunit interface [polypeptide binding]; other site 376686003777 TPP binding site [chemical binding]; other site 376686003778 heterodimer interface [polypeptide binding]; other site 376686003779 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 376686003780 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686003781 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 376686003782 endonuclease III; Region: ENDO3c; smart00478 376686003783 minor groove reading motif; other site 376686003784 helix-hairpin-helix signature motif; other site 376686003785 substrate binding pocket [chemical binding]; other site 376686003786 active site 376686003787 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 376686003788 dimer interface [polypeptide binding]; other site 376686003789 substrate binding site [chemical binding]; other site 376686003790 metal binding sites [ion binding]; metal-binding site 376686003791 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 376686003792 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 376686003793 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 376686003794 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 376686003795 Substrate-binding site [chemical binding]; other site 376686003796 Substrate specificity [chemical binding]; other site 376686003797 GLPGLI family protein; Region: GLPGLI; TIGR01200 376686003798 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686003799 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686003800 Serine carboxypeptidase S28; Region: Peptidase_S28; pfam05577 376686003801 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 376686003802 S-adenosylmethionine synthetase; Validated; Region: PRK05250 376686003803 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 376686003804 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 376686003805 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 376686003806 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 376686003807 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686003808 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 376686003809 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 376686003810 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 376686003811 homodimer interface [polypeptide binding]; other site 376686003812 substrate-cofactor binding pocket; other site 376686003813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686003814 catalytic residue [active] 376686003815 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 376686003816 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 376686003817 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 376686003818 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 376686003819 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 376686003820 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 376686003821 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 376686003822 nucleotide binding site [chemical binding]; other site 376686003823 substrate binding site [chemical binding]; other site 376686003824 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 376686003825 dimer interface [polypeptide binding]; other site 376686003826 putative threonine allosteric regulatory site; other site 376686003827 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 376686003828 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 376686003829 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 376686003830 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 376686003831 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 376686003832 homodimer interface [polypeptide binding]; other site 376686003833 substrate-cofactor binding pocket; other site 376686003834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686003835 catalytic residue [active] 376686003836 RDD family; Region: RDD; pfam06271 376686003837 Rrf2 family protein; Region: rrf2_super; TIGR00738 376686003838 Transcriptional regulator; Region: Rrf2; pfam02082 376686003839 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 376686003840 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 376686003841 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 376686003842 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 376686003843 Active Sites [active] 376686003844 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 376686003845 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 376686003846 Active Sites [active] 376686003847 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 376686003848 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 376686003849 CysD dimerization site [polypeptide binding]; other site 376686003850 G1 box; other site 376686003851 putative GEF interaction site [polypeptide binding]; other site 376686003852 GTP/Mg2+ binding site [chemical binding]; other site 376686003853 Switch I region; other site 376686003854 G2 box; other site 376686003855 G3 box; other site 376686003856 Switch II region; other site 376686003857 G4 box; other site 376686003858 G5 box; other site 376686003859 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 376686003860 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 376686003861 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 376686003862 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 376686003863 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 376686003864 HEPN domain; Region: HEPN; pfam05168 376686003865 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 376686003866 active site 376686003867 SAM binding site [chemical binding]; other site 376686003868 homodimer interface [polypeptide binding]; other site 376686003869 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 376686003870 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 376686003871 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 376686003872 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 376686003873 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686003874 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 376686003875 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 376686003876 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 376686003877 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 376686003878 substrate binding pocket [chemical binding]; other site 376686003879 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 376686003880 B12 binding site [chemical binding]; other site 376686003881 cobalt ligand [ion binding]; other site 376686003882 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 376686003883 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 376686003884 FAD binding site [chemical binding]; other site 376686003885 Methyltransferase domain; Region: Methyltransf_31; pfam13847 376686003886 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 376686003887 S-adenosylmethionine binding site [chemical binding]; other site 376686003888 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 376686003889 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 376686003890 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 376686003891 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686003892 catalytic residue [active] 376686003893 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686003894 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 376686003895 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 376686003896 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 376686003897 Walker A/P-loop; other site 376686003898 ATP binding site [chemical binding]; other site 376686003899 Q-loop/lid; other site 376686003900 ABC transporter signature motif; other site 376686003901 Walker B; other site 376686003902 D-loop; other site 376686003903 H-loop/switch region; other site 376686003904 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 376686003905 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 376686003906 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 376686003907 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 376686003908 THF binding site; other site 376686003909 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 376686003910 substrate binding site [chemical binding]; other site 376686003911 THF binding site; other site 376686003912 zinc-binding site [ion binding]; other site 376686003913 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 376686003914 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 376686003915 putative DNA binding site [nucleotide binding]; other site 376686003916 putative Zn2+ binding site [ion binding]; other site 376686003917 AsnC family; Region: AsnC_trans_reg; pfam01037 376686003918 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 376686003919 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 376686003920 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 376686003921 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 376686003922 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 376686003923 TPP-binding site; other site 376686003924 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 376686003925 PYR/PP interface [polypeptide binding]; other site 376686003926 dimer interface [polypeptide binding]; other site 376686003927 TPP binding site [chemical binding]; other site 376686003928 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 376686003929 Rotavirus VP2 protein; Region: Rota_VP2; pfam05087 376686003930 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 376686003931 nucleoside/Zn binding site; other site 376686003932 dimer interface [polypeptide binding]; other site 376686003933 catalytic motif [active] 376686003934 MG2 domain; Region: A2M_N; pfam01835 376686003935 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 376686003936 Alpha-2-macroglobulin family; Region: A2M; pfam00207 376686003937 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 376686003938 surface patch; other site 376686003939 thioester region; other site 376686003940 specificity defining residues; other site 376686003941 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 376686003942 Transglycosylase; Region: Transgly; pfam00912 376686003943 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 376686003944 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 376686003945 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 376686003946 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 376686003947 homodimer interface [polypeptide binding]; other site 376686003948 oligonucleotide binding site [chemical binding]; other site 376686003949 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 376686003950 IHF - DNA interface [nucleotide binding]; other site 376686003951 IHF dimer interface [polypeptide binding]; other site 376686003952 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 376686003953 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 376686003954 minor groove reading motif; other site 376686003955 helix-hairpin-helix signature motif; other site 376686003956 substrate binding pocket [chemical binding]; other site 376686003957 active site 376686003958 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 376686003959 DNA binding and oxoG recognition site [nucleotide binding] 376686003960 Predicted membrane protein (DUF2085); Region: DUF2085; pfam09858 376686003961 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 376686003962 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 376686003963 dimer interface [polypeptide binding]; other site 376686003964 ssDNA binding site [nucleotide binding]; other site 376686003965 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686003966 gliding motility-associated protein GldE; Region: GldE; TIGR03520 376686003967 Domain of unknown function DUF21; Region: DUF21; pfam01595 376686003968 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 376686003969 Transporter associated domain; Region: CorC_HlyC; smart01091 376686003970 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 376686003971 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 376686003972 metal-binding site [ion binding] 376686003973 EamA-like transporter family; Region: EamA; pfam00892 376686003974 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 376686003975 EamA-like transporter family; Region: EamA; pfam00892 376686003976 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686003977 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686003978 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686003979 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 376686003980 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686003981 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 376686003982 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 376686003983 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 376686003984 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 376686003985 active site 376686003986 dinuclear metal binding site [ion binding]; other site 376686003987 dimerization interface [polypeptide binding]; other site 376686003988 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686003989 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 376686003990 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 376686003991 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 376686003992 active site 376686003993 Zn binding site [ion binding]; other site 376686003994 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 376686003995 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 376686003996 E3 interaction surface; other site 376686003997 lipoyl attachment site [posttranslational modification]; other site 376686003998 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 376686003999 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 376686004000 E3 interaction surface; other site 376686004001 lipoyl attachment site [posttranslational modification]; other site 376686004002 e3 binding domain; Region: E3_binding; pfam02817 376686004003 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 376686004004 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 376686004005 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 376686004006 tetramer interface [polypeptide binding]; other site 376686004007 TPP-binding site [chemical binding]; other site 376686004008 heterodimer interface [polypeptide binding]; other site 376686004009 phosphorylation loop region [posttranslational modification] 376686004010 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 376686004011 active site 376686004012 catalytic motif [active] 376686004013 Zn binding site [ion binding]; other site 376686004014 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 376686004015 active site 376686004016 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 376686004017 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 376686004018 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 376686004019 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686004020 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 376686004021 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 376686004022 Interdomain contacts; other site 376686004023 Cytokine receptor motif; other site 376686004024 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686004025 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; cl17315 376686004026 DNA binding residues [nucleotide binding] 376686004027 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686004028 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686004029 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686004030 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 376686004031 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686004032 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686004033 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 376686004034 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 376686004035 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 376686004036 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 376686004037 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686004038 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686004039 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 376686004040 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 376686004041 putative catalytic site [active] 376686004042 putative metal binding site [ion binding]; other site 376686004043 putative phosphate binding site [ion binding]; other site 376686004044 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 376686004045 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 376686004046 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686004047 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686004048 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 376686004049 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 376686004050 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 376686004051 nudix motif; other site 376686004052 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 376686004053 Protein of unknown function (DUF419); Region: DUF419; pfam04237 376686004054 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 376686004055 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 376686004056 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 376686004057 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686004058 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686004059 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 376686004060 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 376686004061 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 376686004062 DNA binding site [nucleotide binding] 376686004063 active site 376686004064 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 376686004065 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 376686004066 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 376686004067 homotetramer interface [polypeptide binding]; other site 376686004068 ligand binding site [chemical binding]; other site 376686004069 catalytic site [active] 376686004070 NAD binding site [chemical binding]; other site 376686004071 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 376686004072 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 376686004073 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 376686004074 heme-binding site [chemical binding]; other site 376686004075 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 376686004076 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 376686004077 ligand binding site [chemical binding]; other site 376686004078 flexible hinge region; other site 376686004079 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 376686004080 non-specific DNA interactions [nucleotide binding]; other site 376686004081 DNA binding site [nucleotide binding] 376686004082 sequence specific DNA binding site [nucleotide binding]; other site 376686004083 putative cAMP binding site [chemical binding]; other site 376686004084 PcrB family; Region: PcrB; pfam01884 376686004085 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed; Region: PRK04169 376686004086 phosphate binding site [ion binding]; other site 376686004087 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 376686004088 AAA domain; Region: AAA_28; pfam13521 376686004089 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 376686004090 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 376686004091 hypothetical protein; Provisional; Region: PRK09256 376686004092 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686004093 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 376686004094 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 376686004095 iron-sulfur cluster [ion binding]; other site 376686004096 [2Fe-2S] cluster binding site [ion binding]; other site 376686004097 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 376686004098 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 376686004099 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 376686004100 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 376686004101 nucleotide binding site/active site [active] 376686004102 HIT family signature motif; other site 376686004103 catalytic residue [active] 376686004104 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 376686004105 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686004106 dimer interface [polypeptide binding]; other site 376686004107 phosphorylation site [posttranslational modification] 376686004108 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 376686004109 ATP binding site [chemical binding]; other site 376686004110 Mg2+ binding site [ion binding]; other site 376686004111 G-X-G motif; other site 376686004112 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 376686004113 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 376686004114 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 376686004115 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 376686004116 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 376686004117 MOSC domain; Region: MOSC; pfam03473 376686004118 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 376686004119 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 376686004120 ATP binding site [chemical binding]; other site 376686004121 substrate interface [chemical binding]; other site 376686004122 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 376686004123 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 376686004124 FeS/SAM binding site; other site 376686004125 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 376686004126 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 376686004127 ThiS interaction site; other site 376686004128 putative active site [active] 376686004129 tetramer interface [polypeptide binding]; other site 376686004130 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 376686004131 thiamine phosphate binding site [chemical binding]; other site 376686004132 active site 376686004133 pyrophosphate binding site [ion binding]; other site 376686004134 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 376686004135 substrate binding site [chemical binding]; other site 376686004136 dimer interface [polypeptide binding]; other site 376686004137 ATP binding site [chemical binding]; other site 376686004138 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 376686004139 active site 376686004140 thiamine phosphate binding site [chemical binding]; other site 376686004141 pyrophosphate binding site [ion binding]; other site 376686004142 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 376686004143 ThiC-associated domain; Region: ThiC-associated; pfam13667 376686004144 ThiC family; Region: ThiC; pfam01964 376686004145 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 376686004146 thiS-thiF/thiG interaction site; other site 376686004147 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 376686004148 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 376686004149 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 376686004150 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 376686004151 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 376686004152 active site 376686004153 Zn binding site [ion binding]; other site 376686004154 elongation factor Ts; Provisional; Region: tsf; PRK09377 376686004155 UBA/TS-N domain; Region: UBA; pfam00627 376686004156 Elongation factor TS; Region: EF_TS; pfam00889 376686004157 Elongation factor TS; Region: EF_TS; pfam00889 376686004158 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 376686004159 rRNA interaction site [nucleotide binding]; other site 376686004160 S8 interaction site; other site 376686004161 putative laminin-1 binding site; other site 376686004162 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 376686004163 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 376686004164 23S rRNA interface [nucleotide binding]; other site 376686004165 L3 interface [polypeptide binding]; other site 376686004166 Ferritin-like domain; Region: Ferritin_2; pfam13668 376686004167 Ferritin-like domain; Region: Ferritin_2; pfam13668 376686004168 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686004169 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686004170 DNA binding site [nucleotide binding] 376686004171 domain linker motif; other site 376686004172 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686004173 dimerization interface [polypeptide binding]; other site 376686004174 ligand binding site [chemical binding]; other site 376686004175 DNA polymerase I; Provisional; Region: PRK05755 376686004176 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 376686004177 active site 376686004178 metal binding site 1 [ion binding]; metal-binding site 376686004179 putative 5' ssDNA interaction site; other site 376686004180 metal binding site 3; metal-binding site 376686004181 metal binding site 2 [ion binding]; metal-binding site 376686004182 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 376686004183 putative DNA binding site [nucleotide binding]; other site 376686004184 putative metal binding site [ion binding]; other site 376686004185 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 376686004186 active site 376686004187 catalytic site [active] 376686004188 substrate binding site [chemical binding]; other site 376686004189 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 376686004190 active site 376686004191 DNA binding site [nucleotide binding] 376686004192 catalytic site [active] 376686004193 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686004194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686004195 active site 376686004196 phosphorylation site [posttranslational modification] 376686004197 intermolecular recognition site; other site 376686004198 dimerization interface [polypeptide binding]; other site 376686004199 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 376686004200 DNA binding site [nucleotide binding] 376686004201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686004202 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 376686004203 ATP binding site [chemical binding]; other site 376686004204 Mg2+ binding site [ion binding]; other site 376686004205 G-X-G motif; other site 376686004206 phosphodiesterase YaeI; Provisional; Region: PRK11340 376686004207 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 376686004208 putative active site [active] 376686004209 putative metal binding site [ion binding]; other site 376686004210 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 376686004211 catalytic residues [active] 376686004212 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 376686004213 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 376686004214 NodB motif; other site 376686004215 active site 376686004216 catalytic site [active] 376686004217 metal binding site [ion binding]; metal-binding site 376686004218 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 376686004219 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 376686004220 universal stress protein UspE; Provisional; Region: PRK11175 376686004221 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 376686004222 Ligand Binding Site [chemical binding]; other site 376686004223 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 376686004224 Ligand Binding Site [chemical binding]; other site 376686004225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 376686004226 hypothetical protein; Validated; Region: PRK02001 376686004227 heptamer interface [polypeptide binding]; other site 376686004228 Sm1 motif; other site 376686004229 hexamer interface [polypeptide binding]; other site 376686004230 RNA binding site [nucleotide binding]; other site 376686004231 Sm2 motif; other site 376686004232 transcription termination factor NusA; Region: NusA; TIGR01953 376686004233 NusA N-terminal domain; Region: NusA_N; pfam08529 376686004234 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 376686004235 RNA binding site [nucleotide binding]; other site 376686004236 homodimer interface [polypeptide binding]; other site 376686004237 NusA-like KH domain; Region: KH_5; pfam13184 376686004238 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 376686004239 G-X-X-G motif; other site 376686004240 translation initiation factor IF-2; Region: IF-2; TIGR00487 376686004241 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 376686004242 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 376686004243 G1 box; other site 376686004244 putative GEF interaction site [polypeptide binding]; other site 376686004245 GTP/Mg2+ binding site [chemical binding]; other site 376686004246 Switch I region; other site 376686004247 G2 box; other site 376686004248 G3 box; other site 376686004249 Switch II region; other site 376686004250 G4 box; other site 376686004251 G5 box; other site 376686004252 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 376686004253 Translation-initiation factor 2; Region: IF-2; pfam11987 376686004254 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 376686004255 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 376686004256 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 376686004257 active site 376686004258 Sporulation related domain; Region: SPOR; pfam05036 376686004259 Cytochrome c; Region: Cytochrom_C; pfam00034 376686004260 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 376686004261 heme-binding residues [chemical binding]; other site 376686004262 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 376686004263 molybdopterin cofactor binding site; other site 376686004264 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 376686004265 4Fe-4S binding domain; Region: Fer4_2; pfam12797 376686004266 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 376686004267 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 376686004268 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 376686004269 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 376686004270 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 376686004271 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 376686004272 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 376686004273 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 376686004274 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 376686004275 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 376686004276 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 376686004277 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 376686004278 Walker A motif; other site 376686004279 ATP binding site [chemical binding]; other site 376686004280 Walker B motif; other site 376686004281 arginine finger; other site 376686004282 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 376686004283 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 376686004284 Cytochrome P450; Region: p450; cl12078 376686004285 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 376686004286 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 376686004287 Domain of unknown function DUF11; Region: DUF11; pfam01345 376686004288 HYR domain; Region: HYR; pfam02494 376686004289 HYR domain; Region: HYR; pfam02494 376686004290 Domain of unknown function DUF11; Region: DUF11; cl17728 376686004291 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 376686004292 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 376686004293 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 376686004294 TPR motif; other site 376686004295 binding surface 376686004296 Tetratricopeptide repeat; Region: TPR_16; pfam13432 376686004297 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686004298 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686004299 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686004300 ligand binding site [chemical binding]; other site 376686004301 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 376686004302 sequence-specific DNA binding site [nucleotide binding]; other site 376686004303 salt bridge; other site 376686004304 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 376686004305 FOG: CBS domain [General function prediction only]; Region: COG0517 376686004306 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 376686004307 Malic enzyme, N-terminal domain; Region: malic; pfam00390 376686004308 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 376686004309 putative NAD(P) binding site [chemical binding]; other site 376686004310 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 376686004311 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 376686004312 RuvA N terminal domain; Region: RuvA_N; pfam01330 376686004313 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 376686004314 cell surface protein SprA; Region: surface_SprA; TIGR04189 376686004315 Motility related/secretion protein; Region: SprA_N; pfam14349 376686004316 Motility related/secretion protein; Region: SprA_N; pfam14349 376686004317 Motility related/secretion protein; Region: SprA_N; pfam14349 376686004318 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 376686004319 lipoyl attachment site [posttranslational modification]; other site 376686004320 deoxyribose-phosphate aldolase; Provisional; Region: PRK00507 376686004321 catalytic residue [active] 376686004322 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 376686004323 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 376686004324 UbiA prenyltransferase family; Region: UbiA; pfam01040 376686004325 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 376686004326 Subunit I/III interface [polypeptide binding]; other site 376686004327 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 376686004328 Subunit I/III interface [polypeptide binding]; other site 376686004329 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 376686004330 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 376686004331 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 376686004332 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 376686004333 Cu(I) binding site [ion binding]; other site 376686004334 Protein of unknown function (DUF420); Region: DUF420; pfam04238 376686004335 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 376686004336 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 376686004337 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 376686004338 Walker A/P-loop; other site 376686004339 ATP binding site [chemical binding]; other site 376686004340 Q-loop/lid; other site 376686004341 ABC transporter signature motif; other site 376686004342 Walker B; other site 376686004343 D-loop; other site 376686004344 H-loop/switch region; other site 376686004345 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686004346 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 376686004347 FtsX-like permease family; Region: FtsX; pfam02687 376686004348 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686004349 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 376686004350 FtsX-like permease family; Region: FtsX; pfam02687 376686004351 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686004352 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686004353 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686004354 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686004355 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686004356 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686004357 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 376686004358 Glycoprotease family; Region: Peptidase_M22; pfam00814 376686004359 Conserved TM helix; Region: TM_helix; pfam05552 376686004360 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686004361 Substrate binding subunit of ER-derived-lipid transporter; Provisional; Region: PLN03094 376686004362 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 376686004363 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 376686004364 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 376686004365 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 376686004366 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 376686004367 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 376686004368 trimer interface [polypeptide binding]; other site 376686004369 putative metal binding site [ion binding]; other site 376686004370 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686004371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686004372 active site 376686004373 phosphorylation site [posttranslational modification] 376686004374 intermolecular recognition site; other site 376686004375 dimerization interface [polypeptide binding]; other site 376686004376 LytTr DNA-binding domain; Region: LytTR; smart00850 376686004377 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 376686004378 active site 376686004379 Histidine kinase; Region: His_kinase; pfam06580 376686004380 Galactose oxidase, central domain; Region: Kelch_3; cl02701 376686004381 Kelch motif; Region: Kelch_1; pfam01344 376686004382 Galactose oxidase, central domain; Region: Kelch_3; cl02701 376686004383 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 376686004384 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 376686004385 glutamate racemase; Provisional; Region: PRK00865 376686004386 periplasmic chaperone; Provisional; Region: PRK10780 376686004387 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 376686004388 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 376686004389 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 376686004390 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 376686004391 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 376686004392 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 376686004393 Surface antigen; Region: Bac_surface_Ag; pfam01103 376686004394 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 376686004395 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 376686004396 catalytic residue [active] 376686004397 putative FPP diphosphate binding site; other site 376686004398 putative FPP binding hydrophobic cleft; other site 376686004399 dimer interface [polypeptide binding]; other site 376686004400 putative IPP diphosphate binding site; other site 376686004401 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 376686004402 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 376686004403 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 376686004404 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 376686004405 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 376686004406 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 376686004407 active site 376686004408 hydrophilic channel; other site 376686004409 dimerization interface [polypeptide binding]; other site 376686004410 catalytic residues [active] 376686004411 active site lid [active] 376686004412 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686004413 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 376686004414 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686004415 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686004416 PGAP1-like protein; Region: PGAP1; pfam07819 376686004417 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686004418 Predicted membrane protein [Function unknown]; Region: COG1950 376686004419 trigger factor; Provisional; Region: tig; PRK01490 376686004420 Clp protease; Region: CLP_protease; pfam00574 376686004421 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 376686004422 oligomer interface [polypeptide binding]; other site 376686004423 active site residues [active] 376686004424 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 376686004425 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 376686004426 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 376686004427 Walker A motif; other site 376686004428 ATP binding site [chemical binding]; other site 376686004429 Walker B motif; other site 376686004430 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 376686004431 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 376686004432 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 376686004433 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 376686004434 conserved cys residue [active] 376686004435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686004436 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 376686004437 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686004438 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 376686004439 putative hydrophobic ligand binding site [chemical binding]; other site 376686004440 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 376686004441 putative hydrophobic ligand binding site [chemical binding]; other site 376686004442 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 376686004443 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686004444 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 376686004445 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 376686004446 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686004447 dimer interface [polypeptide binding]; other site 376686004448 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 376686004449 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 376686004450 phosphoserine phosphatase SerB; Region: serB; TIGR00338 376686004451 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 376686004452 motif II; other site 376686004453 GH3 auxin-responsive promoter; Region: GH3; pfam03321 376686004454 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 376686004455 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 376686004456 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 376686004457 putative active site [active] 376686004458 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 376686004459 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 376686004460 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 376686004461 tandem repeat interface [polypeptide binding]; other site 376686004462 oligomer interface [polypeptide binding]; other site 376686004463 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 376686004464 active site residues [active] 376686004465 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 376686004466 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 376686004467 oligomer interface [polypeptide binding]; other site 376686004468 tandem repeat interface [polypeptide binding]; other site 376686004469 active site residues [active] 376686004470 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 376686004471 catalytic center binding site [active] 376686004472 ATP binding site [chemical binding]; other site 376686004473 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 376686004474 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 376686004475 Substrate-binding site [chemical binding]; other site 376686004476 Substrate specificity [chemical binding]; other site 376686004477 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 376686004478 ligand binding surface [chemical binding]; other site 376686004479 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 376686004480 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 376686004481 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 376686004482 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 376686004483 MutS domain I; Region: MutS_I; pfam01624 376686004484 MutS domain II; Region: MutS_II; pfam05188 376686004485 MutS domain III; Region: MutS_III; pfam05192 376686004486 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 376686004487 Walker A/P-loop; other site 376686004488 ATP binding site [chemical binding]; other site 376686004489 Q-loop/lid; other site 376686004490 ABC transporter signature motif; other site 376686004491 Walker B; other site 376686004492 D-loop; other site 376686004493 H-loop/switch region; other site 376686004494 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 376686004495 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 376686004496 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 376686004497 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 376686004498 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 376686004499 inhibitor-cofactor binding pocket; inhibition site 376686004500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686004501 catalytic residue [active] 376686004502 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 376686004503 UDP-glucose 4-epimerase; Region: PLN02240 376686004504 NAD binding site [chemical binding]; other site 376686004505 homodimer interface [polypeptide binding]; other site 376686004506 active site 376686004507 substrate binding site [chemical binding]; other site 376686004508 EamA-like transporter family; Region: EamA; pfam00892 376686004509 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 376686004510 EamA-like transporter family; Region: EamA; pfam00892 376686004511 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 376686004512 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 376686004513 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 376686004514 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686004515 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686004516 Uncharacterized conserved protein [Function unknown]; Region: COG2353 376686004517 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 376686004518 Pirin-related protein [General function prediction only]; Region: COG1741 376686004519 Pirin; Region: Pirin; pfam02678 376686004520 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686004521 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 376686004522 non-specific DNA binding site [nucleotide binding]; other site 376686004523 salt bridge; other site 376686004524 sequence-specific DNA binding site [nucleotide binding]; other site 376686004525 Domain of unknown function (DUF955); Region: DUF955; pfam06114 376686004526 malate synthase A; Region: malate_syn_A; TIGR01344 376686004527 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 376686004528 active site 376686004529 isocitrate lyase; Provisional; Region: PRK15063 376686004530 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 376686004531 tetramer interface [polypeptide binding]; other site 376686004532 active site 376686004533 Mg2+/Mn2+ binding site [ion binding]; other site 376686004534 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686004535 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 376686004536 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 376686004537 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 376686004538 ATP-grasp domain; Region: ATP-grasp; pfam02222 376686004539 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 376686004540 Peptidase family U32; Region: Peptidase_U32; pfam01136 376686004541 Collagenase; Region: DUF3656; pfam12392 376686004542 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 376686004543 aspartate aminotransferase; Provisional; Region: PRK05764 376686004544 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 376686004545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686004546 homodimer interface [polypeptide binding]; other site 376686004547 catalytic residue [active] 376686004548 Fatty acid desaturase; Region: FA_desaturase; pfam00487 376686004549 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 376686004550 putative di-iron ligands [ion binding]; other site 376686004551 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 376686004552 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 376686004553 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 376686004554 Glutamate binding site [chemical binding]; other site 376686004555 NAD binding site [chemical binding]; other site 376686004556 catalytic residues [active] 376686004557 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 376686004558 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 376686004559 ATP-dependent DNA ligase; Validated; Region: PRK09247 376686004560 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 376686004561 active site 376686004562 DNA binding site [nucleotide binding] 376686004563 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 376686004564 DNA binding site [nucleotide binding] 376686004565 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 376686004566 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 376686004567 ATP binding site [chemical binding]; other site 376686004568 putative Mg++ binding site [ion binding]; other site 376686004569 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 376686004570 nucleotide binding region [chemical binding]; other site 376686004571 ATP-binding site [chemical binding]; other site 376686004572 DEAD/H associated; Region: DEAD_assoc; pfam08494 376686004573 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686004574 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 376686004575 putative active site [active] 376686004576 putative metal binding site [ion binding]; other site 376686004577 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 376686004578 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 376686004579 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 376686004580 ATP binding site [chemical binding]; other site 376686004581 putative Mg++ binding site [ion binding]; other site 376686004582 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 376686004583 nucleotide binding region [chemical binding]; other site 376686004584 ATP-binding site [chemical binding]; other site 376686004585 Methyltransferase domain; Region: Methyltransf_23; pfam13489 376686004586 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 376686004587 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 376686004588 active site 376686004589 Protein of unknown function (DUF445); Region: DUF445; pfam04286 376686004590 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 376686004591 phosphoglyceromutase; Provisional; Region: PRK05434 376686004592 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 376686004593 putative ligand binding site [chemical binding]; other site 376686004594 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 376686004595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 376686004596 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 376686004597 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 376686004598 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 376686004599 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 376686004600 active site pocket [active] 376686004601 oxyanion hole [active] 376686004602 catalytic triad [active] 376686004603 active site nucleophile [active] 376686004604 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686004605 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686004606 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 376686004607 Zn binding site [ion binding]; other site 376686004608 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 376686004609 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 376686004610 active site 376686004611 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 376686004612 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 376686004613 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 376686004614 YceI-like domain; Region: YceI; cl01001 376686004615 YceI-like domain; Region: YceI; pfam04264 376686004616 YceI-like domain; Region: YceI; smart00867 376686004617 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 376686004618 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 376686004619 FeS/SAM binding site; other site 376686004620 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 376686004621 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 376686004622 substrate binding pocket [chemical binding]; other site 376686004623 chain length determination region; other site 376686004624 substrate-Mg2+ binding site; other site 376686004625 catalytic residues [active] 376686004626 aspartate-rich region 1; other site 376686004627 active site lid residues [active] 376686004628 aspartate-rich region 2; other site 376686004629 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 376686004630 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686004631 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 376686004632 DNA binding residues [nucleotide binding] 376686004633 DNA primase, catalytic core; Region: dnaG; TIGR01391 376686004634 CHC2 zinc finger; Region: zf-CHC2; cl17510 376686004635 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 376686004636 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 376686004637 active site 376686004638 metal binding site [ion binding]; metal-binding site 376686004639 interdomain interaction site; other site 376686004640 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 376686004641 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686004642 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 376686004643 DNA binding residues [nucleotide binding] 376686004644 dimerization interface [polypeptide binding]; other site 376686004645 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 376686004646 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 376686004647 homodimer interface [polypeptide binding]; other site 376686004648 NAD binding pocket [chemical binding]; other site 376686004649 ATP binding pocket [chemical binding]; other site 376686004650 Mg binding site [ion binding]; other site 376686004651 active-site loop [active] 376686004652 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 376686004653 gliding motility-associated protein GldC; Region: GldC; TIGR03515 376686004654 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 376686004655 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686004656 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 376686004657 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 376686004658 G1 box; other site 376686004659 GTP/Mg2+ binding site [chemical binding]; other site 376686004660 Switch I region; other site 376686004661 G2 box; other site 376686004662 G3 box; other site 376686004663 Switch II region; other site 376686004664 G4 box; other site 376686004665 G5 box; other site 376686004666 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 376686004667 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686004668 cell division protein MraZ; Reviewed; Region: PRK00326 376686004669 MraZ protein; Region: MraZ; pfam02381 376686004670 MraZ protein; Region: MraZ; pfam02381 376686004671 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 376686004672 MraW methylase family; Region: Methyltransf_5; cl17771 376686004673 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 376686004674 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 376686004675 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 376686004676 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 376686004677 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 376686004678 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 376686004679 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686004680 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 376686004681 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 376686004682 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 376686004683 Mg++ binding site [ion binding]; other site 376686004684 putative catalytic motif [active] 376686004685 putative substrate binding site [chemical binding]; other site 376686004686 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 376686004687 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686004688 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 376686004689 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 376686004690 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 376686004691 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 376686004692 active site 376686004693 homodimer interface [polypeptide binding]; other site 376686004694 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 376686004695 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 376686004696 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686004697 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 376686004698 cell division protein FtsA; Region: ftsA; TIGR01174 376686004699 Cell division protein FtsA; Region: FtsA; smart00842 376686004700 Cell division protein FtsA; Region: FtsA; pfam14450 376686004701 cell division protein FtsZ; Validated; Region: PRK09330 376686004702 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 376686004703 nucleotide binding site [chemical binding]; other site 376686004704 SulA interaction site; other site 376686004705 Yqey-like protein; Region: YqeY; cl17540 376686004706 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 376686004707 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 376686004708 Trp docking motif [polypeptide binding]; other site 376686004709 active site 376686004710 PQQ-like domain; Region: PQQ_2; pfam13360 376686004711 RibD C-terminal domain; Region: RibD_C; cl17279 376686004712 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 376686004713 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 376686004714 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 376686004715 Leucine carboxyl methyltransferase; Region: LCM; cl01306 376686004716 Protein of unknown function (DUF962); Region: DUF962; cl01879 376686004717 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 376686004718 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 376686004719 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 376686004720 Catalytic site [active] 376686004721 Predicted membrane protein [Function unknown]; Region: COG4270 376686004722 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 376686004723 active site 376686004724 NTP binding site [chemical binding]; other site 376686004725 metal binding triad [ion binding]; metal-binding site 376686004726 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686004727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686004728 active site 376686004729 phosphorylation site [posttranslational modification] 376686004730 intermolecular recognition site; other site 376686004731 dimerization interface [polypeptide binding]; other site 376686004732 LytTr DNA-binding domain; Region: LytTR; smart00850 376686004733 Histidine kinase; Region: His_kinase; pfam06580 376686004734 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 376686004735 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 376686004736 Sulfate transporter family; Region: Sulfate_transp; pfam00916 376686004737 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 376686004738 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686004739 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686004740 short chain dehydrogenase; Provisional; Region: PRK06180 376686004741 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686004742 NADP binding site [chemical binding]; other site 376686004743 active site 376686004744 steroid binding site; other site 376686004745 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 376686004746 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 376686004747 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 376686004748 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 376686004749 ring oligomerisation interface [polypeptide binding]; other site 376686004750 ATP/Mg binding site [chemical binding]; other site 376686004751 stacking interactions; other site 376686004752 hinge regions; other site 376686004753 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 376686004754 four helix bundle protein; Region: TIGR02436 376686004755 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 376686004756 oligomerisation interface [polypeptide binding]; other site 376686004757 mobile loop; other site 376686004758 roof hairpin; other site 376686004759 Preprotein translocase SecG subunit; Region: SecG; pfam03840 376686004760 Tetratricopeptide repeat; Region: TPR_6; pfam13174 376686004761 Lipopolysaccharide-assembly; Region: LptE; pfam04390 376686004762 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 376686004763 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686004764 Walker A motif; other site 376686004765 ATP binding site [chemical binding]; other site 376686004766 Walker B motif; other site 376686004767 arginine finger; other site 376686004768 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 376686004769 GxxExxY protein; Region: GxxExxY; TIGR04256 376686004770 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 376686004771 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 376686004772 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 376686004773 FeS/SAM binding site; other site 376686004774 TRAM domain; Region: TRAM; cl01282 376686004775 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 376686004776 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 376686004777 active site 376686004778 interdomain interaction site; other site 376686004779 putative metal-binding site [ion binding]; other site 376686004780 nucleotide binding site [chemical binding]; other site 376686004781 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 376686004782 domain I; other site 376686004783 DNA binding groove [nucleotide binding] 376686004784 phosphate binding site [ion binding]; other site 376686004785 domain II; other site 376686004786 domain III; other site 376686004787 nucleotide binding site [chemical binding]; other site 376686004788 catalytic site [active] 376686004789 domain IV; other site 376686004790 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 376686004791 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 376686004792 putative active site [active] 376686004793 putative metal binding site [ion binding]; other site 376686004794 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 376686004795 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 376686004796 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 376686004797 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 376686004798 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 376686004799 GldM N-terminal domain; Region: GldM_N; pfam12081 376686004800 GldM C-terminal domain; Region: GldM_C; pfam12080 376686004801 gliding motility associated protien GldN; Region: GldN; TIGR03523 376686004802 gliding motility associated protien GldN; Region: GldN; TIGR03523 376686004803 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 376686004804 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 376686004805 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 376686004806 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686004807 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686004808 ABC transporter; Region: ABC_tran_2; pfam12848 376686004809 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686004810 Uncharacterized conserved protein [Function unknown]; Region: COG4850 376686004811 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 376686004812 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 376686004813 lipid kinase, YegS/Rv2252/BmrU family; Region: TIGR00147 376686004814 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 376686004815 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 376686004816 hypothetical protein; Provisional; Region: PLN03150 376686004817 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 376686004818 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 376686004819 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 376686004820 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 376686004821 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cl00238 376686004822 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 376686004823 Uncharacterized conserved protein [Function unknown]; Region: COG3391 376686004824 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 376686004825 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 376686004826 N-terminal plug; other site 376686004827 ligand-binding site [chemical binding]; other site 376686004828 Helix-turn-helix domain; Region: HTH_19; pfam12844 376686004829 GTPase Era; Reviewed; Region: era; PRK00089 376686004830 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 376686004831 G1 box; other site 376686004832 GTP/Mg2+ binding site [chemical binding]; other site 376686004833 Switch I region; other site 376686004834 G2 box; other site 376686004835 Switch II region; other site 376686004836 G3 box; other site 376686004837 G4 box; other site 376686004838 G5 box; other site 376686004839 KH domain; Region: KH_2; pfam07650 376686004840 GTP-binding protein Der; Reviewed; Region: PRK00093 376686004841 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 376686004842 G1 box; other site 376686004843 GTP/Mg2+ binding site [chemical binding]; other site 376686004844 Switch I region; other site 376686004845 G2 box; other site 376686004846 Switch II region; other site 376686004847 G3 box; other site 376686004848 G4 box; other site 376686004849 G5 box; other site 376686004850 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 376686004851 G1 box; other site 376686004852 GTP/Mg2+ binding site [chemical binding]; other site 376686004853 Switch I region; other site 376686004854 G2 box; other site 376686004855 G3 box; other site 376686004856 Switch II region; other site 376686004857 G4 box; other site 376686004858 G5 box; other site 376686004859 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686004860 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 376686004861 LemA family; Region: LemA; cl00742 376686004862 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 376686004863 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 376686004864 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 376686004865 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686004866 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686004867 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 376686004868 N-terminal plug; other site 376686004869 ligand-binding site [chemical binding]; other site 376686004870 Predicted transcriptional regulator [Transcription]; Region: COG1959 376686004871 Transcriptional regulator; Region: Rrf2; pfam02082 376686004872 Repair protein; Region: Repair_PSII; pfam04536 376686004873 Repair protein; Region: Repair_PSII; pfam04536 376686004874 LemA family; Region: LemA; cl00742 376686004875 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 376686004876 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 376686004877 DNA binding residues [nucleotide binding] 376686004878 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 376686004879 Peptidase family M23; Region: Peptidase_M23; pfam01551 376686004880 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 376686004881 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 376686004882 motif 1; other site 376686004883 active site 376686004884 motif 2; other site 376686004885 motif 3; other site 376686004886 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 376686004887 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 376686004888 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 376686004889 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686004890 Walker A/P-loop; other site 376686004891 ATP binding site [chemical binding]; other site 376686004892 Q-loop/lid; other site 376686004893 ABC transporter signature motif; other site 376686004894 Walker B; other site 376686004895 D-loop; other site 376686004896 H-loop/switch region; other site 376686004897 GSCFA family; Region: GSCFA; pfam08885 376686004898 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 376686004899 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686004900 active site 376686004901 Family of unknown function (DUF490); Region: DUF490; pfam04357 376686004902 Family of unknown function (DUF490); Region: DUF490; pfam04357 376686004903 Surface antigen; Region: Bac_surface_Ag; pfam01103 376686004904 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 376686004905 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 376686004906 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 376686004907 cofactor binding site; other site 376686004908 metal binding site [ion binding]; metal-binding site 376686004909 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 376686004910 heme-binding site [chemical binding]; other site 376686004911 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 376686004912 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 376686004913 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 376686004914 putative sugar binding sites [chemical binding]; other site 376686004915 Q-X-W motif; other site 376686004916 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686004917 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 376686004918 tetramer interface [polypeptide binding]; other site 376686004919 threonine dehydratase; Validated; Region: PRK08639 376686004920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686004921 catalytic residue [active] 376686004922 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 376686004923 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 376686004924 urocanate hydratase; Provisional; Region: PRK05414 376686004925 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 376686004926 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 376686004927 dimerization interface [polypeptide binding]; other site 376686004928 ligand binding site [chemical binding]; other site 376686004929 NADP binding site [chemical binding]; other site 376686004930 catalytic site [active] 376686004931 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 376686004932 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 376686004933 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686004934 catalytic residue [active] 376686004935 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 376686004936 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 376686004937 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686004938 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 376686004939 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 376686004940 inhibitor-cofactor binding pocket; inhibition site 376686004941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686004942 catalytic residue [active] 376686004943 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 376686004944 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 376686004945 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 376686004946 putative ligand binding site [chemical binding]; other site 376686004947 putative NAD binding site [chemical binding]; other site 376686004948 catalytic site [active] 376686004949 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 376686004950 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 376686004951 dimer interface [polypeptide binding]; other site 376686004952 putative anticodon binding site; other site 376686004953 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 376686004954 motif 1; other site 376686004955 active site 376686004956 motif 2; other site 376686004957 motif 3; other site 376686004958 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 376686004959 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 376686004960 RNA/DNA hybrid binding site [nucleotide binding]; other site 376686004961 active site 376686004962 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686004963 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686004964 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 376686004965 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686004966 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686004967 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 376686004968 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 376686004969 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 376686004970 dimer interface [polypeptide binding]; other site 376686004971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686004972 catalytic residue [active] 376686004973 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 376686004974 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 376686004975 PspC domain; Region: PspC; cl00864 376686004976 amino acid transporter; Region: 2A0306; TIGR00909 376686004977 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 376686004978 The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators; Region: NR_LBD; cl11397 376686004979 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 376686004980 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 376686004981 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 376686004982 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 376686004983 FAD binding site [chemical binding]; other site 376686004984 homotetramer interface [polypeptide binding]; other site 376686004985 substrate binding pocket [chemical binding]; other site 376686004986 catalytic base [active] 376686004987 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 376686004988 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 376686004989 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 376686004990 active site 376686004991 DNA binding site [nucleotide binding] 376686004992 Int/Topo IB signature motif; other site 376686004993 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 376686004994 30S subunit binding site; other site 376686004995 elongation factor Tu; Reviewed; Region: PRK12735 376686004996 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 376686004997 G1 box; other site 376686004998 GEF interaction site [polypeptide binding]; other site 376686004999 GTP/Mg2+ binding site [chemical binding]; other site 376686005000 Switch I region; other site 376686005001 G2 box; other site 376686005002 G3 box; other site 376686005003 Switch II region; other site 376686005004 G4 box; other site 376686005005 G5 box; other site 376686005006 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 376686005007 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 376686005008 Antibiotic Binding Site [chemical binding]; other site 376686005009 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 376686005010 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 376686005011 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 376686005012 putative homodimer interface [polypeptide binding]; other site 376686005013 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 376686005014 heterodimer interface [polypeptide binding]; other site 376686005015 homodimer interface [polypeptide binding]; other site 376686005016 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 376686005017 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 376686005018 23S rRNA interface [nucleotide binding]; other site 376686005019 L7/L12 interface [polypeptide binding]; other site 376686005020 putative thiostrepton binding site; other site 376686005021 L25 interface [polypeptide binding]; other site 376686005022 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 376686005023 mRNA/rRNA interface [nucleotide binding]; other site 376686005024 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 376686005025 23S rRNA interface [nucleotide binding]; other site 376686005026 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 376686005027 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 376686005028 core dimer interface [polypeptide binding]; other site 376686005029 peripheral dimer interface [polypeptide binding]; other site 376686005030 L10 interface [polypeptide binding]; other site 376686005031 L11 interface [polypeptide binding]; other site 376686005032 putative EF-Tu interaction site [polypeptide binding]; other site 376686005033 putative EF-G interaction site [polypeptide binding]; other site 376686005034 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 376686005035 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 376686005036 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 376686005037 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 376686005038 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 376686005039 RPB12 interaction site [polypeptide binding]; other site 376686005040 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 376686005041 RPB1 interaction site [polypeptide binding]; other site 376686005042 RPB11 interaction site [polypeptide binding]; other site 376686005043 RPB10 interaction site [polypeptide binding]; other site 376686005044 RPB3 interaction site [polypeptide binding]; other site 376686005045 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 376686005046 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 376686005047 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 376686005048 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 376686005049 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 376686005050 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 376686005051 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 376686005052 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 376686005053 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 376686005054 DNA binding site [nucleotide binding] 376686005055 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 376686005056 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 376686005057 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 376686005058 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 376686005059 G1 box; other site 376686005060 putative GEF interaction site [polypeptide binding]; other site 376686005061 GTP/Mg2+ binding site [chemical binding]; other site 376686005062 Switch I region; other site 376686005063 G2 box; other site 376686005064 G3 box; other site 376686005065 Switch II region; other site 376686005066 G4 box; other site 376686005067 G5 box; other site 376686005068 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 376686005069 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 376686005070 Alpha amylase catalytic domain found in archaeal, bacterial, and plant Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_plant_AmyA; cd11314 376686005071 active site 376686005072 Ca binding site [ion binding]; other site 376686005073 catalytic site [active] 376686005074 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 376686005075 SurA N-terminal domain; Region: SurA_N; pfam09312 376686005076 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 376686005077 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 376686005078 MoxR-like ATPases [General function prediction only]; Region: COG0714 376686005079 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 376686005080 Walker A motif; other site 376686005081 ATP binding site [chemical binding]; other site 376686005082 Walker B motif; other site 376686005083 arginine finger; other site 376686005084 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 376686005085 Aconitate hydratase 2 N-terminus; Region: Aconitase_2_N; pfam06434 376686005086 substrate binding site [chemical binding]; other site 376686005087 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 376686005088 substrate binding site [chemical binding]; other site 376686005089 ligand binding site [chemical binding]; other site 376686005090 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 376686005091 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 376686005092 substrate binding site [chemical binding]; other site 376686005093 ligand binding site [chemical binding]; other site 376686005094 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 376686005095 substrate binding site [chemical binding]; other site 376686005096 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686005097 Galactose oxidase, central domain; Region: Kelch_3; cl02701 376686005098 Kelch motif; Region: Kelch_1; pfam01344 376686005099 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686005100 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 376686005101 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686005102 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 376686005103 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686005104 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 376686005105 NlpC/P60 family; Region: NLPC_P60; pfam00877 376686005106 Response regulator receiver domain; Region: Response_reg; pfam00072 376686005107 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686005108 active site 376686005109 phosphorylation site [posttranslational modification] 376686005110 intermolecular recognition site; other site 376686005111 dimerization interface [polypeptide binding]; other site 376686005112 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686005113 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 376686005114 dimer interface [polypeptide binding]; other site 376686005115 phosphorylation site [posttranslational modification] 376686005116 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 376686005117 ATP binding site [chemical binding]; other site 376686005118 Mg2+ binding site [ion binding]; other site 376686005119 G-X-G motif; other site 376686005120 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 376686005121 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686005122 Walker A motif; other site 376686005123 ATP binding site [chemical binding]; other site 376686005124 Walker B motif; other site 376686005125 arginine finger; other site 376686005126 amino acid transporter; Region: 2A0306; TIGR00909 376686005127 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 376686005128 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 376686005129 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 376686005130 putative catalytic site [active] 376686005131 putative phosphate binding site [ion binding]; other site 376686005132 active site 376686005133 metal binding site A [ion binding]; metal-binding site 376686005134 DNA binding site [nucleotide binding] 376686005135 putative AP binding site [nucleotide binding]; other site 376686005136 putative metal binding site B [ion binding]; other site 376686005137 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686005138 active site 376686005139 catalytic site [active] 376686005140 substrate binding site [chemical binding]; other site 376686005141 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 376686005142 GIY-YIG motif/motif A; other site 376686005143 active site 376686005144 catalytic site [active] 376686005145 putative DNA binding site [nucleotide binding]; other site 376686005146 metal binding site [ion binding]; metal-binding site 376686005147 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 376686005148 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 376686005149 active site 376686005150 DNA binding site [nucleotide binding] 376686005151 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 376686005152 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 376686005153 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 376686005154 Catalytic site [active] 376686005155 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686005156 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 376686005157 non-specific DNA binding site [nucleotide binding]; other site 376686005158 salt bridge; other site 376686005159 sequence-specific DNA binding site [nucleotide binding]; other site 376686005160 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 376686005161 Catalytic site [active] 376686005162 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 376686005163 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 376686005164 active site 376686005165 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 376686005166 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 376686005167 dimerization interface [polypeptide binding]; other site 376686005168 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 376686005169 putative active site [active] 376686005170 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 376686005171 dimer interface [polypeptide binding]; other site 376686005172 phosphorylation site [posttranslational modification] 376686005173 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 376686005174 ATP binding site [chemical binding]; other site 376686005175 Mg2+ binding site [ion binding]; other site 376686005176 G-X-G motif; other site 376686005177 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 376686005178 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 376686005179 Ligand Binding Site [chemical binding]; other site 376686005180 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 376686005181 potassium-transporting ATPase subunit C; Provisional; Region: PRK14002 376686005182 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 376686005183 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686005184 Soluble P-type ATPase [General function prediction only]; Region: COG4087 376686005185 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 376686005186 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 376686005187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686005188 active site 376686005189 phosphorylation site [posttranslational modification] 376686005190 intermolecular recognition site; other site 376686005191 dimerization interface [polypeptide binding]; other site 376686005192 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 376686005193 Walker A motif; other site 376686005194 ATP binding site [chemical binding]; other site 376686005195 Walker B motif; other site 376686005196 arginine finger; other site 376686005197 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 376686005198 Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 6-stranded beta/alpha barrel; Region: CE4_DAC_u1_6s; cd10970 376686005199 putative active site [active] 376686005200 putative metal binding site [ion binding]; other site 376686005201 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 376686005202 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 376686005203 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 376686005204 Zn binding site [ion binding]; other site 376686005205 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 376686005206 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 376686005207 Walker A/P-loop; other site 376686005208 ATP binding site [chemical binding]; other site 376686005209 Q-loop/lid; other site 376686005210 ABC transporter signature motif; other site 376686005211 Walker B; other site 376686005212 D-loop; other site 376686005213 H-loop/switch region; other site 376686005214 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 376686005215 salt bridge; other site 376686005216 non-specific DNA binding site [nucleotide binding]; other site 376686005217 sequence-specific DNA binding site [nucleotide binding]; other site 376686005218 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 376686005219 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 376686005220 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 376686005221 HYR domain; Region: HYR; pfam02494 376686005222 HYR domain; Region: HYR; pfam02494 376686005223 HYR domain; Region: HYR; pfam02494 376686005224 FG-GAP repeat; Region: FG-GAP; cl15299 376686005225 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 376686005226 HYR domain; Region: HYR; pfam02494 376686005227 HYR domain; Region: HYR; pfam02494 376686005228 HYR domain; Region: HYR; pfam02494 376686005229 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 376686005230 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 376686005231 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686005232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686005233 active site 376686005234 phosphorylation site [posttranslational modification] 376686005235 intermolecular recognition site; other site 376686005236 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 376686005237 DNA binding residues [nucleotide binding] 376686005238 dimerization interface [polypeptide binding]; other site 376686005239 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 376686005240 binding surface 376686005241 TPR motif; other site 376686005242 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686005243 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 376686005244 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686005245 binding surface 376686005246 TPR motif; other site 376686005247 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686005248 Histidine kinase; Region: HisKA_3; pfam07730 376686005249 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 376686005250 ATP binding site [chemical binding]; other site 376686005251 Mg2+ binding site [ion binding]; other site 376686005252 G-X-G motif; other site 376686005253 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686005254 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686005255 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686005256 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686005257 DNA binding site [nucleotide binding] 376686005258 domain linker motif; other site 376686005259 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686005260 dimerization interface [polypeptide binding]; other site 376686005261 ligand binding site [chemical binding]; other site 376686005262 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686005263 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686005264 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 376686005265 substrate binding site [chemical binding]; other site 376686005266 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 376686005267 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 376686005268 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 376686005269 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 376686005270 classical (c) SDRs; Region: SDR_c; cd05233 376686005271 NAD(P) binding site [chemical binding]; other site 376686005272 active site 376686005273 mannonate dehydratase; Provisional; Region: PRK03906 376686005274 mannonate dehydratase; Region: uxuA; TIGR00695 376686005275 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 376686005276 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 376686005277 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686005278 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 376686005279 substrate binding site [chemical binding]; other site 376686005280 active site 376686005281 Predicted transcriptional regulators [Transcription]; Region: COG1725 376686005282 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686005283 DNA-binding site [nucleotide binding]; DNA binding site 376686005284 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 376686005285 putative dimerization interface [polypeptide binding]; other site 376686005286 putative ligand binding site [chemical binding]; other site 376686005287 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686005288 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 376686005289 D-xylulose kinases, subgroup 2; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_2; cd07810 376686005290 putative N- and C-terminal domain interface [polypeptide binding]; other site 376686005291 putative active site [active] 376686005292 putative MgATP binding site [chemical binding]; other site 376686005293 catalytic site [active] 376686005294 metal binding site [ion binding]; metal-binding site 376686005295 putative xylulose binding site [chemical binding]; other site 376686005296 putative homodimer interface [polypeptide binding]; other site 376686005297 xylose isomerase; Provisional; Region: PRK05474 376686005298 xylose isomerase; Region: xylose_isom_A; TIGR02630 376686005299 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 376686005300 active site 376686005301 intersubunit interactions; other site 376686005302 catalytic residue [active] 376686005303 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 376686005304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 376686005305 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 376686005306 dimerization interface [polypeptide binding]; other site 376686005307 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 376686005308 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 376686005309 putative active site pocket [active] 376686005310 dimerization interface [polypeptide binding]; other site 376686005311 putative catalytic residue [active] 376686005312 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686005313 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686005314 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 376686005315 DNA binding residues [nucleotide binding] 376686005316 FecR protein; Region: FecR; pfam04773 376686005317 Secretin and TonB N terminus short domain; Region: STN; pfam07660 376686005318 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686005319 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686005320 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686005321 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 376686005322 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 376686005323 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686005324 starch binding outer membrane protein SusD; Region: SusD; cl17845 376686005325 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686005326 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 376686005327 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686005328 catalytic residues [active] 376686005329 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686005330 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 376686005331 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686005332 catalytic residues [active] 376686005333 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686005334 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 376686005335 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686005336 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686005337 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 376686005338 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686005339 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 376686005340 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 376686005341 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 376686005342 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 376686005343 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686005344 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 376686005345 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 376686005346 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686005347 catalytic residue [active] 376686005348 MarR family; Region: MarR_2; pfam12802 376686005349 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686005350 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686005351 Coenzyme A binding pocket [chemical binding]; other site 376686005352 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686005353 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686005354 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686005355 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 376686005356 dimer interface [polypeptide binding]; other site 376686005357 phosphorylation site [posttranslational modification] 376686005358 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 376686005359 ATP binding site [chemical binding]; other site 376686005360 Mg2+ binding site [ion binding]; other site 376686005361 G-X-G motif; other site 376686005362 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686005363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686005364 active site 376686005365 phosphorylation site [posttranslational modification] 376686005366 intermolecular recognition site; other site 376686005367 dimerization interface [polypeptide binding]; other site 376686005368 HTH domain; Region: HTH_11; pfam08279 376686005369 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686005370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686005371 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686005372 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686005373 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686005374 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686005375 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686005376 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 376686005377 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686005378 active site 376686005379 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686005380 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686005381 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686005382 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 376686005383 active site 376686005384 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 376686005385 active site 376686005386 catalytic residues [active] 376686005387 Glycosyl hydrolase family 43; Region: GH43_bXyl_2; cd08991 376686005388 active site 376686005389 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 376686005390 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 376686005391 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 376686005392 Fn3 associated; Region: Fn3_assoc; pfam13287 376686005393 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 376686005394 sugar binding site [chemical binding]; other site 376686005395 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 376686005396 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 376686005397 active site 376686005398 trimer interface [polypeptide binding]; other site 376686005399 allosteric site; other site 376686005400 active site lid [active] 376686005401 hexamer (dimer of trimers) interface [polypeptide binding]; other site 376686005402 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 376686005403 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686005404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686005405 active site 376686005406 phosphorylation site [posttranslational modification] 376686005407 intermolecular recognition site; other site 376686005408 dimerization interface [polypeptide binding]; other site 376686005409 LytTr DNA-binding domain; Region: LytTR; smart00850 376686005410 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 376686005411 Histidine kinase; Region: His_kinase; pfam06580 376686005412 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686005413 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 376686005414 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 376686005415 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 376686005416 Na binding site [ion binding]; other site 376686005417 Domain of unknown function (DUF377); Region: DUF377; pfam04041 376686005418 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686005419 active site 376686005420 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 376686005421 putative ligand binding site [chemical binding]; other site 376686005422 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 376686005423 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 376686005424 active site 376686005425 dimer interface [polypeptide binding]; other site 376686005426 catalytic nucleophile [active] 376686005427 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 376686005428 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686005429 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686005430 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686005431 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 376686005432 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 376686005433 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 376686005434 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 376686005435 active site 376686005436 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 376686005437 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 376686005438 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 376686005439 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 376686005440 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686005441 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 376686005442 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 376686005443 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686005444 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 376686005445 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 376686005446 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686005447 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686005448 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686005449 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 376686005450 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 376686005451 starch binding outer membrane protein SusD; Region: SusD; cl17845 376686005452 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 376686005453 BNR repeat-like domain; Region: BNR_2; pfam13088 376686005454 Domain of unknown function (DUF718); Region: DUF718; pfam05336 376686005455 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 376686005456 Peptidase family M28; Region: Peptidase_M28; pfam04389 376686005457 metal binding site [ion binding]; metal-binding site 376686005458 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686005459 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 376686005460 non-specific DNA binding site [nucleotide binding]; other site 376686005461 salt bridge; other site 376686005462 sequence-specific DNA binding site [nucleotide binding]; other site 376686005463 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686005464 SET domain; Region: SET; pfam00856 376686005465 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 376686005466 Interdomain contacts; other site 376686005467 Cytokine receptor motif; other site 376686005468 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 376686005469 protein-splicing catalytic site; other site 376686005470 thioester formation/cholesterol transfer; other site 376686005471 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 376686005472 metal ion-dependent adhesion site (MIDAS); other site 376686005473 Transposase IS200 like; Region: Y1_Tnp; cl00848 376686005474 CHAP domain; Region: CHAP; cl17642 376686005475 Predicted transcriptional regulator [Transcription]; Region: COG2932 376686005476 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 376686005477 Catalytic site [active] 376686005478 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686005479 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686005480 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686005481 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 376686005482 dimer interface [polypeptide binding]; other site 376686005483 phosphorylation site [posttranslational modification] 376686005484 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 376686005485 ATP binding site [chemical binding]; other site 376686005486 Mg2+ binding site [ion binding]; other site 376686005487 G-X-G motif; other site 376686005488 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686005489 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686005490 active site 376686005491 phosphorylation site [posttranslational modification] 376686005492 intermolecular recognition site; other site 376686005493 dimerization interface [polypeptide binding]; other site 376686005494 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686005495 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686005496 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686005497 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686005498 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 376686005499 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 376686005500 starch binding outer membrane protein SusD; Region: SusD; cl17845 376686005501 SusD family; Region: SusD; pfam07980 376686005502 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 376686005503 PKD domain; Region: PKD; pfam00801 376686005504 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686005505 beta-D-glucuronidase; Provisional; Region: PRK10150 376686005506 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686005507 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686005508 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686005509 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686005510 active site 376686005511 phosphorylation site [posttranslational modification] 376686005512 intermolecular recognition site; other site 376686005513 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 376686005514 binding surface 376686005515 TPR motif; other site 376686005516 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686005517 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686005518 Histidine kinase; Region: HisKA_3; pfam07730 376686005519 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 376686005520 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 376686005521 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686005522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686005523 NAD(P) binding site [chemical binding]; other site 376686005524 active site 376686005525 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005526 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 376686005527 acyl-activating enzyme (AAE) consensus motif; other site 376686005528 AMP binding site [chemical binding]; other site 376686005529 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005530 Condensation domain; Region: Condensation; pfam00668 376686005531 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005532 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005533 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005534 acyl-activating enzyme (AAE) consensus motif; other site 376686005535 AMP binding site [chemical binding]; other site 376686005536 Condensation domain; Region: Condensation; pfam00668 376686005537 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005538 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005539 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005540 acyl-activating enzyme (AAE) consensus motif; other site 376686005541 AMP binding site [chemical binding]; other site 376686005542 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005543 Condensation domain; Region: Condensation; pfam00668 376686005544 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005545 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005546 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005547 acyl-activating enzyme (AAE) consensus motif; other site 376686005548 AMP binding site [chemical binding]; other site 376686005549 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005550 Condensation domain; Region: Condensation; pfam00668 376686005551 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005552 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005553 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005554 acyl-activating enzyme (AAE) consensus motif; other site 376686005555 AMP binding site [chemical binding]; other site 376686005556 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005557 Condensation domain; Region: Condensation; pfam00668 376686005558 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005559 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005560 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005561 acyl-activating enzyme (AAE) consensus motif; other site 376686005562 AMP binding site [chemical binding]; other site 376686005563 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005564 Condensation domain; Region: Condensation; pfam00668 376686005565 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005566 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005567 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 376686005568 classical (c) SDRs; Region: SDR_c; cd05233 376686005569 NAD(P) binding site [chemical binding]; other site 376686005570 active site 376686005571 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005572 AMP-binding enzyme; Region: AMP-binding; pfam00501 376686005573 acyl-activating enzyme (AAE) consensus motif; other site 376686005574 AMP binding site [chemical binding]; other site 376686005575 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005576 Condensation domain; Region: Condensation; pfam00668 376686005577 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 376686005578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686005579 NAD(P) binding site [chemical binding]; other site 376686005580 active site 376686005581 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 376686005582 AMP-binding enzyme; Region: AMP-binding; pfam00501 376686005583 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005584 acyl-activating enzyme (AAE) consensus motif; other site 376686005585 AMP binding site [chemical binding]; other site 376686005586 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005587 Condensation domain; Region: Condensation; pfam00668 376686005588 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005589 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005590 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005591 acyl-activating enzyme (AAE) consensus motif; other site 376686005592 AMP binding site [chemical binding]; other site 376686005593 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005594 Condensation domain; Region: Condensation; pfam00668 376686005595 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005596 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005597 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 376686005598 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 376686005599 inhibitor-cofactor binding pocket; inhibition site 376686005600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686005601 catalytic residue [active] 376686005602 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005603 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 376686005604 acyl-activating enzyme (AAE) consensus motif; other site 376686005605 AMP binding site [chemical binding]; other site 376686005606 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005607 Condensation domain; Region: Condensation; pfam00668 376686005608 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005609 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005610 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005611 acyl-activating enzyme (AAE) consensus motif; other site 376686005612 AMP binding site [chemical binding]; other site 376686005613 Condensation domain; Region: Condensation; pfam00668 376686005614 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 376686005615 Condensation domain; Region: Condensation; pfam00668 376686005616 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005617 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005618 acyl-activating enzyme (AAE) consensus motif; other site 376686005619 AMP binding site [chemical binding]; other site 376686005620 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005621 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 376686005622 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686005623 Predicted membrane protein (DUF2070); Region: DUF2070; pfam09843 376686005624 Condensation domain; Region: Condensation; pfam00668 376686005625 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005626 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005627 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 376686005628 acyl-activating enzyme (AAE) consensus motif; other site 376686005629 AMP binding site [chemical binding]; other site 376686005630 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005631 Condensation domain; Region: Condensation; pfam00668 376686005632 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 376686005633 Condensation domain; Region: Condensation; pfam00668 376686005634 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686005635 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 376686005636 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686005637 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 376686005638 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 376686005639 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 376686005640 Walker A/P-loop; other site 376686005641 ATP binding site [chemical binding]; other site 376686005642 Q-loop/lid; other site 376686005643 ABC transporter signature motif; other site 376686005644 Walker B; other site 376686005645 D-loop; other site 376686005646 H-loop/switch region; other site 376686005647 Condensation domain; Region: Condensation; pfam00668 376686005648 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005649 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005650 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 376686005651 acyl-activating enzyme (AAE) consensus motif; other site 376686005652 AMP binding site [chemical binding]; other site 376686005653 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 376686005654 Condensation domain; Region: Condensation; pfam00668 376686005655 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005656 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005657 TAP-like protein; Region: Abhydrolase_4; pfam08386 376686005658 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 376686005659 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 376686005660 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686005661 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686005662 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 376686005663 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 376686005664 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 376686005665 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 376686005666 dimerization interface [polypeptide binding]; other site 376686005667 active site 376686005668 Predicted permeases [General function prediction only]; Region: COG0795 376686005669 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 376686005670 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 376686005671 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 376686005672 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 376686005673 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 376686005674 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 376686005675 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 376686005676 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 376686005677 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 376686005678 dimer interface [polypeptide binding]; other site 376686005679 catalytic triad [active] 376686005680 peroxidatic and resolving cysteines [active] 376686005681 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 376686005682 catalytic residues [active] 376686005683 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 376686005684 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 376686005685 dimer interface [polypeptide binding]; other site 376686005686 decamer (pentamer of dimers) interface [polypeptide binding]; other site 376686005687 catalytic triad [active] 376686005688 peroxidatic and resolving cysteines [active] 376686005689 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 376686005690 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686005691 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686005692 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686005693 Coenzyme A binding pocket [chemical binding]; other site 376686005694 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686005695 muropeptide transporter; Reviewed; Region: ampG; PRK11902 376686005696 putative substrate translocation pore; other site 376686005697 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 376686005698 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 376686005699 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 376686005700 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 376686005701 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 376686005702 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 376686005703 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686005704 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 376686005705 FAD binding domain; Region: FAD_binding_4; pfam01565 376686005706 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 376686005707 amino acid transporter; Region: 2A0306; TIGR00909 376686005708 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 376686005709 methionine gamma-lyase; Region: PLN02242 376686005710 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 376686005711 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686005712 catalytic residue [active] 376686005713 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 376686005714 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 376686005715 AsnC family; Region: AsnC_trans_reg; pfam01037 376686005716 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 376686005717 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 376686005718 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686005719 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 376686005720 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 376686005721 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 376686005722 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 376686005723 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 376686005724 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 376686005725 chorismate binding enzyme; Region: Chorismate_bind; cl10555 376686005726 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 376686005727 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 376686005728 Ligand Binding Site [chemical binding]; other site 376686005729 TilS substrate C-terminal domain; Region: TilS_C; smart00977 376686005730 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 376686005731 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 376686005732 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 376686005733 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686005734 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 376686005735 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 376686005736 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 376686005737 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 376686005738 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 376686005739 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 376686005740 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 376686005741 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 376686005742 Walker A motif; other site 376686005743 ATP binding site [chemical binding]; other site 376686005744 Walker B motif; other site 376686005745 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 376686005746 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 376686005747 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686005748 Walker A/P-loop; other site 376686005749 ATP binding site [chemical binding]; other site 376686005750 Q-loop/lid; other site 376686005751 ABC transporter signature motif; other site 376686005752 Walker B; other site 376686005753 D-loop; other site 376686005754 H-loop/switch region; other site 376686005755 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686005756 SnoaL-like domain; Region: SnoaL_2; pfam12680 376686005757 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 376686005758 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 376686005759 putative hydrophobic ligand binding site [chemical binding]; other site 376686005760 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 376686005761 putative hydrophobic ligand binding site [chemical binding]; other site 376686005762 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 376686005763 dimerization interface [polypeptide binding]; other site 376686005764 putative DNA binding site [nucleotide binding]; other site 376686005765 putative Zn2+ binding site [ion binding]; other site 376686005766 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686005767 DinB superfamily; Region: DinB_2; pfam12867 376686005768 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686005769 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 376686005770 non-specific DNA binding site [nucleotide binding]; other site 376686005771 salt bridge; other site 376686005772 sequence-specific DNA binding site [nucleotide binding]; other site 376686005773 diaminopimelate decarboxylase; Region: lysA; TIGR01048 376686005774 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 376686005775 active site 376686005776 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686005777 substrate binding site [chemical binding]; other site 376686005778 catalytic residues [active] 376686005779 dimer interface [polypeptide binding]; other site 376686005780 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 376686005781 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 376686005782 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 376686005783 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 376686005784 active site 376686005785 dimer interface [polypeptide binding]; other site 376686005786 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 376686005787 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 376686005788 active site 376686005789 FMN binding site [chemical binding]; other site 376686005790 substrate binding site [chemical binding]; other site 376686005791 3Fe-4S cluster binding site [ion binding]; other site 376686005792 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 376686005793 domain interface; other site 376686005794 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 376686005795 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 376686005796 CoA-ligase; Region: Ligase_CoA; pfam00549 376686005797 Histidine kinase; Region: His_kinase; pfam06580 376686005798 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686005799 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686005800 active site 376686005801 phosphorylation site [posttranslational modification] 376686005802 intermolecular recognition site; other site 376686005803 dimerization interface [polypeptide binding]; other site 376686005804 LytTr DNA-binding domain; Region: LytTR; smart00850 376686005805 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 376686005806 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 376686005807 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 376686005808 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686005809 catalytic residue [active] 376686005810 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 376686005811 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 376686005812 active site 376686005813 excinuclease ABC subunit B; Provisional; Region: PRK05298 376686005814 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 376686005815 ATP binding site [chemical binding]; other site 376686005816 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 376686005817 nucleotide binding region [chemical binding]; other site 376686005818 ATP-binding site [chemical binding]; other site 376686005819 Ultra-violet resistance protein B; Region: UvrB; pfam12344 376686005820 UvrB/uvrC motif; Region: UVR; pfam02151 376686005821 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686005822 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 376686005823 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 376686005824 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 376686005825 Thiamine pyrophosphokinase; Region: TPK; cd07995 376686005826 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 376686005827 active site 376686005828 dimerization interface [polypeptide binding]; other site 376686005829 thiamine binding site [chemical binding]; other site 376686005830 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 376686005831 homotrimer interaction site [polypeptide binding]; other site 376686005832 putative active site [active] 376686005833 DinB superfamily; Region: DinB_2; pfam12867 376686005834 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 376686005835 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 376686005836 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686005837 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686005838 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 376686005839 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 376686005840 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 376686005841 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 376686005842 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 376686005843 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 376686005844 Transposase IS200 like; Region: Y1_Tnp; pfam01797 376686005845 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 376686005846 Predicted flavoprotein [General function prediction only]; Region: COG0431 376686005847 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 376686005848 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 376686005849 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 376686005850 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686005851 putative substrate translocation pore; other site 376686005852 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 376686005853 active site 376686005854 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 376686005855 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 376686005856 Cytochrome c; Region: Cytochrom_C; cl11414 376686005857 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 376686005858 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 376686005859 putative catalytic residue [active] 376686005860 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 376686005861 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 376686005862 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686005863 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 376686005864 dimer interface [polypeptide binding]; other site 376686005865 putative tRNA-binding site [nucleotide binding]; other site 376686005866 Serine hydrolase; Region: Ser_hydrolase; pfam06821 376686005867 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 376686005868 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 376686005869 substrate binding pocket [chemical binding]; other site 376686005870 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 376686005871 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 376686005872 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 376686005873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686005874 Walker A/P-loop; other site 376686005875 ATP binding site [chemical binding]; other site 376686005876 Q-loop/lid; other site 376686005877 ABC transporter signature motif; other site 376686005878 Walker B; other site 376686005879 D-loop; other site 376686005880 H-loop/switch region; other site 376686005881 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 376686005882 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 376686005883 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 376686005884 NAD binding site [chemical binding]; other site 376686005885 Phe binding site; other site 376686005886 transcription antitermination factor NusB; Region: nusB; TIGR01951 376686005887 Preprotein translocase subunit; Region: YajC; pfam02699 376686005888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 376686005889 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 376686005890 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 376686005891 peptidase T; Region: peptidase-T; TIGR01882 376686005892 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 376686005893 metal binding site [ion binding]; metal-binding site 376686005894 dimer interface [polypeptide binding]; other site 376686005895 gliding motility-associated lipoprotein GldJ; Region: GldJ_short; TIGR03530 376686005896 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 376686005897 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 376686005898 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 376686005899 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 376686005900 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 376686005901 quinone interaction residues [chemical binding]; other site 376686005902 active site 376686005903 catalytic residues [active] 376686005904 FMN binding site [chemical binding]; other site 376686005905 substrate binding site [chemical binding]; other site 376686005906 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 376686005907 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 376686005908 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; cl17257 376686005909 DNA binding residues [nucleotide binding] 376686005910 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 376686005911 active site 376686005912 catalytic residues [active] 376686005913 metal binding site [ion binding]; metal-binding site 376686005914 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 376686005915 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 376686005916 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 376686005917 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 376686005918 active site 376686005919 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 376686005920 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 376686005921 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 376686005922 dimer interface [polypeptide binding]; other site 376686005923 ADP-ribose binding site [chemical binding]; other site 376686005924 active site 376686005925 nudix motif; other site 376686005926 metal binding site [ion binding]; metal-binding site 376686005927 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 376686005928 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 376686005929 GDP-binding site [chemical binding]; other site 376686005930 ACT binding site; other site 376686005931 IMP binding site; other site 376686005932 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 376686005933 metal binding site 2 [ion binding]; metal-binding site 376686005934 putative DNA binding helix; other site 376686005935 metal binding site 1 [ion binding]; metal-binding site 376686005936 dimer interface [polypeptide binding]; other site 376686005937 structural Zn2+ binding site [ion binding]; other site 376686005938 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 376686005939 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 376686005940 Zn2+ binding site [ion binding]; other site 376686005941 Mg2+ binding site [ion binding]; other site 376686005942 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 376686005943 synthetase active site [active] 376686005944 NTP binding site [chemical binding]; other site 376686005945 metal binding site [ion binding]; metal-binding site 376686005946 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 376686005947 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 376686005948 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 376686005949 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 376686005950 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 376686005951 Sulfatase; Region: Sulfatase; cl17466 376686005952 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 376686005953 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686005954 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 376686005955 active site triad [active] 376686005956 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 376686005957 Protein of unknown function DUF58; Region: DUF58; pfam01882 376686005958 MoxR-like ATPases [General function prediction only]; Region: COG0714 376686005959 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 376686005960 Walker A motif; other site 376686005961 ATP binding site [chemical binding]; other site 376686005962 Walker B motif; other site 376686005963 arginine finger; other site 376686005964 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 376686005965 Integral membrane protein DUF95; Region: DUF95; pfam01944 376686005966 RDD family; Region: RDD; pfam06271 376686005967 Predicted membrane protein [Function unknown]; Region: COG2860 376686005968 UPF0126 domain; Region: UPF0126; pfam03458 376686005969 UPF0126 domain; Region: UPF0126; pfam03458 376686005970 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 376686005971 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 376686005972 inhibitor-cofactor binding pocket; inhibition site 376686005973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686005974 catalytic residue [active] 376686005975 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 376686005976 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 376686005977 substrate binding site; other site 376686005978 dimer interface; other site 376686005979 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 376686005980 classical (c) SDRs; Region: SDR_c; cd05233 376686005981 NAD(P) binding site [chemical binding]; other site 376686005982 active site 376686005983 colanic acid exporter; Provisional; Region: PRK10459 376686005984 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 376686005985 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686005986 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 376686005987 active site 376686005988 WxcM-like, C-terminal; Region: FdtA; pfam05523 376686005989 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686005990 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 376686005991 putative ADP-binding pocket [chemical binding]; other site 376686005992 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 376686005993 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 376686005994 active site 376686005995 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 376686005996 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 376686005997 Walker A/P-loop; other site 376686005998 ATP binding site [chemical binding]; other site 376686005999 Q-loop/lid; other site 376686006000 ABC transporter signature motif; other site 376686006001 Walker B; other site 376686006002 D-loop; other site 376686006003 H-loop/switch region; other site 376686006004 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 376686006005 binding surface 376686006006 TPR motif; other site 376686006007 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 376686006008 TPR motif; other site 376686006009 binding surface 376686006010 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 376686006011 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 376686006012 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 376686006013 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 376686006014 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 376686006015 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686006016 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686006017 Coenzyme A binding pocket [chemical binding]; other site 376686006018 asparagine synthetase B; Provisional; Region: asnB; PRK09431 376686006019 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 376686006020 active site 376686006021 dimer interface [polypeptide binding]; other site 376686006022 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 376686006023 Ligand Binding Site [chemical binding]; other site 376686006024 Molecular Tunnel; other site 376686006025 asparagine synthetase B; Provisional; Region: asnB; PRK09431 376686006026 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 376686006027 active site 376686006028 dimer interface [polypeptide binding]; other site 376686006029 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 376686006030 Ligand Binding Site [chemical binding]; other site 376686006031 Molecular Tunnel; other site 376686006032 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686006033 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 376686006034 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686006035 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686006036 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686006037 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 376686006038 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 376686006039 Mg2+ binding site [ion binding]; other site 376686006040 G-X-G motif; other site 376686006041 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 376686006042 anchoring element; other site 376686006043 dimer interface [polypeptide binding]; other site 376686006044 ATP binding site [chemical binding]; other site 376686006045 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 376686006046 active site 376686006047 putative metal-binding site [ion binding]; other site 376686006048 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 376686006049 malate dehydrogenase; Reviewed; Region: PRK06223 376686006050 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 376686006051 NAD(P) binding site [chemical binding]; other site 376686006052 dimer interface [polypeptide binding]; other site 376686006053 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686006054 substrate binding site [chemical binding]; other site 376686006055 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 376686006056 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 376686006057 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 376686006058 Protein export membrane protein; Region: SecD_SecF; pfam02355 376686006059 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 376686006060 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 376686006061 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 376686006062 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 376686006063 Peptidase family M23; Region: Peptidase_M23; pfam01551 376686006064 peptide chain release factor 2; Provisional; Region: PRK07342 376686006065 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 376686006066 Haemolytic domain; Region: Haemolytic; pfam01809 376686006067 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 376686006068 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 376686006069 active site 376686006070 HIGH motif; other site 376686006071 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 376686006072 KMSKS motif; other site 376686006073 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 376686006074 tRNA binding surface [nucleotide binding]; other site 376686006075 anticodon binding site; other site 376686006076 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 376686006077 four helix bundle protein; Region: TIGR02436 376686006078 GTP cyclohydrolase I; Provisional; Region: PLN03044 376686006079 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 376686006080 active site 376686006081 aspartate aminotransferase; Provisional; Region: PRK07568 376686006082 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 376686006083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686006084 homodimer interface [polypeptide binding]; other site 376686006085 catalytic residue [active] 376686006086 Aspartyl protease; Region: Asp_protease_2; pfam13650 376686006087 inhibitor binding site; inhibition site 376686006088 catalytic motif [active] 376686006089 Catalytic residue [active] 376686006090 Active site flap [active] 376686006091 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 376686006092 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 376686006093 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 376686006094 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 376686006095 TPR motif; other site 376686006096 binding surface 376686006097 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 376686006098 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686006099 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686006100 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686006101 ligand binding site [chemical binding]; other site 376686006102 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 376686006103 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 376686006104 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686006105 active site 376686006106 HIGH motif; other site 376686006107 nucleotide binding site [chemical binding]; other site 376686006108 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 376686006109 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 376686006110 active site 376686006111 KMSKS motif; other site 376686006112 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 376686006113 tRNA binding surface [nucleotide binding]; other site 376686006114 anticodon binding site; other site 376686006115 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 376686006116 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 376686006117 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686006118 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 376686006119 N-terminal plug; other site 376686006120 ligand-binding site [chemical binding]; other site 376686006121 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 376686006122 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686006123 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686006124 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 376686006125 N-terminal plug; other site 376686006126 ligand-binding site [chemical binding]; other site 376686006127 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 376686006128 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686006129 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 376686006130 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 376686006131 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686006132 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 376686006133 N-terminal plug; other site 376686006134 ligand-binding site [chemical binding]; other site 376686006135 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686006136 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686006137 putative substrate translocation pore; other site 376686006138 DNA topoisomerase III; Provisional; Region: PRK07726 376686006139 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 376686006140 active site 376686006141 putative interdomain interaction site [polypeptide binding]; other site 376686006142 putative metal-binding site [ion binding]; other site 376686006143 putative nucleotide binding site [chemical binding]; other site 376686006144 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 376686006145 domain I; other site 376686006146 DNA binding groove [nucleotide binding] 376686006147 phosphate binding site [ion binding]; other site 376686006148 domain II; other site 376686006149 domain III; other site 376686006150 nucleotide binding site [chemical binding]; other site 376686006151 catalytic site [active] 376686006152 domain IV; other site 376686006153 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 376686006154 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 376686006155 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 376686006156 putative hydrophobic ligand binding site [chemical binding]; other site 376686006157 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 376686006158 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 376686006159 sequence-specific DNA binding site [nucleotide binding]; other site 376686006160 salt bridge; other site 376686006161 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 376686006162 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 376686006163 peptide chain release factor 1; Validated; Region: prfA; PRK00591 376686006164 This domain is found in peptide chain release factors; Region: PCRF; smart00937 376686006165 RF-1 domain; Region: RF-1; pfam00472 376686006166 YtxH-like protein; Region: YtxH; pfam12732 376686006167 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 376686006168 CHASE3 domain; Region: CHASE3; pfam05227 376686006169 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 376686006170 PAS fold; Region: PAS_3; pfam08447 376686006171 putative active site [active] 376686006172 heme pocket [chemical binding]; other site 376686006173 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 376686006174 dimer interface [polypeptide binding]; other site 376686006175 phosphorylation site [posttranslational modification] 376686006176 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 376686006177 ATP binding site [chemical binding]; other site 376686006178 Mg2+ binding site [ion binding]; other site 376686006179 G-X-G motif; other site 376686006180 Response regulator receiver domain; Region: Response_reg; pfam00072 376686006181 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686006182 active site 376686006183 phosphorylation site [posttranslational modification] 376686006184 intermolecular recognition site; other site 376686006185 dimerization interface [polypeptide binding]; other site 376686006186 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686006187 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686006188 CsbD-like; Region: CsbD; pfam05532 376686006189 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 376686006190 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 376686006191 dimerization interface [polypeptide binding]; other site 376686006192 DPS ferroxidase diiron center [ion binding]; other site 376686006193 ion pore; other site 376686006194 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686006195 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686006196 ligand binding site [chemical binding]; other site 376686006197 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 376686006198 active site 376686006199 dimer interface [polypeptide binding]; other site 376686006200 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 376686006201 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 376686006202 intersubunit interface [polypeptide binding]; other site 376686006203 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686006204 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 376686006205 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 376686006206 active site 376686006207 catalytic tetrad [active] 376686006208 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 376686006209 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 376686006210 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 376686006211 putative active site [active] 376686006212 putative substrate binding site [chemical binding]; other site 376686006213 putative cosubstrate binding site; other site 376686006214 catalytic site [active] 376686006215 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 376686006216 Cytochrome oxidase complex assembly protein 1; Region: Coa1; pfam08695 376686006217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 376686006218 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 376686006219 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 376686006220 B12 binding site [chemical binding]; other site 376686006221 cobalt ligand [ion binding]; other site 376686006222 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 376686006223 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 376686006224 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 376686006225 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 376686006226 putative active site [active] 376686006227 putative NTP binding site [chemical binding]; other site 376686006228 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 376686006229 putative nucleic acid binding site [nucleotide binding]; other site 376686006230 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 376686006231 non-specific DNA binding site [nucleotide binding]; other site 376686006232 salt bridge; other site 376686006233 sequence-specific DNA binding site [nucleotide binding]; other site 376686006234 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 376686006235 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 376686006236 Cupin domain; Region: Cupin_2; cl17218 376686006237 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686006238 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 376686006239 Putative esterase; Region: Esterase; pfam00756 376686006240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 376686006241 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 376686006242 glutamine synthetase; Region: PLN02284 376686006243 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 376686006244 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 376686006245 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 376686006246 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 376686006247 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 376686006248 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 376686006249 Curli assembly protein CsgE; Region: CsgE; cl08115 376686006250 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; pfam10614 376686006251 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 376686006252 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 376686006253 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686006254 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 376686006255 Interdomain contacts; other site 376686006256 Cytokine receptor motif; other site 376686006257 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 376686006258 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 376686006259 dimerization interface [polypeptide binding]; other site 376686006260 ATP binding site [chemical binding]; other site 376686006261 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 376686006262 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 376686006263 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686006264 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 376686006265 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 376686006266 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 376686006267 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 376686006268 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 376686006269 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 376686006270 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 376686006271 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 376686006272 amphipathic channel; other site 376686006273 Asn-Pro-Ala signature motifs; other site 376686006274 Predicted membrane protein [Function unknown]; Region: COG4270 376686006275 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 376686006276 EamA-like transporter family; Region: EamA; cl17759 376686006277 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 376686006278 active site 376686006279 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 376686006280 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 376686006281 active site 376686006282 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 376686006283 peptidyl-prolyl isomerase, gliding motility-associated; Region: ppisom_GldI; TIGR03516 376686006284 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 376686006285 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 376686006286 DHH family; Region: DHH; pfam01368 376686006287 DHHA1 domain; Region: DHHA1; pfam02272 376686006288 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 376686006289 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 376686006290 putative Cl- selectivity filter; other site 376686006291 putative pore gating glutamate residue; other site 376686006292 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 376686006293 homotrimer interaction site [polypeptide binding]; other site 376686006294 putative active site [active] 376686006295 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 376686006296 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 376686006297 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 376686006298 HSP70 interaction site [polypeptide binding]; other site 376686006299 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 376686006300 dimer interface [polypeptide binding]; other site 376686006301 GMP synthase; Reviewed; Region: guaA; PRK00074 376686006302 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 376686006303 AMP/PPi binding site [chemical binding]; other site 376686006304 candidate oxyanion hole; other site 376686006305 catalytic triad [active] 376686006306 potential glutamine specificity residues [chemical binding]; other site 376686006307 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 376686006308 ATP Binding subdomain [chemical binding]; other site 376686006309 Ligand Binding sites [chemical binding]; other site 376686006310 Dimerization subdomain; other site 376686006311 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686006312 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 376686006313 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686006314 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686006315 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686006316 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686006317 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686006318 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686006319 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686006320 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 376686006321 ligand binding site [chemical binding]; other site 376686006322 OsmC-like protein; Region: OsmC; pfam02566 376686006323 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 376686006324 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 376686006325 active site 376686006326 trimer interface [polypeptide binding]; other site 376686006327 allosteric site; other site 376686006328 active site lid [active] 376686006329 hexamer (dimer of trimers) interface [polypeptide binding]; other site 376686006330 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 376686006331 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 376686006332 CTP synthetase; Validated; Region: pyrG; PRK05380 376686006333 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 376686006334 Catalytic site [active] 376686006335 active site 376686006336 UTP binding site [chemical binding]; other site 376686006337 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 376686006338 active site 376686006339 putative oxyanion hole; other site 376686006340 catalytic triad [active] 376686006341 membrane protein insertase; Provisional; Region: PRK01318 376686006342 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 376686006343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 376686006344 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 376686006345 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 376686006346 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 376686006347 Peptidase S8 family domain, uncharacterized subfamily 9; Region: Peptidases_S8_9; cd07493 376686006348 active site 376686006349 catalytic triad [active] 376686006350 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686006351 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 376686006352 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 376686006353 FMN binding site [chemical binding]; other site 376686006354 substrate binding site [chemical binding]; other site 376686006355 putative catalytic residue [active] 376686006356 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 376686006357 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 376686006358 putative active site [active] 376686006359 putative CoA binding site [chemical binding]; other site 376686006360 nudix motif; other site 376686006361 metal binding site [ion binding]; metal-binding site 376686006362 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 376686006363 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 376686006364 putative acyl-acceptor binding pocket; other site 376686006365 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686006366 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686006367 DNA binding residues [nucleotide binding] 376686006368 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 376686006369 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 376686006370 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 376686006371 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 376686006372 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 376686006373 metal binding site [ion binding]; metal-binding site 376686006374 dimer interface [polypeptide binding]; other site 376686006375 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686006376 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 376686006377 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 376686006378 ATP binding site [chemical binding]; other site 376686006379 Mg++ binding site [ion binding]; other site 376686006380 motif III; other site 376686006381 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 376686006382 nucleotide binding region [chemical binding]; other site 376686006383 ATP-binding site [chemical binding]; other site 376686006384 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 376686006385 RNA binding site [nucleotide binding]; other site 376686006386 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 376686006387 active site 376686006388 dimerization interface [polypeptide binding]; other site 376686006389 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 376686006390 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 376686006391 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686006392 Walker A/P-loop; other site 376686006393 ATP binding site [chemical binding]; other site 376686006394 Q-loop/lid; other site 376686006395 ABC transporter signature motif; other site 376686006396 Walker B; other site 376686006397 D-loop; other site 376686006398 H-loop/switch region; other site 376686006399 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 376686006400 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 376686006401 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 376686006402 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 376686006403 active site 376686006404 FMN binding site [chemical binding]; other site 376686006405 substrate binding site [chemical binding]; other site 376686006406 3Fe-4S cluster binding site [ion binding]; other site 376686006407 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 376686006408 putative metal binding site [ion binding]; other site 376686006409 Uncharacterized conserved protein [Function unknown]; Region: COG1432 376686006410 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 376686006411 Rrf2 family protein; Region: rrf2_super; TIGR00738 376686006412 Transcriptional regulator; Region: Rrf2; pfam02082 376686006413 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 376686006414 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 376686006415 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 376686006416 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 376686006417 Hemerythrin-like domain; Region: Hr-like; cd12108 376686006418 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 376686006419 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 376686006420 Cu(I) binding site [ion binding]; other site 376686006421 Uncharacterized conserved protein [Function unknown]; Region: COG1262 376686006422 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 376686006423 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 376686006424 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 376686006425 Multicopper oxidase; Region: Cu-oxidase; pfam00394 376686006426 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 376686006427 Cytochrome c; Region: Cytochrom_C; pfam00034 376686006428 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 376686006429 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 376686006430 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686006431 catalytic residue [active] 376686006432 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 376686006433 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 376686006434 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 376686006435 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 376686006436 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686006437 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 376686006438 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 376686006439 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 376686006440 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686006441 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 376686006442 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 376686006443 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 376686006444 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 376686006445 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 376686006446 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 376686006447 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 376686006448 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686006449 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686006450 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686006451 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 376686006452 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686006453 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686006454 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 376686006455 active site 376686006456 catalytic residues [active] 376686006457 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 376686006458 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 376686006459 active site 376686006460 catalytic residues [active] 376686006461 RNA polymerase sigma factor; Provisional; Region: PRK12513 376686006462 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686006463 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 376686006464 DNA binding residues [nucleotide binding] 376686006465 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 376686006466 binding surface 376686006467 TPR motif; other site 376686006468 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 376686006469 endonuclease III; Region: ENDO3c; smart00478 376686006470 minor groove reading motif; other site 376686006471 helix-hairpin-helix signature motif; other site 376686006472 substrate binding pocket [chemical binding]; other site 376686006473 active site 376686006474 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 376686006475 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 376686006476 catalytic triad [active] 376686006477 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686006478 putative hydrolase; Provisional; Region: PRK02113 376686006479 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 376686006480 putative hydrolase; Provisional; Region: PRK11460 376686006481 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 376686006482 dihydroorotase; Validated; Region: pyrC; PRK09357 376686006483 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 376686006484 active site 376686006485 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 376686006486 von Willebrand factor type A domain; Region: VWA_2; pfam13519 376686006487 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 376686006488 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 376686006489 DEAD-like helicases superfamily; Region: DEXDc; smart00487 376686006490 ATP binding site [chemical binding]; other site 376686006491 putative Mg++ binding site [ion binding]; other site 376686006492 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 376686006493 nucleotide binding region [chemical binding]; other site 376686006494 ATP-binding site [chemical binding]; other site 376686006495 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 376686006496 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686006497 AAA domain; Region: AAA_21; pfam13304 376686006498 Walker A/P-loop; other site 376686006499 ATP binding site [chemical binding]; other site 376686006500 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 376686006501 Q-loop/lid; other site 376686006502 ABC transporter signature motif; other site 376686006503 Walker B; other site 376686006504 D-loop; other site 376686006505 H-loop/switch region; other site 376686006506 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686006507 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 376686006508 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 376686006509 putative ligand binding site [chemical binding]; other site 376686006510 NAD binding site [chemical binding]; other site 376686006511 dimerization interface [polypeptide binding]; other site 376686006512 catalytic site [active] 376686006513 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 376686006514 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686006515 catalytic residue [active] 376686006516 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 376686006517 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 376686006518 4Fe-4S binding domain; Region: Fer4; pfam00037 376686006519 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686006520 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686006521 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686006522 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 376686006523 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 376686006524 GTP-binding protein YchF; Reviewed; Region: PRK09601 376686006525 YchF GTPase; Region: YchF; cd01900 376686006526 G1 box; other site 376686006527 GTP/Mg2+ binding site [chemical binding]; other site 376686006528 Switch I region; other site 376686006529 G2 box; other site 376686006530 Switch II region; other site 376686006531 G3 box; other site 376686006532 G4 box; other site 376686006533 G5 box; other site 376686006534 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 376686006535 Protein of unknown function (DUF2459); Region: DUF2459; pfam09601 376686006536 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 376686006537 Predicted flavoprotein [General function prediction only]; Region: COG0431 376686006538 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 376686006539 Transglutaminase/protease-like homologues; Region: TGc; smart00460 376686006540 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 376686006541 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 376686006542 active site 376686006543 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 376686006544 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 376686006545 ATP binding site [chemical binding]; other site 376686006546 Mg2+ binding site [ion binding]; other site 376686006547 G-X-G motif; other site 376686006548 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 376686006549 anchoring element; other site 376686006550 dimer interface [polypeptide binding]; other site 376686006551 ATP binding site [chemical binding]; other site 376686006552 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 376686006553 active site 376686006554 putative metal-binding site [ion binding]; other site 376686006555 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 376686006556 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 376686006557 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; cl00148 376686006558 CAP-like domain; other site 376686006559 active site 376686006560 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 376686006561 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 376686006562 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 376686006563 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686006564 active site 376686006565 catalytic site [active] 376686006566 substrate binding site [chemical binding]; other site 376686006567 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 376686006568 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 376686006569 ligand binding site [chemical binding]; other site 376686006570 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 376686006571 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 376686006572 metal binding triad; other site 376686006573 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 376686006574 DinB superfamily; Region: DinB_2; pfam12867 376686006575 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686006576 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686006577 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 376686006578 putative catalytic residues [active] 376686006579 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 376686006580 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 376686006581 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 376686006582 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 376686006583 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 376686006584 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 376686006585 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 376686006586 putative active site [active] 376686006587 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686006588 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686006589 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686006590 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 376686006591 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 376686006592 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 376686006593 S-adenosylmethionine binding site [chemical binding]; other site 376686006594 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 376686006595 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 376686006596 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 376686006597 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 376686006598 aspartate racemase; Region: asp_race; TIGR00035 376686006599 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 376686006600 TRAM domain; Region: TRAM; cl01282 376686006601 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 376686006602 S-adenosylmethionine binding site [chemical binding]; other site 376686006603 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686006604 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 376686006605 ATP binding site [chemical binding]; other site 376686006606 Mg2+ binding site [ion binding]; other site 376686006607 G-X-G motif; other site 376686006608 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 376686006609 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 376686006610 active site 376686006611 catalytic tetrad [active] 376686006612 cysteine synthase B; Region: cysM; TIGR01138 376686006613 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 376686006614 dimer interface [polypeptide binding]; other site 376686006615 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686006616 catalytic residue [active] 376686006617 serine O-acetyltransferase; Region: cysE; TIGR01172 376686006618 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 376686006619 trimer interface [polypeptide binding]; other site 376686006620 active site 376686006621 substrate binding site [chemical binding]; other site 376686006622 CoA binding site [chemical binding]; other site 376686006623 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 376686006624 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 376686006625 Smr domain; Region: Smr; cl02619 376686006626 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 376686006627 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 376686006628 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686006629 catalytic residue [active] 376686006630 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 376686006631 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686006632 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 376686006633 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686006634 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 376686006635 metal-binding site 376686006636 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686006637 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 376686006638 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 376686006639 putative metal binding site; other site 376686006640 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 376686006641 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 376686006642 putative active site [active] 376686006643 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686006644 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 376686006645 putative metal binding site; other site 376686006646 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 376686006647 putative active site [active] 376686006648 putative metal binding site [ion binding]; other site 376686006649 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686006650 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 376686006651 putative metal binding site; other site 376686006652 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 376686006653 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 376686006654 trimer interface [polypeptide binding]; other site 376686006655 active site 376686006656 substrate binding site [chemical binding]; other site 376686006657 CoA binding site [chemical binding]; other site 376686006658 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 376686006659 PAS fold; Region: PAS_3; pfam08447 376686006660 putative active site [active] 376686006661 heme pocket [chemical binding]; other site 376686006662 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 376686006663 malate:quinone oxidoreductase; Validated; Region: PRK05257 376686006664 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 376686006665 Isochorismatase family; Region: Isochorismatase; pfam00857 376686006666 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 376686006667 catalytic triad [active] 376686006668 conserved cis-peptide bond; other site 376686006669 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 376686006670 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 376686006671 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 376686006672 active site 376686006673 catalytic residues [active] 376686006674 metal binding site [ion binding]; metal-binding site 376686006675 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 376686006676 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 376686006677 homodimer interface [polypeptide binding]; other site 376686006678 metal binding site [ion binding]; metal-binding site 376686006679 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 376686006680 homodimer interface [polypeptide binding]; other site 376686006681 active site 376686006682 putative chemical substrate binding site [chemical binding]; other site 376686006683 metal binding site [ion binding]; metal-binding site 376686006684 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686006685 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 376686006686 ligand binding site [chemical binding]; other site 376686006687 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 376686006688 putative switch regulator; other site 376686006689 non-specific DNA interactions [nucleotide binding]; other site 376686006690 DNA binding site [nucleotide binding] 376686006691 sequence specific DNA binding site [nucleotide binding]; other site 376686006692 putative cAMP binding site [chemical binding]; other site 376686006693 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 376686006694 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 376686006695 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 376686006696 metal-binding site [ion binding] 376686006697 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686006698 Soluble P-type ATPase [General function prediction only]; Region: COG4087 376686006699 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 376686006700 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 376686006701 Low-spin heme binding site [chemical binding]; other site 376686006702 Putative water exit pathway; other site 376686006703 Binuclear center (active site) [active] 376686006704 Putative proton exit pathway; other site 376686006705 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 376686006706 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 376686006707 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 376686006708 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 376686006709 4Fe-4S binding domain; Region: Fer4_5; pfam12801 376686006710 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 376686006711 FixH; Region: FixH; pfam05751 376686006712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 376686006713 Family description; Region: DsbD_2; pfam13386 376686006714 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 376686006715 HemN C-terminal domain; Region: HemN_C; pfam06969 376686006716 DoxX; Region: DoxX; pfam07681 376686006717 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 376686006718 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686006719 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686006720 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 376686006721 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 376686006722 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 376686006723 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 376686006724 trimer interface [polypeptide binding]; other site 376686006725 active site 376686006726 UDP-GlcNAc binding site [chemical binding]; other site 376686006727 lipid binding site [chemical binding]; lipid-binding site 376686006728 methionine sulfoxide reductase B; Provisional; Region: PRK00222 376686006729 SelR domain; Region: SelR; pfam01641 376686006730 PCRF domain; Region: PCRF; pfam03462 376686006731 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 376686006732 RF-1 domain; Region: RF-1; pfam00472 376686006733 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 376686006734 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 376686006735 tetramer interface [polypeptide binding]; other site 376686006736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686006737 catalytic residue [active] 376686006738 hypothetical protein; Provisional; Region: PRK14623 376686006739 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 376686006740 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686006741 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 376686006742 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 376686006743 dimer interface [polypeptide binding]; other site 376686006744 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686006745 catalytic residue [active] 376686006746 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 376686006747 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 376686006748 hypothetical protein; Provisional; Region: PRK12378 376686006749 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 376686006750 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 376686006751 protein binding site [polypeptide binding]; other site 376686006752 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 376686006753 Catalytic dyad [active] 376686006754 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 376686006755 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 376686006756 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 376686006757 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 376686006758 putative substrate binding site [chemical binding]; other site 376686006759 putative ATP binding site [chemical binding]; other site 376686006760 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 376686006761 Pectate lyase; Region: Pec_lyase_C; cl01593 376686006762 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686006763 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 376686006764 ligand binding site [chemical binding]; other site 376686006765 flexible hinge region; other site 376686006766 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686006767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686006768 Coenzyme A binding pocket [chemical binding]; other site 376686006769 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686006770 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 376686006771 non-specific DNA binding site [nucleotide binding]; other site 376686006772 salt bridge; other site 376686006773 sequence-specific DNA binding site [nucleotide binding]; other site 376686006774 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 376686006775 ATP binding site [chemical binding]; other site 376686006776 Mg2+ binding site [ion binding]; other site 376686006777 G-X-G motif; other site 376686006778 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 376686006779 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 376686006780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686006781 catalytic residue [active] 376686006782 homoserine kinase; Provisional; Region: PRK01212 376686006783 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 376686006784 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 376686006785 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 376686006786 putative catalytic residues [active] 376686006787 nucleotide binding site [chemical binding]; other site 376686006788 aspartate binding site [chemical binding]; other site 376686006789 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 376686006790 dimer interface [polypeptide binding]; other site 376686006791 putative threonine allosteric regulatory site; other site 376686006792 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 376686006793 putative threonine allosteric regulatory site; other site 376686006794 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 376686006795 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 376686006796 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 376686006797 active sites [active] 376686006798 tetramer interface [polypeptide binding]; other site 376686006799 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 376686006800 Phosphate transporter family; Region: PHO4; pfam01384 376686006801 Phosphate transporter family; Region: PHO4; pfam01384 376686006802 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 376686006803 Predicted membrane protein [Function unknown]; Region: COG2323 376686006804 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 376686006805 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 376686006806 ATP-grasp domain; Region: ATP-grasp_4; cl17255 376686006807 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 376686006808 Clp amino terminal domain; Region: Clp_N; pfam02861 376686006809 Clp amino terminal domain; Region: Clp_N; pfam02861 376686006810 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 376686006811 Walker A motif; other site 376686006812 ATP binding site [chemical binding]; other site 376686006813 Walker B motif; other site 376686006814 arginine finger; other site 376686006815 UvrB/uvrC motif; Region: UVR; pfam02151 376686006816 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 376686006817 Walker A motif; other site 376686006818 ATP binding site [chemical binding]; other site 376686006819 Walker B motif; other site 376686006820 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 376686006821 DNA gyrase subunit A; Validated; Region: PRK05560 376686006822 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 376686006823 CAP-like domain; other site 376686006824 active site 376686006825 primary dimer interface [polypeptide binding]; other site 376686006826 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006827 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006828 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006829 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006830 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006831 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006832 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 376686006833 binding surface 376686006834 TPR motif; other site 376686006835 TPR repeat; Region: TPR_11; pfam13414 376686006836 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 376686006837 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 376686006838 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 376686006839 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 376686006840 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 376686006841 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 376686006842 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 376686006843 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 376686006844 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 376686006845 shikimate binding site; other site 376686006846 NAD(P) binding site [chemical binding]; other site 376686006847 TPR repeat; Region: TPR_11; pfam13414 376686006848 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 376686006849 binding surface 376686006850 TPR motif; other site 376686006851 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 376686006852 binding surface 376686006853 TPR repeat; Region: TPR_11; pfam13414 376686006854 TPR motif; other site 376686006855 TPR repeat; Region: TPR_11; pfam13414 376686006856 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 376686006857 binding surface 376686006858 TPR motif; other site 376686006859 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 376686006860 binding surface 376686006861 TPR motif; other site 376686006862 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 376686006863 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 376686006864 inhibitor-cofactor binding pocket; inhibition site 376686006865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686006866 catalytic residue [active] 376686006867 OstA-like protein; Region: OstA_2; pfam13100 376686006868 OstA-like protein; Region: OstA; cl00844 376686006869 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 376686006870 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 376686006871 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 376686006872 active site 376686006873 catalytic site [active] 376686006874 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 376686006875 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 376686006876 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 376686006877 Acyl CoA binding protein; Region: ACBP; pfam00887 376686006878 acyl-CoA binding pocket [chemical binding]; other site 376686006879 CoA binding site [chemical binding]; other site 376686006880 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 376686006881 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 376686006882 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 376686006883 FtsH Extracellular; Region: FtsH_ext; pfam06480 376686006884 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 376686006885 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 376686006886 Walker A motif; other site 376686006887 ATP binding site [chemical binding]; other site 376686006888 Walker B motif; other site 376686006889 arginine finger; other site 376686006890 Peptidase family M41; Region: Peptidase_M41; pfam01434 376686006891 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 376686006892 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 376686006893 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 376686006894 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686006895 active site 376686006896 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 376686006897 active site 376686006898 Ap6A binding site [chemical binding]; other site 376686006899 nudix motif; other site 376686006900 metal binding site [ion binding]; metal-binding site 376686006901 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 376686006902 non-specific DNA binding site [nucleotide binding]; other site 376686006903 salt bridge; other site 376686006904 sequence-specific DNA binding site [nucleotide binding]; other site 376686006905 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 376686006906 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 376686006907 catalytic residue [active] 376686006908 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 376686006909 putative active site [active] 376686006910 Zn binding site [ion binding]; other site 376686006911 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 376686006912 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 376686006913 ATP binding site [chemical binding]; other site 376686006914 putative Mg++ binding site [ion binding]; other site 376686006915 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 376686006916 nucleotide binding region [chemical binding]; other site 376686006917 ATP-binding site [chemical binding]; other site 376686006918 DbpA RNA binding domain; Region: DbpA; pfam03880 376686006919 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 376686006920 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 376686006921 PhnA protein; Region: PhnA; pfam03831 376686006922 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 376686006923 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 376686006924 active site 376686006925 (T/H)XGH motif; other site 376686006926 Predicted membrane protein [Function unknown]; Region: COG2323 376686006927 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 376686006928 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 376686006929 ATP-grasp domain; Region: ATP-grasp_4; cl17255 376686006930 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 376686006931 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 376686006932 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 376686006933 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 376686006934 RNA binding surface [nucleotide binding]; other site 376686006935 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 376686006936 active site 376686006937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686006938 ABC transporter signature motif; other site 376686006939 Walker B; other site 376686006940 D-loop; other site 376686006941 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686006942 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 376686006943 Walker A/P-loop; other site 376686006944 ATP binding site [chemical binding]; other site 376686006945 Q-loop/lid; other site 376686006946 ABC transporter signature motif; other site 376686006947 Walker B; other site 376686006948 D-loop; other site 376686006949 H-loop/switch region; other site 376686006950 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 376686006951 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 376686006952 active site residue [active] 376686006953 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 376686006954 active site residue [active] 376686006955 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 376686006956 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 376686006957 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 376686006958 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686006959 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 376686006960 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 376686006961 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686006962 Pectate lyase; Region: Pec_lyase_C; cl01593 376686006963 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 376686006964 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 376686006965 Interdomain contacts; other site 376686006966 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 376686006967 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686006968 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 376686006969 active site 376686006970 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 376686006971 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 376686006972 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 376686006973 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 376686006974 nucleotide binding site [chemical binding]; other site 376686006975 NEF interaction site [polypeptide binding]; other site 376686006976 SBD interface [polypeptide binding]; other site 376686006977 Helix-turn-helix domain; Region: HTH_17; pfam12728 376686006978 Helix-turn-helix domain; Region: HTH_17; pfam12728 376686006979 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 376686006980 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 376686006981 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 376686006982 Int/Topo IB signature motif; other site 376686006983 Helix-turn-helix domain; Region: HTH_17; pfam12728 376686006984 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 376686006985 Transposase; Region: HTH_Tnp_1; pfam01527 376686006986 putative transposase OrfB; Reviewed; Region: PHA02517 376686006987 HTH-like domain; Region: HTH_21; pfam13276 376686006988 Integrase core domain; Region: rve; pfam00665 376686006989 Integrase core domain; Region: rve_3; pfam13683 376686006990 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 376686006991 HTH-like domain; Region: HTH_21; pfam13276 376686006992 Integrase core domain; Region: rve; pfam00665 376686006993 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 376686006994 DNA-binding site [nucleotide binding]; DNA binding site 376686006995 RNA-binding motif; other site 376686006996 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 376686006997 active site 376686006998 catalytic triad [active] 376686006999 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 376686007000 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686007001 Walker A motif; other site 376686007002 ATP binding site [chemical binding]; other site 376686007003 Walker B motif; other site 376686007004 arginine finger; other site 376686007005 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 376686007006 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 376686007007 oxidoreductase; Provisional; Region: PRK06128 376686007008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007009 NAD(P) binding site [chemical binding]; other site 376686007010 active site 376686007011 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 376686007012 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 376686007013 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 376686007014 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 376686007015 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 376686007016 [2Fe-2S] cluster binding site [ion binding]; other site 376686007017 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 376686007018 dimerization interface [polypeptide binding]; other site 376686007019 metal binding site [ion binding]; metal-binding site 376686007020 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 376686007021 Y-family of DNA polymerases; Region: PolY; cl12025 376686007022 active site 376686007023 Response regulator receiver domain; Region: Response_reg; pfam00072 376686007024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686007025 active site 376686007026 phosphorylation site [posttranslational modification] 376686007027 intermolecular recognition site; other site 376686007028 dimerization interface [polypeptide binding]; other site 376686007029 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 376686007030 classical (c) SDRs; Region: SDR_c; cd05233 376686007031 NAD(P) binding site [chemical binding]; other site 376686007032 active site 376686007033 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 376686007034 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 376686007035 NAD binding site [chemical binding]; other site 376686007036 catalytic Zn binding site [ion binding]; other site 376686007037 structural Zn binding site [ion binding]; other site 376686007038 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 376686007039 dimerization interface [polypeptide binding]; other site 376686007040 metal binding site [ion binding]; metal-binding site 376686007041 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 376686007042 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 376686007043 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 376686007044 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 376686007045 putative heme binding pocket [chemical binding]; other site 376686007046 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 376686007047 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686007048 RHS Repeat; Region: RHS_repeat; pfam05593 376686007049 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686007050 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 376686007051 active site 376686007052 DNA binding site [nucleotide binding] 376686007053 Int/Topo IB signature motif; other site 376686007054 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 376686007055 G1 box; other site 376686007056 GTP/Mg2+ binding site [chemical binding]; other site 376686007057 G2 box; other site 376686007058 G3 box; other site 376686007059 Switch II region; other site 376686007060 G4 box; other site 376686007061 G5 box; other site 376686007062 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686007063 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 376686007064 active site 376686007065 DNA binding site [nucleotide binding] 376686007066 Int/Topo IB signature motif; other site 376686007067 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 376686007068 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 376686007069 active site 376686007070 DNA binding site [nucleotide binding] 376686007071 Int/Topo IB signature motif; other site 376686007072 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 376686007073 non-specific DNA binding site [nucleotide binding]; other site 376686007074 salt bridge; other site 376686007075 sequence-specific DNA binding site [nucleotide binding]; other site 376686007076 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 376686007077 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 376686007078 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 376686007079 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 376686007080 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686007081 Phage Tail Collar Domain; Region: Collar; pfam07484 376686007082 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686007083 Phage Tail Collar Domain; Region: Collar; pfam07484 376686007084 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686007085 Phage Tail Collar Domain; Region: Collar; pfam07484 376686007086 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686007087 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686007088 Coenzyme A binding pocket [chemical binding]; other site 376686007089 Domain of unknown function DUF11; Region: DUF11; cl17728 376686007090 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686007091 Bacterial SH3 domain; Region: SH3_3; pfam08239 376686007092 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 376686007093 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 376686007094 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 376686007095 active site 376686007096 motif I; other site 376686007097 motif II; other site 376686007098 Uncharacterized conserved protein [Function unknown]; Region: COG1479 376686007099 Protein of unknown function DUF262; Region: DUF262; pfam03235 376686007100 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 376686007101 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 376686007102 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 376686007103 ATP binding site [chemical binding]; other site 376686007104 putative Mg++ binding site [ion binding]; other site 376686007105 TIGR02646 family protein; Region: TIGR02646 376686007106 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686007107 AAA domain; Region: AAA_21; pfam13304 376686007108 Walker A/P-loop; other site 376686007109 ATP binding site [chemical binding]; other site 376686007110 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 376686007111 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 376686007112 Helix-turn-helix domain; Region: HTH_17; pfam12728 376686007113 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 376686007114 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 376686007115 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 376686007116 active site 376686007117 DNA binding site [nucleotide binding] 376686007118 Int/Topo IB signature motif; other site 376686007119 Helix-turn-helix domain; Region: HTH_17; cl17695 376686007120 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 376686007121 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 376686007122 trmE is a tRNA modification GTPase; Region: trmE; cd04164 376686007123 G1 box; other site 376686007124 GTP/Mg2+ binding site [chemical binding]; other site 376686007125 Switch I region; other site 376686007126 G2 box; other site 376686007127 Switch II region; other site 376686007128 G3 box; other site 376686007129 G4 box; other site 376686007130 G5 box; other site 376686007131 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 376686007132 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 376686007133 Ligand Binding Site [chemical binding]; other site 376686007134 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 376686007135 Ligand Binding Site [chemical binding]; other site 376686007136 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 376686007137 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686007138 Walker A/P-loop; other site 376686007139 ATP binding site [chemical binding]; other site 376686007140 Q-loop/lid; other site 376686007141 ABC transporter signature motif; other site 376686007142 Walker B; other site 376686007143 D-loop; other site 376686007144 H-loop/switch region; other site 376686007145 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686007146 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686007147 DNA binding site [nucleotide binding] 376686007148 domain linker motif; other site 376686007149 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686007150 ligand binding site [chemical binding]; other site 376686007151 dimerization interface [polypeptide binding]; other site 376686007152 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686007153 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686007154 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686007155 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 376686007156 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 376686007157 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686007158 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686007159 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686007160 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686007161 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 376686007162 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686007163 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 376686007164 Uncharacterized conserved protein [Function unknown]; Region: COG3538 376686007165 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 376686007166 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 376686007167 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 376686007168 nucleotide binding site [chemical binding]; other site 376686007169 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 376686007170 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 376686007171 catalytic residues [active] 376686007172 DNA polymerase III subunit beta; Validated; Region: PRK05643 376686007173 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 376686007174 putative DNA binding surface [nucleotide binding]; other site 376686007175 dimer interface [polypeptide binding]; other site 376686007176 beta-clamp/clamp loader binding surface; other site 376686007177 beta-clamp/translesion DNA polymerase binding surface; other site 376686007178 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 376686007179 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 376686007180 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 376686007181 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 376686007182 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 376686007183 PhoH-like protein; Region: PhoH; pfam02562 376686007184 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 376686007185 putative hydrolase; Provisional; Region: PRK10976 376686007186 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 376686007187 active site 376686007188 motif I; other site 376686007189 motif II; other site 376686007190 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 376686007191 ATP binding site [chemical binding]; other site 376686007192 active site 376686007193 substrate binding site [chemical binding]; other site 376686007194 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 376686007195 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 376686007196 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 376686007197 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 376686007198 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 376686007199 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686007200 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 376686007201 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686007202 Outer membrane efflux protein; Region: OEP; pfam02321 376686007203 Outer membrane efflux protein; Region: OEP; pfam02321 376686007204 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 376686007205 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 376686007206 dimerization interface [polypeptide binding]; other site 376686007207 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 376686007208 dimer interface [polypeptide binding]; other site 376686007209 phosphorylation site [posttranslational modification] 376686007210 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 376686007211 ATP binding site [chemical binding]; other site 376686007212 Mg2+ binding site [ion binding]; other site 376686007213 G-X-G motif; other site 376686007214 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686007215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686007216 active site 376686007217 phosphorylation site [posttranslational modification] 376686007218 intermolecular recognition site; other site 376686007219 dimerization interface [polypeptide binding]; other site 376686007220 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 376686007221 DNA binding site [nucleotide binding] 376686007222 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 376686007223 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 376686007224 oligomer interface [polypeptide binding]; other site 376686007225 active site 376686007226 metal binding site [ion binding]; metal-binding site 376686007227 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 376686007228 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 376686007229 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 376686007230 endonuclease III; Region: ENDO3c; smart00478 376686007231 minor groove reading motif; other site 376686007232 helix-hairpin-helix signature motif; other site 376686007233 substrate binding pocket [chemical binding]; other site 376686007234 active site 376686007235 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 376686007236 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686007237 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 376686007238 glycogen synthase; Provisional; Region: glgA; PRK00654 376686007239 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 376686007240 ADP-binding pocket [chemical binding]; other site 376686007241 homodimer interface [polypeptide binding]; other site 376686007242 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 376686007243 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 376686007244 ligand binding site; other site 376686007245 oligomer interface; other site 376686007246 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 376686007247 dimer interface [polypeptide binding]; other site 376686007248 N-terminal domain interface [polypeptide binding]; other site 376686007249 sulfate 1 binding site; other site 376686007250 glycogen branching enzyme; Provisional; Region: PRK12313 376686007251 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 376686007252 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 376686007253 active site 376686007254 catalytic site [active] 376686007255 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 376686007256 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 376686007257 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 376686007258 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 376686007259 trimer interface [polypeptide binding]; other site 376686007260 active site 376686007261 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 376686007262 catalytic site [active] 376686007263 Peptidase family M48; Region: Peptidase_M48; pfam01435 376686007264 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 376686007265 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686007266 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 376686007267 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 376686007268 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 376686007269 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 376686007270 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686007271 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 376686007272 DNA binding residues [nucleotide binding] 376686007273 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 376686007274 Found in ATP-dependent protease La (LON); Region: LON; smart00464 376686007275 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 376686007276 Walker A motif; other site 376686007277 ATP binding site [chemical binding]; other site 376686007278 Walker B motif; other site 376686007279 arginine finger; other site 376686007280 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 376686007281 cytidylate kinase; Provisional; Region: cmk; PRK00023 376686007282 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 376686007283 CMP-binding site; other site 376686007284 The sites determining sugar specificity; other site 376686007285 nucleoside transporter; Region: 2A0110; TIGR00889 376686007286 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686007287 putative substrate translocation pore; other site 376686007288 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 376686007289 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 376686007290 RNA binding site [nucleotide binding]; other site 376686007291 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 376686007292 RNA binding site [nucleotide binding]; other site 376686007293 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 376686007294 RNA binding site [nucleotide binding]; other site 376686007295 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 376686007296 RNA binding site [nucleotide binding]; other site 376686007297 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 376686007298 RNA binding site [nucleotide binding]; other site 376686007299 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 376686007300 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 376686007301 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 376686007302 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 376686007303 Fasciclin domain; Region: Fasciclin; pfam02469 376686007304 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 376686007305 EamA-like transporter family; Region: EamA; pfam00892 376686007306 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686007307 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686007308 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 376686007309 TPR repeat; Region: TPR_11; pfam13414 376686007310 binding surface 376686007311 TPR motif; other site 376686007312 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 376686007313 Penicillinase repressor; Region: Pencillinase_R; pfam03965 376686007314 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 376686007315 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 376686007316 Penicillinase repressor; Region: Pencillinase_R; pfam03965 376686007317 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686007318 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686007319 putative substrate translocation pore; other site 376686007320 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 376686007321 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 376686007322 active site 376686007323 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 376686007324 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 376686007325 putative ATP binding site [chemical binding]; other site 376686007326 putative substrate interface [chemical binding]; other site 376686007327 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 376686007328 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 376686007329 motif II; other site 376686007330 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 376686007331 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 376686007332 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686007333 Coenzyme A binding pocket [chemical binding]; other site 376686007334 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 376686007335 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686007336 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 376686007337 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 376686007338 dimer interface [polypeptide binding]; other site 376686007339 tetramer interface [polypeptide binding]; other site 376686007340 PYR/PP interface [polypeptide binding]; other site 376686007341 TPP binding site [chemical binding]; other site 376686007342 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 376686007343 TPP-binding site [chemical binding]; other site 376686007344 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 376686007345 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 376686007346 S1 domain; Region: S1_2; pfam13509 376686007347 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 376686007348 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 376686007349 substrate binding site [chemical binding]; other site 376686007350 oxyanion hole (OAH) forming residues; other site 376686007351 trimer interface [polypeptide binding]; other site 376686007352 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 376686007353 UbiA prenyltransferase family; Region: UbiA; pfam01040 376686007354 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 376686007355 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686007356 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 376686007357 binding surface 376686007358 TPR motif; other site 376686007359 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 376686007360 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 376686007361 active site 376686007362 Uncharacterized conserved protein [Function unknown]; Region: COG3743 376686007363 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 376686007364 ligand binding site [chemical binding]; other site 376686007365 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686007366 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686007367 ligand binding site [chemical binding]; other site 376686007368 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 376686007369 putative active site [active] 376686007370 putative metal binding residues [ion binding]; other site 376686007371 signature motif; other site 376686007372 putative dimer interface [polypeptide binding]; other site 376686007373 putative phosphate binding site [ion binding]; other site 376686007374 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 376686007375 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 376686007376 hypothetical protein; Validated; Region: PRK00029 376686007377 Uncharacterized conserved protein [Function unknown]; Region: COG0397 376686007378 methionine sulfoxide reductase A; Provisional; Region: PRK14054 376686007379 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 376686007380 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 376686007381 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686007382 catalytic residue [active] 376686007383 Amino acid permease; Region: AA_permease_2; pfam13520 376686007384 SnoaL-like domain; Region: SnoaL_2; pfam12680 376686007385 Peptidase family M23; Region: Peptidase_M23; pfam01551 376686007386 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 376686007387 S-adenosylmethionine binding site [chemical binding]; other site 376686007388 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 376686007389 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 376686007390 putative acyl-acceptor binding pocket; other site 376686007391 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 376686007392 non-specific DNA binding site [nucleotide binding]; other site 376686007393 salt bridge; other site 376686007394 sequence-specific DNA binding site [nucleotide binding]; other site 376686007395 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 376686007396 putative active site [active] 376686007397 Zn binding site [ion binding]; other site 376686007398 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 376686007399 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 376686007400 putative DNA binding site [nucleotide binding]; other site 376686007401 putative Zn2+ binding site [ion binding]; other site 376686007402 AsnC family; Region: AsnC_trans_reg; pfam01037 376686007403 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 376686007404 DinB superfamily; Region: DinB_2; pfam12867 376686007405 metal-dependent hydrolase; Provisional; Region: PRK13291 376686007406 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 376686007407 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 376686007408 ATP binding site [chemical binding]; other site 376686007409 putative Mg++ binding site [ion binding]; other site 376686007410 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 376686007411 nucleotide binding region [chemical binding]; other site 376686007412 ATP-binding site [chemical binding]; other site 376686007413 RQC domain; Region: RQC; pfam09382 376686007414 HRDC domain; Region: HRDC; pfam00570 376686007415 deoxyhypusine synthase; Region: dhys; TIGR00321 376686007416 Deoxyhypusine synthase; Region: DS; cl00826 376686007417 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 376686007418 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 376686007419 dimer interface [polypeptide binding]; other site 376686007420 active site 376686007421 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686007422 catalytic residues [active] 376686007423 substrate binding site [chemical binding]; other site 376686007424 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 376686007425 active site 376686007426 dimer interface [polypeptide binding]; other site 376686007427 metal binding site [ion binding]; metal-binding site 376686007428 O-Antigen ligase; Region: Wzy_C; pfam04932 376686007429 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 376686007430 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 376686007431 TPR motif; other site 376686007432 binding surface 376686007433 Proline dehydrogenase; Region: Pro_dh; cl03282 376686007434 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 376686007435 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 376686007436 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 376686007437 Walker A/P-loop; other site 376686007438 ATP binding site [chemical binding]; other site 376686007439 Q-loop/lid; other site 376686007440 ABC transporter signature motif; other site 376686007441 Walker B; other site 376686007442 D-loop; other site 376686007443 H-loop/switch region; other site 376686007444 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 376686007445 non-specific DNA binding site [nucleotide binding]; other site 376686007446 salt bridge; other site 376686007447 sequence-specific DNA binding site [nucleotide binding]; other site 376686007448 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686007449 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 376686007450 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 376686007451 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 376686007452 non-specific DNA binding site [nucleotide binding]; other site 376686007453 salt bridge; other site 376686007454 sequence-specific DNA binding site [nucleotide binding]; other site 376686007455 Tic20-like protein; Region: Tic20; pfam09685 376686007456 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686007457 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 376686007458 active site 376686007459 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 376686007460 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 376686007461 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686007462 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686007463 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686007464 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 376686007465 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 376686007466 DoxX-like family; Region: DoxX_2; pfam13564 376686007467 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 376686007468 hydrophobic ligand binding site; other site 376686007469 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 376686007470 dimerization interface [polypeptide binding]; other site 376686007471 putative DNA binding site [nucleotide binding]; other site 376686007472 putative Zn2+ binding site [ion binding]; other site 376686007473 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 376686007474 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 376686007475 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 376686007476 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 376686007477 NMT1/THI5 like; Region: NMT1; pfam09084 376686007478 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 376686007479 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 376686007480 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686007481 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 376686007482 active site 376686007483 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 376686007484 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 376686007485 putative rRNA binding site [nucleotide binding]; other site 376686007486 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 376686007487 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 376686007488 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 376686007489 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 376686007490 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 376686007491 tetramer interface [polypeptide binding]; other site 376686007492 TPP-binding site [chemical binding]; other site 376686007493 heterodimer interface [polypeptide binding]; other site 376686007494 phosphorylation loop region [posttranslational modification] 376686007495 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 376686007496 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 376686007497 alpha subunit interface [polypeptide binding]; other site 376686007498 TPP binding site [chemical binding]; other site 376686007499 heterodimer interface [polypeptide binding]; other site 376686007500 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 376686007501 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 376686007502 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 376686007503 NAD(P) binding site [chemical binding]; other site 376686007504 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686007505 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 376686007506 ligand binding site [chemical binding]; other site 376686007507 flexible hinge region; other site 376686007508 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 376686007509 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686007510 integral membrane protein; Region: integ_memb_HG; TIGR03954 376686007511 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 376686007512 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 376686007513 ATP binding site [chemical binding]; other site 376686007514 putative Mg++ binding site [ion binding]; other site 376686007515 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 376686007516 nucleotide binding region [chemical binding]; other site 376686007517 ATP-binding site [chemical binding]; other site 376686007518 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 376686007519 DEAD-like helicases superfamily; Region: DEXDc; smart00487 376686007520 ATP binding site [chemical binding]; other site 376686007521 Mg++ binding site [ion binding]; other site 376686007522 motif III; other site 376686007523 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 376686007524 nucleotide binding region [chemical binding]; other site 376686007525 ATP-binding site [chemical binding]; other site 376686007526 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 376686007527 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 376686007528 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686007529 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 376686007530 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686007531 putative substrate translocation pore; other site 376686007532 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 376686007533 non-specific DNA binding site [nucleotide binding]; other site 376686007534 salt bridge; other site 376686007535 sequence-specific DNA binding site [nucleotide binding]; other site 376686007536 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 376686007537 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686007538 active site 376686007539 catalytic site [active] 376686007540 substrate binding site [chemical binding]; other site 376686007541 acetyl-CoA synthetase; Provisional; Region: PRK00174 376686007542 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 376686007543 active site 376686007544 CoA binding site [chemical binding]; other site 376686007545 acyl-activating enzyme (AAE) consensus motif; other site 376686007546 AMP binding site [chemical binding]; other site 376686007547 acetate binding site [chemical binding]; other site 376686007548 ketol-acid reductoisomerase; Validated; Region: PRK05225 376686007549 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 376686007550 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 376686007551 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 376686007552 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 376686007553 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 376686007554 putative valine binding site [chemical binding]; other site 376686007555 dimer interface [polypeptide binding]; other site 376686007556 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 376686007557 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 376686007558 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 376686007559 PYR/PP interface [polypeptide binding]; other site 376686007560 dimer interface [polypeptide binding]; other site 376686007561 TPP binding site [chemical binding]; other site 376686007562 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 376686007563 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 376686007564 TPP-binding site [chemical binding]; other site 376686007565 dimer interface [polypeptide binding]; other site 376686007566 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 376686007567 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 376686007568 tartrate dehydrogenase; Region: TTC; TIGR02089 376686007569 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 376686007570 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 376686007571 active site 376686007572 catalytic residues [active] 376686007573 metal binding site [ion binding]; metal-binding site 376686007574 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 376686007575 Zn binding site [ion binding]; other site 376686007576 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 376686007577 Zn binding site [ion binding]; other site 376686007578 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 376686007579 putative ligand binding site [chemical binding]; other site 376686007580 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 376686007581 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 376686007582 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 376686007583 metal binding site [ion binding]; metal-binding site 376686007584 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 376686007585 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 376686007586 substrate binding site [chemical binding]; other site 376686007587 glutamase interaction surface [polypeptide binding]; other site 376686007588 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 376686007589 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 376686007590 catalytic residues [active] 376686007591 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 376686007592 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 376686007593 putative active site [active] 376686007594 oxyanion strand; other site 376686007595 catalytic triad [active] 376686007596 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 376686007597 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 376686007598 active site 376686007599 motif I; other site 376686007600 motif II; other site 376686007601 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 376686007602 putative active site pocket [active] 376686007603 4-fold oligomerization interface [polypeptide binding]; other site 376686007604 metal binding residues [ion binding]; metal-binding site 376686007605 3-fold/trimer interface [polypeptide binding]; other site 376686007606 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 376686007607 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 376686007608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686007609 homodimer interface [polypeptide binding]; other site 376686007610 catalytic residue [active] 376686007611 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 376686007612 histidinol dehydrogenase; Region: hisD; TIGR00069 376686007613 NAD binding site [chemical binding]; other site 376686007614 dimerization interface [polypeptide binding]; other site 376686007615 product binding site; other site 376686007616 substrate binding site [chemical binding]; other site 376686007617 zinc binding site [ion binding]; other site 376686007618 catalytic residues [active] 376686007619 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 376686007620 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 376686007621 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 376686007622 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686007623 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 376686007624 dimerization interface [polypeptide binding]; other site 376686007625 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 376686007626 dimer interface [polypeptide binding]; other site 376686007627 phosphorylation site [posttranslational modification] 376686007628 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 376686007629 ATP binding site [chemical binding]; other site 376686007630 Mg2+ binding site [ion binding]; other site 376686007631 G-X-G motif; other site 376686007632 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686007633 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686007634 active site 376686007635 phosphorylation site [posttranslational modification] 376686007636 intermolecular recognition site; other site 376686007637 dimerization interface [polypeptide binding]; other site 376686007638 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 376686007639 DNA binding site [nucleotide binding] 376686007640 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 376686007641 Sulfatase; Region: Sulfatase; pfam00884 376686007642 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cd10981 376686007643 Zn binding site [ion binding]; other site 376686007644 Predicted membrane protein [Function unknown]; Region: COG2855 376686007645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 376686007646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 376686007647 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 376686007648 putative dimerization interface [polypeptide binding]; other site 376686007649 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 376686007650 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 376686007651 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 376686007652 NAD(P) binding site [chemical binding]; other site 376686007653 homotetramer interface [polypeptide binding]; other site 376686007654 homodimer interface [polypeptide binding]; other site 376686007655 active site 376686007656 Domain of unknown function (DUF4302); Region: DUF4302; pfam14135 376686007657 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686007658 starch binding outer membrane protein SusD; Region: SusD; cl17845 376686007659 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686007660 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686007661 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686007662 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 376686007663 FecR protein; Region: FecR; pfam04773 376686007664 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686007665 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 376686007666 DNA binding residues [nucleotide binding] 376686007667 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 376686007668 CoA binding domain; Region: CoA_binding; smart00881 376686007669 CoA-ligase; Region: Ligase_CoA; pfam00549 376686007670 SnoaL-like domain; Region: SnoaL_2; pfam12680 376686007671 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 376686007672 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 376686007673 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 376686007674 trimer interface [polypeptide binding]; other site 376686007675 active site 376686007676 UDP-GlcNAc binding site [chemical binding]; other site 376686007677 lipid binding site [chemical binding]; lipid-binding site 376686007678 elongation factor P; Validated; Region: PRK00529 376686007679 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 376686007680 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 376686007681 RNA binding site [nucleotide binding]; other site 376686007682 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 376686007683 RNA binding site [nucleotide binding]; other site 376686007684 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 376686007685 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 376686007686 active site 376686007687 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 376686007688 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 376686007689 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 376686007690 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 376686007691 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 376686007692 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 376686007693 trimer interface [polypeptide binding]; other site 376686007694 active site 376686007695 UDP-GlcNAc binding site [chemical binding]; other site 376686007696 lipid binding site [chemical binding]; lipid-binding site 376686007697 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 376686007698 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 376686007699 Zn2+ binding site [ion binding]; other site 376686007700 Mg2+ binding site [ion binding]; other site 376686007701 Response regulator receiver domain; Region: Response_reg; pfam00072 376686007702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686007703 active site 376686007704 phosphorylation site [posttranslational modification] 376686007705 intermolecular recognition site; other site 376686007706 dimerization interface [polypeptide binding]; other site 376686007707 PglZ domain; Region: PglZ; pfam08665 376686007708 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 376686007709 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 376686007710 AAA domain; Region: AAA_18; pfam13238 376686007711 Walker A motif; other site 376686007712 ATP binding site [chemical binding]; other site 376686007713 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 376686007714 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 376686007715 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 376686007716 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 376686007717 hexamer interface [polypeptide binding]; other site 376686007718 ligand binding site [chemical binding]; other site 376686007719 putative active site [active] 376686007720 NAD(P) binding site [chemical binding]; other site 376686007721 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 376686007722 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 376686007723 ligand binding site [chemical binding]; other site 376686007724 active site 376686007725 UGI interface [polypeptide binding]; other site 376686007726 catalytic site [active] 376686007727 MutS domain III; Region: MutS_III; pfam05192 376686007728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686007729 Walker A/P-loop; other site 376686007730 ATP binding site [chemical binding]; other site 376686007731 Q-loop/lid; other site 376686007732 ABC transporter signature motif; other site 376686007733 Walker B; other site 376686007734 D-loop; other site 376686007735 H-loop/switch region; other site 376686007736 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 376686007737 GIY-YIG motif/motif A; other site 376686007738 putative active site [active] 376686007739 putative metal binding site [ion binding]; other site 376686007740 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 376686007741 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 376686007742 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686007743 Walker A/P-loop; other site 376686007744 ATP binding site [chemical binding]; other site 376686007745 Q-loop/lid; other site 376686007746 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686007747 ABC transporter; Region: ABC_tran_2; pfam12848 376686007748 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686007749 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 376686007750 DNA polymerase III, delta subunit; Region: holA; TIGR01128 376686007751 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 376686007752 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 376686007753 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 376686007754 Probable Catalytic site; other site 376686007755 metal-binding site 376686007756 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686007757 ligand binding site [chemical binding]; other site 376686007758 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 376686007759 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 376686007760 Part of AAA domain; Region: AAA_19; pfam13245 376686007761 Family description; Region: UvrD_C_2; pfam13538 376686007762 hypothetical protein; Provisional; Region: PRK10621 376686007763 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 376686007764 Patatin-like phospholipase; Region: Patatin; pfam01734 376686007765 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 376686007766 Zn binding site [ion binding]; other site 376686007767 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_IV; cd01994 376686007768 Ligand Binding Site [chemical binding]; other site 376686007769 Predicted ATPases of PP-loop superfamily [General function prediction only]; Region: COG2102 376686007770 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 376686007771 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 376686007772 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 376686007773 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 376686007774 generic binding surface II; other site 376686007775 ssDNA binding site; other site 376686007776 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 376686007777 ATP binding site [chemical binding]; other site 376686007778 putative Mg++ binding site [ion binding]; other site 376686007779 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 376686007780 nucleotide binding region [chemical binding]; other site 376686007781 ATP-binding site [chemical binding]; other site 376686007782 PAS domain; Region: PAS_9; pfam13426 376686007783 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 376686007784 putative active site [active] 376686007785 heme pocket [chemical binding]; other site 376686007786 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686007787 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686007788 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686007789 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686007790 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686007791 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686007792 Protein export membrane protein; Region: SecD_SecF; cl14618 376686007793 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 376686007794 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 376686007795 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 376686007796 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686007797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686007798 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 376686007799 catalytic residues [active] 376686007800 dimer interface [polypeptide binding]; other site 376686007801 putative RNA polymerase sigma E protein; Provisional; Region: PRK13919 376686007802 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686007803 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 376686007804 DNA binding residues [nucleotide binding] 376686007805 Anti-sigma-K factor rskA; Region: RskA; pfam10099 376686007806 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 376686007807 putative DNA binding site [nucleotide binding]; other site 376686007808 dimerization interface [polypeptide binding]; other site 376686007809 putative Zn2+ binding site [ion binding]; other site 376686007810 PGAP1-like protein; Region: PGAP1; pfam07819 376686007811 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686007812 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 376686007813 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 376686007814 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 376686007815 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 376686007816 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 376686007817 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 376686007818 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 376686007819 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 376686007820 active site 376686007821 motif I; other site 376686007822 motif II; other site 376686007823 prenyltransferase; Reviewed; Region: ubiA; PRK12872 376686007824 UbiA prenyltransferase family; Region: UbiA; pfam01040 376686007825 Maf-like protein; Region: Maf; pfam02545 376686007826 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 376686007827 active site 376686007828 dimer interface [polypeptide binding]; other site 376686007829 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 376686007830 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686007831 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 376686007832 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 376686007833 PQQ-like domain; Region: PQQ_2; pfam13360 376686007834 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 376686007835 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 376686007836 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 376686007837 Na binding site [ion binding]; other site 376686007838 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 376686007839 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 376686007840 SnoaL-like domain; Region: SnoaL_2; pfam12680 376686007841 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686007842 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686007843 Protein of unknown function (DUF779); Region: DUF779; pfam05610 376686007844 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 376686007845 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 376686007846 NAD(P) binding site [chemical binding]; other site 376686007847 catalytic residues [active] 376686007848 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 376686007849 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 376686007850 putative tRNA-binding site [nucleotide binding]; other site 376686007851 B3/4 domain; Region: B3_4; pfam03483 376686007852 tRNA synthetase B5 domain; Region: B5; pfam03484 376686007853 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 376686007854 dimer interface [polypeptide binding]; other site 376686007855 motif 1; other site 376686007856 motif 3; other site 376686007857 motif 2; other site 376686007858 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 376686007859 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 376686007860 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 376686007861 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 376686007862 ATP binding site [chemical binding]; other site 376686007863 Mg2+ binding site [ion binding]; other site 376686007864 G-X-G motif; other site 376686007865 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686007866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686007867 active site 376686007868 phosphorylation site [posttranslational modification] 376686007869 intermolecular recognition site; other site 376686007870 dimerization interface [polypeptide binding]; other site 376686007871 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 376686007872 dimerization interface [polypeptide binding]; other site 376686007873 DNA binding residues [nucleotide binding] 376686007874 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686007875 active site 376686007876 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 376686007877 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 376686007878 catalytic residues [active] 376686007879 catalytic nucleophile [active] 376686007880 Recombinase; Region: Recombinase; pfam07508 376686007881 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 376686007882 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 376686007883 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 376686007884 putative active site [active] 376686007885 catalytic site [active] 376686007886 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_2; cd09128 376686007887 PLD-like domain; Region: PLDc_2; pfam13091 376686007888 putative active site [active] 376686007889 putative catalytic site [active] 376686007890 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 376686007891 dimer interface [polypeptide binding]; other site 376686007892 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 376686007893 ssDNA binding site [nucleotide binding]; other site 376686007894 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686007895 Domain of unknown function (DUF932); Region: DUF932; pfam06067 376686007896 PRTRC system protein E; Region: PRTRC_E; TIGR03741 376686007897 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 376686007898 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 376686007899 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 376686007900 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 376686007901 ATP binding site [chemical binding]; other site 376686007902 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 376686007903 dimerization interface [polypeptide binding]; other site 376686007904 putative DNA binding site [nucleotide binding]; other site 376686007905 putative Zn2+ binding site [ion binding]; other site 376686007906 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 376686007907 S-adenosylmethionine binding site [chemical binding]; other site 376686007908 Low molecular weight phosphatase family; Region: LMWPc; cl00105 376686007909 active site 376686007910 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 376686007911 arsenical-resistance protein; Region: acr3; TIGR00832 376686007912 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 376686007913 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686007914 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686007915 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 376686007916 active site 376686007917 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 376686007918 Predicted membrane protein [Function unknown]; Region: COG2259 376686007919 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 376686007920 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 376686007921 Chromate transporter; Region: Chromate_transp; pfam02417 376686007922 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 376686007923 Transposase; Region: DEDD_Tnp_IS110; pfam01548 376686007924 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 376686007925 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 376686007926 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 376686007927 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 376686007928 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 376686007929 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 376686007930 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 376686007931 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 376686007932 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 376686007933 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 376686007934 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686007935 Walker A/P-loop; other site 376686007936 ATP binding site [chemical binding]; other site 376686007937 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 376686007938 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 376686007939 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 376686007940 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 376686007941 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686007942 catalytic residue [active] 376686007943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686007944 Walker A/P-loop; other site 376686007945 ATP binding site [chemical binding]; other site 376686007946 AAA domain; Region: AAA_21; pfam13304 376686007947 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 376686007948 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 376686007949 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 376686007950 Active Sites [active] 376686007951 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 376686007952 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 376686007953 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 376686007954 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 376686007955 P-loop; other site 376686007956 Magnesium ion binding site [ion binding]; other site 376686007957 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 376686007958 YWFCY protein; Region: YWFCY; pfam14293 376686007959 AAA-like domain; Region: AAA_10; pfam12846 376686007960 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 376686007961 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 376686007962 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 376686007963 DNA topoisomerase III; Provisional; Region: PRK07726 376686007964 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 376686007965 active site 376686007966 putative interdomain interaction site [polypeptide binding]; other site 376686007967 putative metal-binding site [ion binding]; other site 376686007968 putative nucleotide binding site [chemical binding]; other site 376686007969 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 376686007970 domain I; other site 376686007971 DNA binding groove [nucleotide binding] 376686007972 phosphate binding site [ion binding]; other site 376686007973 domain II; other site 376686007974 domain III; other site 376686007975 nucleotide binding site [chemical binding]; other site 376686007976 catalytic site [active] 376686007977 domain IV; other site 376686007978 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 376686007979 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 376686007980 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 376686007981 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 376686007982 Helix-turn-helix domain; Region: HTH_17; pfam12728 376686007983 RteC protein; Region: RteC; pfam09357 376686007984 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686007985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686007986 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 376686007987 binding surface 376686007988 TPR motif; other site 376686007989 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686007990 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 376686007991 PLD-like domain; Region: PLDc_2; pfam13091 376686007992 putative homodimer interface [polypeptide binding]; other site 376686007993 putative active site [active] 376686007994 catalytic site [active] 376686007995 phage exclusion protein Lit; Provisional; Region: PRK09672 376686007996 Peptidase U49; Region: Peptidase_U49; pfam10463 376686007997 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 376686007998 non-specific DNA binding site [nucleotide binding]; other site 376686007999 salt bridge; other site 376686008000 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686008001 sequence-specific DNA binding site [nucleotide binding]; other site 376686008002 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686008003 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686008004 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686008005 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686008006 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686008007 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686008008 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 376686008009 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 376686008010 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686008011 Methylamine utilisation protein MauE; Region: MauE; pfam07291 376686008012 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 376686008013 Walker A motif; other site 376686008014 ATP binding site [chemical binding]; other site 376686008015 Walker B motif; other site 376686008016 arginine finger; other site 376686008017 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 376686008018 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 376686008019 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 376686008020 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 376686008021 active site 376686008022 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 376686008023 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 376686008024 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 376686008025 Sulfatase; Region: Sulfatase; pfam00884 376686008026 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 376686008027 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686008028 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686008029 active site 376686008030 phosphorylation site [posttranslational modification] 376686008031 intermolecular recognition site; other site 376686008032 dimerization interface [polypeptide binding]; other site 376686008033 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 376686008034 DNA binding site [nucleotide binding] 376686008035 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686008036 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 376686008037 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 376686008038 Sulfatase; Region: Sulfatase; pfam00884 376686008039 lipid kinase, YegS/Rv2252/BmrU family; Region: TIGR00147 376686008040 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 376686008041 hypothetical protein; Provisional; Region: PRK06153 376686008042 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 376686008043 ATP binding site [chemical binding]; other site 376686008044 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 376686008045 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 376686008046 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 376686008047 active site 376686008048 catalytic triad [active] 376686008049 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686008050 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 376686008051 Walker A motif; other site 376686008052 ATP binding site [chemical binding]; other site 376686008053 Walker B motif; other site 376686008054 arginine finger; other site 376686008055 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 376686008056 dimer interface [polypeptide binding]; other site 376686008057 ssDNA binding site [nucleotide binding]; other site 376686008058 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686008059 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 376686008060 putative active site [active] 376686008061 PcfK-like protein; Region: PcfK; pfam14058 376686008062 PcfJ-like protein; Region: PcfJ; pfam14284 376686008063 Heavy-metal-associated domain; Region: HMA; pfam00403 376686008064 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686008065 Uncharacterized conserved protein [Function unknown]; Region: COG3391 376686008066 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 376686008067 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686008068 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686008069 Haem-binding domain; Region: Haem_bd; pfam14376 376686008070 Outer membrane efflux protein; Region: OEP; pfam02321 376686008071 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686008072 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686008073 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686008074 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686008075 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686008076 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686008077 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686008078 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 376686008079 metal-binding site [ion binding] 376686008080 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 376686008081 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686008082 Soluble P-type ATPase [General function prediction only]; Region: COG4087 376686008083 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 376686008084 TPR repeat; Region: TPR_11; pfam13414 376686008085 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 376686008086 binding surface 376686008087 TPR motif; other site 376686008088 Domain of unknown function (DUF305); Region: DUF305; cl17794 376686008089 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 376686008090 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 376686008091 Multicopper oxidase; Region: Cu-oxidase; pfam00394 376686008092 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 376686008093 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 376686008094 dimerization interface [polypeptide binding]; other site 376686008095 putative DNA binding site [nucleotide binding]; other site 376686008096 putative Zn2+ binding site [ion binding]; other site 376686008097 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 376686008098 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686008099 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 376686008100 Coenzyme A binding pocket [chemical binding]; other site 376686008101 Low molecular weight phosphatase family; Region: LMWPc; cl00105 376686008102 active site 376686008103 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 376686008104 arsenical-resistance protein; Region: acr3; TIGR00832 376686008105 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686008106 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686008107 active site 376686008108 metal binding site [ion binding]; metal-binding site 376686008109 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686008110 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 376686008111 ligand binding site [chemical binding]; other site 376686008112 flexible hinge region; other site 376686008113 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 376686008114 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686008115 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 376686008116 DNA binding residues [nucleotide binding] 376686008117 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 376686008118 dimerization interface [polypeptide binding]; other site 376686008119 putative DNA binding site [nucleotide binding]; other site 376686008120 putative Zn2+ binding site [ion binding]; other site 376686008121 MerT mercuric transport protein; Region: MerT; cl03578 376686008122 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 376686008123 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 376686008124 metal-binding site [ion binding] 376686008125 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686008126 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686008127 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 376686008128 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 376686008129 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686008130 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008131 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686008132 putative substrate translocation pore; other site 376686008133 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 376686008134 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686008135 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686008136 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 376686008137 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 376686008138 substrate binding site [chemical binding]; other site 376686008139 oxyanion hole (OAH) forming residues; other site 376686008140 trimer interface [polypeptide binding]; other site 376686008141 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 376686008142 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 376686008143 putative NAD(P) binding site [chemical binding]; other site 376686008144 Methyltransferase domain; Region: Methyltransf_31; pfam13847 376686008145 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 376686008146 S-adenosylmethionine binding site [chemical binding]; other site 376686008147 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686008148 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686008149 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686008150 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686008151 Epoxide hydrolase N terminus; Region: EHN; pfam06441 376686008152 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 376686008153 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 376686008154 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686008155 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 376686008156 non-specific DNA binding site [nucleotide binding]; other site 376686008157 salt bridge; other site 376686008158 sequence-specific DNA binding site [nucleotide binding]; other site 376686008159 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 376686008160 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686008161 ligand binding site [chemical binding]; other site 376686008162 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686008163 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686008164 active site 376686008165 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 376686008166 putative substrate binding site [chemical binding]; other site 376686008167 active site 376686008168 alpha-galactosidase; Region: PLN02808; cl17638 376686008169 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686008170 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686008171 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686008172 Protein of unknown function, DUF608; Region: DUF608; pfam04685 376686008173 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 376686008174 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 376686008175 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 376686008176 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686008177 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 376686008178 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686008179 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 376686008180 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 376686008181 putative transporter; Provisional; Region: PRK10484 376686008182 Na binding site [ion binding]; other site 376686008183 substrate binding site [chemical binding]; other site 376686008184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 376686008185 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 376686008186 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686008187 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686008188 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686008189 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 376686008190 Family of unknown function (DUF706); Region: DUF706; pfam05153 376686008191 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686008192 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686008193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686008194 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 376686008195 dimer interface [polypeptide binding]; other site 376686008196 phosphorylation site [posttranslational modification] 376686008197 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 376686008198 ATP binding site [chemical binding]; other site 376686008199 Mg2+ binding site [ion binding]; other site 376686008200 G-X-G motif; other site 376686008201 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686008202 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686008203 active site 376686008204 phosphorylation site [posttranslational modification] 376686008205 intermolecular recognition site; other site 376686008206 dimerization interface [polypeptide binding]; other site 376686008207 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686008208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008209 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 376686008210 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686008211 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686008212 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686008213 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 376686008214 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686008215 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 376686008216 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686008217 SusD family; Region: SusD; pfam07980 376686008218 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686008219 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686008220 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686008221 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686008222 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 376686008223 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 376686008224 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 376686008225 hypothetical protein; Provisional; Region: PRK09897 376686008226 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 376686008227 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686008228 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; cl00047 376686008229 DinB superfamily; Region: DinB_2; pfam12867 376686008230 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 376686008231 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 376686008232 putative active site [active] 376686008233 heme pocket [chemical binding]; other site 376686008234 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 376686008235 dimer interface [polypeptide binding]; other site 376686008236 phosphorylation site [posttranslational modification] 376686008237 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 376686008238 ATP binding site [chemical binding]; other site 376686008239 Mg2+ binding site [ion binding]; other site 376686008240 G-X-G motif; other site 376686008241 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 376686008242 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 376686008243 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 376686008244 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 376686008245 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 376686008246 ATP binding site [chemical binding]; other site 376686008247 Mg2+ binding site [ion binding]; other site 376686008248 G-X-G motif; other site 376686008249 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 376686008250 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 376686008251 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 376686008252 hydroperoxidase II; Provisional; Region: katE; PRK11249 376686008253 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 376686008254 tetramer interface [polypeptide binding]; other site 376686008255 heme binding pocket [chemical binding]; other site 376686008256 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 376686008257 domain interactions; other site 376686008258 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 376686008259 dimerization interface [polypeptide binding]; other site 376686008260 metal binding site [ion binding]; metal-binding site 376686008261 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686008262 Sulfatase; Region: Sulfatase; pfam00884 376686008263 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686008264 Sulfatase; Region: Sulfatase; pfam00884 376686008265 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 376686008266 Helix-turn-helix domain; Region: HTH_19; pfam12844 376686008267 non-specific DNA binding site [nucleotide binding]; other site 376686008268 salt bridge; other site 376686008269 sequence-specific DNA binding site [nucleotide binding]; other site 376686008270 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 376686008271 active site 376686008272 aromatic amino acid transporter; Provisional; Region: PRK10238 376686008273 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 376686008274 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 376686008275 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 376686008276 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 376686008277 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 376686008278 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 376686008279 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686008280 Phage protein D [General function prediction only]; Region: COG3500 376686008281 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 376686008282 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686008283 PAAR motif; Region: PAAR_motif; pfam05488 376686008284 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 376686008285 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 376686008286 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 376686008287 PKD domain; Region: PKD; pfam00801 376686008288 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 376686008289 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 376686008290 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 376686008291 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 376686008292 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686008293 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 376686008294 Walker A motif; other site 376686008295 ATP binding site [chemical binding]; other site 376686008296 Walker B motif; other site 376686008297 arginine finger; other site 376686008298 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 376686008299 active site 376686008300 iron coordination sites [ion binding]; other site 376686008301 substrate binding pocket [chemical binding]; other site 376686008302 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 376686008303 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 376686008304 putative FMN binding site [chemical binding]; other site 376686008305 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 376686008306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686008307 catalytic residue [active] 376686008308 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 376686008309 IucA / IucC family; Region: IucA_IucC; pfam04183 376686008310 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 376686008311 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 376686008312 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 376686008313 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 376686008314 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 376686008315 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 376686008316 IucA / IucC family; Region: IucA_IucC; pfam04183 376686008317 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 376686008318 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_14; cd13139 376686008319 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 376686008320 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686008321 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 376686008322 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 376686008323 acyl-activating enzyme (AAE) consensus motif; other site 376686008324 AMP binding site [chemical binding]; other site 376686008325 active site 376686008326 CoA binding site [chemical binding]; other site 376686008327 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 376686008328 Acyltransferase family; Region: Acyl_transf_3; pfam01757 376686008329 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686008330 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686008331 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 376686008332 N-terminal plug; other site 376686008333 ligand-binding site [chemical binding]; other site 376686008334 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686008335 AsmA family; Region: AsmA; pfam05170 376686008336 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 376686008337 Alkaline phosphatase homologues; Region: alkPPc; smart00098 376686008338 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 376686008339 active site 376686008340 dimer interface [polypeptide binding]; other site 376686008341 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686008342 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 376686008343 active site 376686008344 metal binding site [ion binding]; metal-binding site 376686008345 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 376686008346 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 376686008347 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686008348 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 376686008349 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 376686008350 Uncharacterized conserved protein [Function unknown]; Region: COG2898 376686008351 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 376686008352 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686008353 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 376686008354 active site 376686008355 metal binding site [ion binding]; metal-binding site 376686008356 SnoaL-like domain; Region: SnoaL_2; pfam12680 376686008357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008358 NAD(P) binding site [chemical binding]; other site 376686008359 active site 376686008360 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686008361 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 376686008362 ligand binding site [chemical binding]; other site 376686008363 flexible hinge region; other site 376686008364 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 376686008365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008366 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 376686008367 NAD(P) binding site [chemical binding]; other site 376686008368 active site 376686008369 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 376686008370 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 376686008371 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 376686008372 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 376686008373 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 376686008374 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686008375 Response regulator receiver domain; Region: Response_reg; pfam00072 376686008376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686008377 active site 376686008378 phosphorylation site [posttranslational modification] 376686008379 intermolecular recognition site; other site 376686008380 dimerization interface [polypeptide binding]; other site 376686008381 hypothetical protein; Provisional; Region: PRK13560 376686008382 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 376686008383 putative active site [active] 376686008384 heme pocket [chemical binding]; other site 376686008385 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 376686008386 putative active site [active] 376686008387 heme pocket [chemical binding]; other site 376686008388 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 376686008389 putative active site [active] 376686008390 heme pocket [chemical binding]; other site 376686008391 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 376686008392 dimer interface [polypeptide binding]; other site 376686008393 phosphorylation site [posttranslational modification] 376686008394 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 376686008395 ATP binding site [chemical binding]; other site 376686008396 Mg2+ binding site [ion binding]; other site 376686008397 G-X-G motif; other site 376686008398 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 376686008399 metal binding site [ion binding]; metal-binding site 376686008400 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 376686008401 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 376686008402 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 376686008403 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 376686008404 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686008405 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 376686008406 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 376686008407 Protein of unknown function (DUF763); Region: DUF763; pfam05559 376686008408 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 376686008409 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 376686008410 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 376686008411 Penicillinase repressor; Region: Pencillinase_R; pfam03965 376686008412 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686008413 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686008414 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 376686008415 classical (c) SDRs; Region: SDR_c; cd05233 376686008416 NAD(P) binding site [chemical binding]; other site 376686008417 active site 376686008418 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 376686008419 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 376686008420 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686008421 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 376686008422 ligand binding site [chemical binding]; other site 376686008423 flexible hinge region; other site 376686008424 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 376686008425 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 376686008426 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686008427 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686008428 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686008429 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686008430 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686008431 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686008432 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686008433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686008434 active site 376686008435 phosphorylation site [posttranslational modification] 376686008436 intermolecular recognition site; other site 376686008437 dimerization interface [polypeptide binding]; other site 376686008438 LytTr DNA-binding domain; Region: LytTR; smart00850 376686008439 Histidine kinase; Region: His_kinase; pfam06580 376686008440 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 376686008441 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 376686008442 dimer interface [polypeptide binding]; other site 376686008443 active site 376686008444 CoA binding pocket [chemical binding]; other site 376686008445 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 376686008446 Ligand Binding Site [chemical binding]; other site 376686008447 CAAX protease self-immunity; Region: Abi; pfam02517 376686008448 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686008449 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686008450 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686008451 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686008452 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 376686008453 nucleosidase; Provisional; Region: PRK05634 376686008454 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 376686008455 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686008456 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008457 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 376686008458 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 376686008459 putative active site [active] 376686008460 metal binding site [ion binding]; metal-binding site 376686008461 Predicted esterase [General function prediction only]; Region: COG0400 376686008462 putative hydrolase; Provisional; Region: PRK11460 376686008463 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 376686008464 active site 376686008465 nucleophile elbow; other site 376686008466 MG2 domain; Region: A2M_N; pfam01835 376686008467 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686008468 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686008469 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 376686008470 Leucine rich repeat; Region: LRR_8; pfam13855 376686008471 Substrate binding site [chemical binding]; other site 376686008472 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 376686008473 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 376686008474 Leucine rich repeat; Region: LRR_8; pfam13855 376686008475 Leucine rich repeat; Region: LRR_8; pfam13855 376686008476 Leucine rich repeat; Region: LRR_8; pfam13855 376686008477 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 376686008478 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686008479 hypothetical protein; Validated; Region: PRK06217 376686008480 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 376686008481 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar3; cd08577 376686008482 putative active site [active] 376686008483 catalytic site [active] 376686008484 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 376686008485 dimer interface [polypeptide binding]; other site 376686008486 Alkaline phosphatase homologues; Region: alkPPc; smart00098 376686008487 active site 376686008488 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686008489 starch binding outer membrane protein SusD; Region: SusD; cl17845 376686008490 SusD family; Region: SusD; pfam07980 376686008491 Secretin and TonB N terminus short domain; Region: STN; pfam07660 376686008492 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686008493 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686008494 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 376686008495 FecR protein; Region: FecR; pfam04773 376686008496 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686008497 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686008498 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 376686008499 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 376686008500 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 376686008501 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 376686008502 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 376686008503 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686008504 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 376686008505 Protein of unknown function (DUF877); Region: DUF877; pfam05943 376686008506 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 376686008507 aspartyl-tRNA synthetase, bacterial type; Region: aspS_bact; TIGR00459 376686008508 Bacterial SH3 domain; Region: SH3_3; pfam08239 376686008509 cell division protein FtsN; Provisional; Region: PRK12757 376686008510 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 376686008511 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686008512 NlpC/P60 family; Region: NLPC_P60; cl17555 376686008513 FOG: PKD repeat [General function prediction only]; Region: COG3291 376686008514 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686008515 PKD domain; Region: PKD; pfam00801 376686008516 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 376686008517 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 376686008518 Walker A motif; other site 376686008519 ATP binding site [chemical binding]; other site 376686008520 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 376686008521 Walker A motif; other site 376686008522 ATP binding site [chemical binding]; other site 376686008523 Walker B motif; other site 376686008524 arginine finger; other site 376686008525 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 376686008526 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686008527 Sulfatase; Region: Sulfatase; pfam00884 376686008528 Uncharacterized conserved protein [Function unknown]; Region: COG5361 376686008529 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 376686008530 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686008531 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 376686008532 N-terminal plug; other site 376686008533 ligand-binding site [chemical binding]; other site 376686008534 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686008535 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686008536 short chain dehydrogenase; Provisional; Region: PRK08263 376686008537 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686008538 NADP binding site [chemical binding]; other site 376686008539 active site 376686008540 steroid binding site; other site 376686008541 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 376686008542 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 376686008543 putative NAD(P) binding site [chemical binding]; other site 376686008544 putative substrate binding site [chemical binding]; other site 376686008545 catalytic Zn binding site [ion binding]; other site 376686008546 structural Zn binding site [ion binding]; other site 376686008547 dimer interface [polypeptide binding]; other site 376686008548 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686008549 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; cl00047 376686008550 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 376686008551 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686008552 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686008553 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686008554 Coenzyme A binding pocket [chemical binding]; other site 376686008555 Transcriptional regulator [Transcription]; Region: LysR; COG0583 376686008556 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 376686008557 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 376686008558 dimerization interface [polypeptide binding]; other site 376686008559 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686008560 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686008561 Coenzyme A binding pocket [chemical binding]; other site 376686008562 EamA-like transporter family; Region: EamA; pfam00892 376686008563 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 376686008564 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 376686008565 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 376686008566 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 376686008567 active site 376686008568 DNA binding site [nucleotide binding] 376686008569 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 376686008570 DNA binding site [nucleotide binding] 376686008571 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 376686008572 nucleotide binding site [chemical binding]; other site 376686008573 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 376686008574 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 376686008575 putative DNA binding site [nucleotide binding]; other site 376686008576 putative homodimer interface [polypeptide binding]; other site 376686008577 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686008578 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008579 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 376686008580 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 376686008581 DoxX; Region: DoxX; pfam07681 376686008582 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 376686008583 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 376686008584 putative NAD(P) binding site [chemical binding]; other site 376686008585 dimer interface [polypeptide binding]; other site 376686008586 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686008587 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686008588 Coenzyme A binding pocket [chemical binding]; other site 376686008589 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 376686008590 binding surface 376686008591 TPR motif; other site 376686008592 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686008593 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 376686008594 binding surface 376686008595 TPR motif; other site 376686008596 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686008597 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686008598 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 376686008599 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686008600 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 376686008601 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 376686008602 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 376686008603 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 376686008604 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686008605 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686008606 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 376686008607 N-terminal plug; other site 376686008608 ligand-binding site [chemical binding]; other site 376686008609 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 376686008610 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 376686008611 dimer interface [polypeptide binding]; other site 376686008612 active site 376686008613 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 376686008614 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 376686008615 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686008616 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686008617 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 376686008618 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 376686008619 putative metal binding site [ion binding]; other site 376686008620 PKD domain; Region: PKD; pfam00801 376686008621 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686008622 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 376686008623 L-aspartate oxidase; Provisional; Region: PRK06175 376686008624 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 376686008625 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 376686008626 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 376686008627 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 376686008628 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 376686008629 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 376686008630 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 376686008631 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 376686008632 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 376686008633 Walker A/P-loop; other site 376686008634 ATP binding site [chemical binding]; other site 376686008635 Q-loop/lid; other site 376686008636 ABC transporter signature motif; other site 376686008637 Walker B; other site 376686008638 D-loop; other site 376686008639 H-loop/switch region; other site 376686008640 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686008641 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 376686008642 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 376686008643 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 376686008644 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 376686008645 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 376686008646 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 376686008647 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 376686008648 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686008649 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 376686008650 DNA binding residues [nucleotide binding] 376686008651 FecR protein; Region: FecR; pfam04773 376686008652 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 376686008653 Secretin and TonB N terminus short domain; Region: STN; pfam07660 376686008654 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686008655 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686008656 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 376686008657 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686008658 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 376686008659 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686008660 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 376686008661 active site 376686008662 Surface antigen; Region: Bac_surface_Ag; pfam01103 376686008663 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 376686008664 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686008665 Soluble P-type ATPase [General function prediction only]; Region: COG4087 376686008666 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686008667 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686008668 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 376686008669 CheB methylesterase; Region: CheB_methylest; pfam01339 376686008670 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 376686008671 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 376686008672 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 376686008673 Response regulator receiver domain; Region: Response_reg; pfam00072 376686008674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686008675 active site 376686008676 phosphorylation site [posttranslational modification] 376686008677 intermolecular recognition site; other site 376686008678 dimerization interface [polypeptide binding]; other site 376686008679 CHASE3 domain; Region: CHASE3; pfam05227 376686008680 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 376686008681 dimerization interface [polypeptide binding]; other site 376686008682 GAF domain; Region: GAF_2; pfam13185 376686008683 GAF domain; Region: GAF_3; pfam13492 376686008684 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 376686008685 dimer interface [polypeptide binding]; other site 376686008686 phosphorylation site [posttranslational modification] 376686008687 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 376686008688 ATP binding site [chemical binding]; other site 376686008689 Mg2+ binding site [ion binding]; other site 376686008690 G-X-G motif; other site 376686008691 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686008692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686008693 active site 376686008694 phosphorylation site [posttranslational modification] 376686008695 intermolecular recognition site; other site 376686008696 dimerization interface [polypeptide binding]; other site 376686008697 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686008698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686008699 active site 376686008700 phosphorylation site [posttranslational modification] 376686008701 intermolecular recognition site; other site 376686008702 Response regulator receiver domain; Region: Response_reg; pfam00072 376686008703 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686008704 active site 376686008705 phosphorylation site [posttranslational modification] 376686008706 intermolecular recognition site; other site 376686008707 dimerization interface [polypeptide binding]; other site 376686008708 Response regulator receiver domain; Region: Response_reg; pfam00072 376686008709 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686008710 active site 376686008711 phosphorylation site [posttranslational modification] 376686008712 intermolecular recognition site; other site 376686008713 dimerization interface [polypeptide binding]; other site 376686008714 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 376686008715 dimer interface [polypeptide binding]; other site 376686008716 phosphorylation site [posttranslational modification] 376686008717 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 376686008718 ATP binding site [chemical binding]; other site 376686008719 Mg2+ binding site [ion binding]; other site 376686008720 G-X-G motif; other site 376686008721 short chain dehydrogenase; Provisional; Region: PRK06701 376686008722 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 376686008723 NAD binding site [chemical binding]; other site 376686008724 metal binding site [ion binding]; metal-binding site 376686008725 active site 376686008726 Uncharacterized conserved protein [Function unknown]; Region: COG4095 376686008727 PAS fold; Region: PAS_4; pfam08448 376686008728 PAS domain; Region: PAS_9; pfam13426 376686008729 PAS fold; Region: PAS_4; pfam08448 376686008730 PAS fold; Region: PAS_4; pfam08448 376686008731 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 376686008732 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 376686008733 putative active site [active] 376686008734 heme pocket [chemical binding]; other site 376686008735 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 376686008736 putative active site [active] 376686008737 heme pocket [chemical binding]; other site 376686008738 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 376686008739 dimer interface [polypeptide binding]; other site 376686008740 phosphorylation site [posttranslational modification] 376686008741 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 376686008742 ATP binding site [chemical binding]; other site 376686008743 Mg2+ binding site [ion binding]; other site 376686008744 G-X-G motif; other site 376686008745 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686008746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686008747 active site 376686008748 phosphorylation site [posttranslational modification] 376686008749 intermolecular recognition site; other site 376686008750 dimerization interface [polypeptide binding]; other site 376686008751 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 376686008752 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 376686008753 Protein of unknown function DUF72; Region: DUF72; pfam01904 376686008754 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 376686008755 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 376686008756 putative DNA binding site [nucleotide binding]; other site 376686008757 catalytic residue [active] 376686008758 putative H2TH interface [polypeptide binding]; other site 376686008759 putative catalytic residues [active] 376686008760 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 376686008761 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 376686008762 dimerization interface [polypeptide binding]; other site 376686008763 metal binding site [ion binding]; metal-binding site 376686008764 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 376686008765 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 376686008766 active site 376686008767 DNA binding site [nucleotide binding] 376686008768 Int/Topo IB signature motif; other site 376686008769 catalytic residues [active] 376686008770 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 376686008771 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 376686008772 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 376686008773 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686008774 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008775 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686008776 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686008777 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 376686008778 CoenzymeA binding site [chemical binding]; other site 376686008779 subunit interaction site [polypeptide binding]; other site 376686008780 PHB binding site; other site 376686008781 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686008782 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686008783 putative substrate translocation pore; other site 376686008784 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686008785 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686008786 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686008787 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686008788 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 376686008789 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686008790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008791 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 376686008792 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686008793 catalytic residues [active] 376686008794 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 376686008795 dimerization interface [polypeptide binding]; other site 376686008796 putative DNA binding site [nucleotide binding]; other site 376686008797 putative Zn2+ binding site [ion binding]; other site 376686008798 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 376686008799 Old yellow enzyme (OYE)-related FMN binding domain, group 5. 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_5_FMN; cd04747 376686008800 putative active site [active] 376686008801 putative FMN binding site [chemical binding]; other site 376686008802 putative substrate binding site [chemical binding]; other site 376686008803 putative catalytic residue [active] 376686008804 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 376686008805 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 376686008806 active site 376686008807 HIGH motif; other site 376686008808 dimer interface [polypeptide binding]; other site 376686008809 KMSKS motif; other site 376686008810 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 376686008811 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 376686008812 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 376686008813 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686008814 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686008815 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 376686008816 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 376686008817 putative substrate binding pocket [chemical binding]; other site 376686008818 trimer interface [polypeptide binding]; other site 376686008819 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686008820 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686008821 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 376686008822 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 376686008823 nudix motif; other site 376686008824 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 376686008825 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 376686008826 active site 376686008827 Predicted permeases [General function prediction only]; Region: RarD; COG2962 376686008828 EamA-like transporter family; Region: EamA; pfam00892 376686008829 EamA-like transporter family; Region: EamA; pfam00892 376686008830 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 376686008831 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686008832 DNA-binding site [nucleotide binding]; DNA binding site 376686008833 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 376686008834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686008835 homodimer interface [polypeptide binding]; other site 376686008836 catalytic residue [active] 376686008837 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 376686008838 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686008839 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 376686008840 dimerization interface [polypeptide binding]; other site 376686008841 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 376686008842 dimer interface [polypeptide binding]; other site 376686008843 phosphorylation site [posttranslational modification] 376686008844 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 376686008845 ATP binding site [chemical binding]; other site 376686008846 Mg2+ binding site [ion binding]; other site 376686008847 G-X-G motif; other site 376686008848 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686008849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686008850 active site 376686008851 phosphorylation site [posttranslational modification] 376686008852 intermolecular recognition site; other site 376686008853 dimerization interface [polypeptide binding]; other site 376686008854 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 376686008855 DNA binding site [nucleotide binding] 376686008856 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 376686008857 Surface antigen; Region: Bac_surface_Ag; pfam01103 376686008858 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 376686008859 Aspartase; Region: Aspartase; cd01357 376686008860 active sites [active] 376686008861 tetramer interface [polypeptide binding]; other site 376686008862 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 376686008863 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 376686008864 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 376686008865 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686008866 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686008867 putative substrate translocation pore; other site 376686008868 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686008869 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686008870 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686008871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686008872 Coenzyme A binding pocket [chemical binding]; other site 376686008873 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 376686008874 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 376686008875 active site 376686008876 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 376686008877 active site 376686008878 dinuclear metal binding site [ion binding]; other site 376686008879 dimerization interface [polypeptide binding]; other site 376686008880 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 376686008881 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 376686008882 dimer interface [polypeptide binding]; other site 376686008883 active site 376686008884 glycine-pyridoxal phosphate binding site [chemical binding]; other site 376686008885 folate binding site [chemical binding]; other site 376686008886 fumarylacetoacetase; Region: PLN02856 376686008887 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 376686008888 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 376686008889 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; pfam03372 376686008890 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 376686008891 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 376686008892 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 376686008893 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686008894 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686008895 ligand binding site [chemical binding]; other site 376686008896 N-carbamolyputrescine amidase; Region: PLN02747 376686008897 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 376686008898 putative active site; other site 376686008899 catalytic triad [active] 376686008900 putative dimer interface [polypeptide binding]; other site 376686008901 Protein of unknown function (DUF808); Region: DUF808; cl01002 376686008902 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686008903 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 376686008904 Clp amino terminal domain; Region: Clp_N; pfam02861 376686008905 Clp amino terminal domain; Region: Clp_N; pfam02861 376686008906 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 376686008907 Walker A motif; other site 376686008908 ATP binding site [chemical binding]; other site 376686008909 Walker B motif; other site 376686008910 arginine finger; other site 376686008911 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 376686008912 Walker A motif; other site 376686008913 ATP binding site [chemical binding]; other site 376686008914 Walker B motif; other site 376686008915 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 376686008916 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 376686008917 catalytic residues [active] 376686008918 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 376686008919 HD domain; Region: HD_4; pfam13328 376686008920 Lyase; Region: Lyase_1; pfam00206 376686008921 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 376686008922 active sites [active] 376686008923 tetramer interface [polypeptide binding]; other site 376686008924 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 376686008925 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 376686008926 metal binding site [ion binding]; metal-binding site 376686008927 dimer interface [polypeptide binding]; other site 376686008928 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 376686008929 nucleotide binding site [chemical binding]; other site 376686008930 N-acetyl-L-glutamate binding site [chemical binding]; other site 376686008931 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 376686008932 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 376686008933 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 376686008934 nucleotide binding site [chemical binding]; other site 376686008935 homotetrameric interface [polypeptide binding]; other site 376686008936 putative phosphate binding site [ion binding]; other site 376686008937 putative allosteric binding site; other site 376686008938 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 376686008939 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 376686008940 putative catalytic cysteine [active] 376686008941 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 376686008942 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 376686008943 inhibitor-cofactor binding pocket; inhibition site 376686008944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686008945 catalytic residue [active] 376686008946 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 376686008947 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 376686008948 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 376686008949 Ligand Binding Site [chemical binding]; other site 376686008950 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686008951 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686008952 Coenzyme A binding pocket [chemical binding]; other site 376686008953 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 376686008954 Zn binding site [ion binding]; other site 376686008955 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 376686008956 active site 376686008957 catalytic residues [active] 376686008958 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686008959 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 376686008960 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 376686008961 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 376686008962 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 376686008963 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 376686008964 SmpB-tmRNA interface; other site 376686008965 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 376686008966 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686008967 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 376686008968 non-specific DNA binding site [nucleotide binding]; other site 376686008969 salt bridge; other site 376686008970 sequence-specific DNA binding site [nucleotide binding]; other site 376686008971 Fic family protein [Function unknown]; Region: COG3177 376686008972 Fic/DOC family; Region: Fic; pfam02661 376686008973 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 376686008974 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 376686008975 S-adenosylmethionine binding site [chemical binding]; other site 376686008976 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 376686008977 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 376686008978 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 376686008979 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 376686008980 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 376686008981 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 376686008982 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 376686008983 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686008984 catalytic residue [active] 376686008985 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686008986 four helix bundle protein; Region: TIGR02436 376686008987 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 376686008988 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686008989 active site 376686008990 catalytic site [active] 376686008991 substrate binding site [chemical binding]; other site 376686008992 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 376686008993 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 376686008994 GIY-YIG motif/motif A; other site 376686008995 active site 376686008996 catalytic site [active] 376686008997 putative DNA binding site [nucleotide binding]; other site 376686008998 metal binding site [ion binding]; metal-binding site 376686008999 Ion transport protein; Region: Ion_trans; pfam00520 376686009000 Ion channel; Region: Ion_trans_2; pfam07885 376686009001 Double zinc ribbon; Region: DZR; pfam12773 376686009002 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 376686009003 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 376686009004 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 376686009005 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 376686009006 active site 376686009007 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 376686009008 active site 2 [active] 376686009009 active site 1 [active] 376686009010 invasion protein regulator; Provisional; Region: PRK12370 376686009011 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 376686009012 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 376686009013 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 376686009014 hypothetical protein; Reviewed; Region: PRK09588 376686009015 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686009016 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009017 active site 376686009018 phosphorylation site [posttranslational modification] 376686009019 intermolecular recognition site; other site 376686009020 dimerization interface [polypeptide binding]; other site 376686009021 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 376686009022 DNA binding site [nucleotide binding] 376686009023 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686009024 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 376686009025 dimer interface [polypeptide binding]; other site 376686009026 phosphorylation site [posttranslational modification] 376686009027 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 376686009028 ATP binding site [chemical binding]; other site 376686009029 Mg2+ binding site [ion binding]; other site 376686009030 G-X-G motif; other site 376686009031 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 376686009032 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 376686009033 CoA-binding site [chemical binding]; other site 376686009034 ATP-binding [chemical binding]; other site 376686009035 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686009036 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 376686009037 active site 376686009038 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 376686009039 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 376686009040 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 376686009041 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 376686009042 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 376686009043 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 376686009044 Walker A/P-loop; other site 376686009045 ATP binding site [chemical binding]; other site 376686009046 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 376686009047 ABC transporter signature motif; other site 376686009048 Walker B; other site 376686009049 D-loop; other site 376686009050 H-loop/switch region; other site 376686009051 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 376686009052 Flavoprotein; Region: Flavoprotein; pfam02441 376686009053 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 376686009054 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 376686009055 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 376686009056 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 376686009057 dihydrodipicolinate synthase; Region: dapA; TIGR00674 376686009058 dimer interface [polypeptide binding]; other site 376686009059 active site 376686009060 catalytic residue [active] 376686009061 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 376686009062 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 376686009063 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686009064 active site 376686009065 metal binding site [ion binding]; metal-binding site 376686009066 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 376686009067 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 376686009068 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 376686009069 nucleotide binding pocket [chemical binding]; other site 376686009070 K-X-D-G motif; other site 376686009071 catalytic site [active] 376686009072 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 376686009073 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 376686009074 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 376686009075 Dimer interface [polypeptide binding]; other site 376686009076 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 376686009077 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686009078 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686009079 ligand binding site [chemical binding]; other site 376686009080 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 376686009081 Domain of unknown function DUF11; Region: DUF11; cl17728 376686009082 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 376686009083 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 376686009084 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 376686009085 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 376686009086 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 376686009087 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 376686009088 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686009089 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009090 active site 376686009091 phosphorylation site [posttranslational modification] 376686009092 intermolecular recognition site; other site 376686009093 dimerization interface [polypeptide binding]; other site 376686009094 LytTr DNA-binding domain; Region: LytTR; smart00850 376686009095 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 376686009096 primosomal protein N' Region: priA; TIGR00595 376686009097 ATP binding site [chemical binding]; other site 376686009098 putative Mg++ binding site [ion binding]; other site 376686009099 FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1; Region: FYVE; cl17764 376686009100 Zn binding sites [ion binding]; other site 376686009101 phosphatidylinositol 3-phosphate binding site [chemical binding]; other site 376686009102 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 376686009103 ATP-binding site [chemical binding]; other site 376686009104 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 376686009105 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 376686009106 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 376686009107 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 376686009108 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 376686009109 dimerization interface [polypeptide binding]; other site 376686009110 active site 376686009111 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 376686009112 Pirin-related protein [General function prediction only]; Region: COG1741 376686009113 Pirin; Region: Pirin; pfam02678 376686009114 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 376686009115 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 376686009116 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686009117 Coenzyme A binding pocket [chemical binding]; other site 376686009118 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 376686009119 active site 376686009120 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 376686009121 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 376686009122 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 376686009123 dihydropteroate synthase; Region: DHPS; TIGR01496 376686009124 substrate binding pocket [chemical binding]; other site 376686009125 dimer interface [polypeptide binding]; other site 376686009126 inhibitor binding site; inhibition site 376686009127 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 376686009128 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 376686009129 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 376686009130 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686009131 catalytic residues [active] 376686009132 triosephosphate isomerase; Provisional; Region: PRK14567 376686009133 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 376686009134 substrate binding site [chemical binding]; other site 376686009135 dimer interface [polypeptide binding]; other site 376686009136 catalytic triad [active] 376686009137 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 376686009138 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 376686009139 S-adenosylmethionine binding site [chemical binding]; other site 376686009140 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 376686009141 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 376686009142 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 376686009143 YhhN-like protein; Region: YhhN; pfam07947 376686009144 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 376686009145 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 376686009146 hypothetical protein; Provisional; Region: PRK10030 376686009147 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 376686009148 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 376686009149 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 376686009150 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 376686009151 PA/protease or protease-like domain interface [polypeptide binding]; other site 376686009152 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 376686009153 Peptidase family M28; Region: Peptidase_M28; pfam04389 376686009154 metal binding site [ion binding]; metal-binding site 376686009155 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686009156 active site 376686009157 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 376686009158 sugar binding site [chemical binding]; other site 376686009159 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 376686009160 Interdomain contacts; other site 376686009161 Cytokine receptor motif; other site 376686009162 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 376686009163 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 376686009164 active site 376686009165 catalytic site [active] 376686009166 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686009167 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686009168 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 376686009169 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 376686009170 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686009171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 376686009172 Putative glucoamylase; Region: Glycoamylase; pfam10091 376686009173 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686009174 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686009175 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009176 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686009177 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686009178 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686009179 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 376686009180 DNA binding residues [nucleotide binding] 376686009181 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 376686009182 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 376686009183 propionate/acetate kinase; Provisional; Region: PRK12379 376686009184 phosphate acetyltransferase; Reviewed; Region: PRK05632 376686009185 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 376686009186 DRTGG domain; Region: DRTGG; pfam07085 376686009187 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 376686009188 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 376686009189 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 376686009190 oligomer interface [polypeptide binding]; other site 376686009191 metal binding site [ion binding]; metal-binding site 376686009192 metal binding site [ion binding]; metal-binding site 376686009193 Cl binding site [ion binding]; other site 376686009194 aspartate ring; other site 376686009195 basic sphincter; other site 376686009196 putative hydrophobic gate; other site 376686009197 periplasmic entrance; other site 376686009198 Restriction endonuclease; Region: Mrr_cat; pfam04471 376686009199 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686009200 NACHT domain; Region: NACHT; pfam05729 376686009201 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 376686009202 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 376686009203 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 376686009204 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 376686009205 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 376686009206 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 376686009207 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 376686009208 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 376686009209 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 376686009210 Domain of unknown function DUF87; Region: DUF87; pfam01935 376686009211 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 376686009212 cofactor binding site; other site 376686009213 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 376686009214 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 376686009215 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686009216 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009217 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686009218 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686009219 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 376686009220 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009221 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686009222 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686009223 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686009224 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686009225 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 376686009226 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686009227 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 376686009228 YWFCY protein; Region: YWFCY; pfam14293 376686009229 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 376686009230 AAA-like domain; Region: AAA_10; pfam12846 376686009231 Walker A motif; other site 376686009232 ATP binding site [chemical binding]; other site 376686009233 Walker B motif; other site 376686009234 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 376686009235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009236 Response regulator receiver domain; Region: Response_reg; pfam00072 376686009237 active site 376686009238 phosphorylation site [posttranslational modification] 376686009239 intermolecular recognition site; other site 376686009240 dimerization interface [polypeptide binding]; other site 376686009241 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 376686009242 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 376686009243 active site 376686009244 DNA binding site [nucleotide binding] 376686009245 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 376686009246 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 376686009247 active site 376686009248 PHP Thumb interface [polypeptide binding]; other site 376686009249 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 376686009250 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 376686009251 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 376686009252 ATP binding site [chemical binding]; other site 376686009253 putative Mg++ binding site [ion binding]; other site 376686009254 helicase superfamily c-terminal domain; Region: HELICc; smart00490 376686009255 nucleotide binding region [chemical binding]; other site 376686009256 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 376686009257 dimer interface [polypeptide binding]; other site 376686009258 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 376686009259 ssDNA binding site [nucleotide binding]; other site 376686009260 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686009261 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 376686009262 PcfK-like protein; Region: PcfK; pfam14058 376686009263 PcfJ-like protein; Region: PcfJ; pfam14284 376686009264 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 376686009265 MPN+ (JAMM) motif; other site 376686009266 Zinc-binding site [ion binding]; other site 376686009267 Helix-turn-helix domain; Region: HTH_17; pfam12728 376686009268 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 376686009269 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 376686009270 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 376686009271 Int/Topo IB signature motif; other site 376686009272 Helix-turn-helix domain; Region: HTH_17; pfam12728 376686009273 Helix-turn-helix domain; Region: HTH_17; pfam12728 376686009274 Competence protein CoiA-like family; Region: CoiA; cl11541 376686009275 PLD-like domain; Region: PLDc_2; pfam13091 376686009276 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 376686009277 putative active site [active] 376686009278 catalytic site [active] 376686009279 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 376686009280 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 376686009281 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 376686009282 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 376686009283 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 376686009284 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 376686009285 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686009286 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 376686009287 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 376686009288 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 376686009289 active site 376686009290 DNA binding site [nucleotide binding] 376686009291 Int/Topo IB signature motif; other site 376686009292 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 376686009293 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 376686009294 active site 376686009295 DNA binding site [nucleotide binding] 376686009296 Int/Topo IB signature motif; other site 376686009297 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 376686009298 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 376686009299 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 376686009300 non-specific DNA binding site [nucleotide binding]; other site 376686009301 salt bridge; other site 376686009302 sequence-specific DNA binding site [nucleotide binding]; other site 376686009303 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 376686009304 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686009305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 376686009306 AAA domain; Region: AAA_33; pfam13671 376686009307 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 376686009308 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 376686009309 active site 376686009310 catalytic residues [active] 376686009311 DNA binding site [nucleotide binding] 376686009312 Int/Topo IB signature motif; other site 376686009313 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 376686009314 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 376686009315 active site 376686009316 DNA binding site [nucleotide binding] 376686009317 Int/Topo IB signature motif; other site 376686009318 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 376686009319 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686009320 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 376686009321 non-specific DNA binding site [nucleotide binding]; other site 376686009322 salt bridge; other site 376686009323 sequence-specific DNA binding site [nucleotide binding]; other site 376686009324 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 376686009325 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 376686009326 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 376686009327 AAA domain; Region: AAA_21; pfam13304 376686009328 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 376686009329 putative active site [active] 376686009330 putative metal-binding site [ion binding]; other site 376686009331 Part of AAA domain; Region: AAA_19; pfam13245 376686009332 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 376686009333 Archaeal adenylate kinase [Nucleotide transport and metabolism]; Region: AdkA; cl17890 376686009334 Uncharacterized conserved protein [Function unknown]; Region: COG4933 376686009335 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 376686009336 MPN+ (JAMM) motif; other site 376686009337 Zinc-binding site [ion binding]; other site 376686009338 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686009339 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 376686009340 active site 376686009341 NTP binding site [chemical binding]; other site 376686009342 metal binding triad [ion binding]; metal-binding site 376686009343 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 376686009344 active site 376686009345 ATP binding site [chemical binding]; other site 376686009346 substrate binding site [chemical binding]; other site 376686009347 activation loop (A-loop); other site 376686009348 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 376686009349 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686009350 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 376686009351 active site 376686009352 catalytic residues [active] 376686009353 DNA binding site [nucleotide binding] 376686009354 Int/Topo IB signature motif; other site 376686009355 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 376686009356 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 376686009357 active site 376686009358 DNA binding site [nucleotide binding] 376686009359 Int/Topo IB signature motif; other site 376686009360 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 376686009361 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686009362 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 376686009363 non-specific DNA binding site [nucleotide binding]; other site 376686009364 salt bridge; other site 376686009365 sequence-specific DNA binding site [nucleotide binding]; other site 376686009366 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 376686009367 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 376686009368 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 376686009369 TPR repeat; Region: TPR_11; pfam13414 376686009370 binding surface 376686009371 TPR motif; other site 376686009372 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 376686009373 TPR motif; other site 376686009374 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686009375 binding surface 376686009376 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 376686009377 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 376686009378 Competence protein CoiA-like family; Region: CoiA; cl11541 376686009379 HerA helicase [Replication, recombination, and repair]; Region: COG0433 376686009380 Domain of unknown function DUF87; Region: DUF87; pfam01935 376686009381 HerA helicase [Replication, recombination, and repair]; Region: COG0433 376686009382 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 376686009383 Nuclease-related domain; Region: NERD; pfam08378 376686009384 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 376686009385 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 376686009386 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 376686009387 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 376686009388 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686009389 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 376686009390 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 376686009391 active site 376686009392 DNA binding site [nucleotide binding] 376686009393 Int/Topo IB signature motif; other site 376686009394 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686009395 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 376686009396 active site 376686009397 DNA binding site [nucleotide binding] 376686009398 Int/Topo IB signature motif; other site 376686009399 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 376686009400 active site 376686009401 DNA binding site [nucleotide binding] 376686009402 Int/Topo IB signature motif; other site 376686009403 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 376686009404 Predicted ATPase [General function prediction only]; Region: COG4637 376686009405 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686009406 Walker A/P-loop; other site 376686009407 ATP binding site [chemical binding]; other site 376686009408 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686009409 ABC transporter signature motif; other site 376686009410 Walker B; other site 376686009411 D-loop; other site 376686009412 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 376686009413 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 376686009414 active site 376686009415 catalytic residues [active] 376686009416 DNA binding site [nucleotide binding] 376686009417 Int/Topo IB signature motif; other site 376686009418 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686009419 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 376686009420 active site 376686009421 DNA binding site [nucleotide binding] 376686009422 Int/Topo IB signature motif; other site 376686009423 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 376686009424 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 376686009425 non-specific DNA binding site [nucleotide binding]; other site 376686009426 salt bridge; other site 376686009427 sequence-specific DNA binding site [nucleotide binding]; other site 376686009428 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 376686009429 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 376686009430 putative active site [active] 376686009431 putative NTP binding site [chemical binding]; other site 376686009432 putative nucleic acid binding site [nucleotide binding]; other site 376686009433 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 376686009434 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686009435 RHS Repeat; Region: RHS_repeat; pfam05593 376686009436 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686009437 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686009438 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 376686009439 ligand binding site [chemical binding]; other site 376686009440 flexible hinge region; other site 376686009441 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 376686009442 Uncharacterized conserved protein [Function unknown]; Region: COG2128 376686009443 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 376686009444 homotrimer interaction site [polypeptide binding]; other site 376686009445 putative active site [active] 376686009446 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 376686009447 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 376686009448 TAP-like protein; Region: Abhydrolase_4; pfam08386 376686009449 Cupin domain; Region: Cupin_2; pfam07883 376686009450 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 376686009451 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 376686009452 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 376686009453 active site 376686009454 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686009455 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009456 Response regulator receiver domain; Region: Response_reg; pfam00072 376686009457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009458 active site 376686009459 phosphorylation site [posttranslational modification] 376686009460 intermolecular recognition site; other site 376686009461 dimerization interface [polypeptide binding]; other site 376686009462 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 376686009463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009464 NAD(P) binding site [chemical binding]; other site 376686009465 active site 376686009466 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 376686009467 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 376686009468 classical (c) SDRs; Region: SDR_c; cd05233 376686009469 NAD(P) binding site [chemical binding]; other site 376686009470 active site 376686009471 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 376686009472 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 376686009473 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 376686009474 dimer interface [polypeptide binding]; other site 376686009475 phosphorylation site [posttranslational modification] 376686009476 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 376686009477 ATP binding site [chemical binding]; other site 376686009478 Mg2+ binding site [ion binding]; other site 376686009479 G-X-G motif; other site 376686009480 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686009481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009482 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 376686009483 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 376686009484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009485 NAD(P) binding site [chemical binding]; other site 376686009486 active site 376686009487 oxidoreductase; Provisional; Region: PRK06196 376686009488 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 376686009489 putative NAD(P) binding site [chemical binding]; other site 376686009490 active site 376686009491 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686009492 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 376686009493 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 376686009494 putative dimer interface [polypeptide binding]; other site 376686009495 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 376686009496 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 376686009497 tRNA; other site 376686009498 putative tRNA binding site [nucleotide binding]; other site 376686009499 putative NADP binding site [chemical binding]; other site 376686009500 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 376686009501 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 376686009502 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 376686009503 ApbE family; Region: ApbE; pfam02424 376686009504 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 376686009505 YWFCY protein; Region: YWFCY; pfam14293 376686009506 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 376686009507 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 376686009508 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 376686009509 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 376686009510 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 376686009511 MPN+ (JAMM) motif; other site 376686009512 Zinc-binding site [ion binding]; other site 376686009513 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009515 active site 376686009516 phosphorylation site [posttranslational modification] 376686009517 intermolecular recognition site; other site 376686009518 dimerization interface [polypeptide binding]; other site 376686009519 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 376686009520 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 376686009521 active site 376686009522 DNA binding site [nucleotide binding] 376686009523 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 376686009524 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 376686009525 active site 376686009526 PHP Thumb interface [polypeptide binding]; other site 376686009527 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 376686009528 DNA polymerase III subunit alpha; Reviewed; Region: PRK07373 376686009529 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 376686009530 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 376686009531 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 376686009532 Part of AAA domain; Region: AAA_19; pfam13245 376686009533 Family description; Region: UvrD_C_2; pfam13538 376686009534 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 376686009535 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 376686009536 generic binding surface II; other site 376686009537 generic binding surface I; other site 376686009538 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 376686009539 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686009540 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 376686009541 Transposase; Region: HTH_Tnp_1; cl17663 376686009542 putative transposase OrfB; Reviewed; Region: PHA02517 376686009543 HTH-like domain; Region: HTH_21; pfam13276 376686009544 Integrase core domain; Region: rve; pfam00665 376686009545 Integrase core domain; Region: rve_3; cl15866 376686009546 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 376686009547 Transposase; Region: HTH_Tnp_1; cl17663 376686009548 HTH-like domain; Region: HTH_21; pfam13276 376686009549 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 376686009550 classical (c) SDRs; Region: SDR_c; cd05233 376686009551 NAD(P) binding site [chemical binding]; other site 376686009552 active site 376686009553 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 376686009554 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 376686009555 Predicted integral membrane protein [Function unknown]; Region: COG5637 376686009556 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 376686009557 putative hydrophobic ligand binding site [chemical binding]; other site 376686009558 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 376686009559 Uncharacterized subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u3; cd12832 376686009560 oligomer interface [polypeptide binding]; other site 376686009561 metal binding site [ion binding]; metal-binding site 376686009562 putative Cl binding site [ion binding]; other site 376686009563 basic sphincter; other site 376686009564 hydrophobic gate; other site 376686009565 periplasmic entrance; other site 376686009566 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009567 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009568 active site 376686009569 phosphorylation site [posttranslational modification] 376686009570 intermolecular recognition site; other site 376686009571 dimerization interface [polypeptide binding]; other site 376686009572 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009573 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009574 active site 376686009575 phosphorylation site [posttranslational modification] 376686009576 intermolecular recognition site; other site 376686009577 PAS domain S-box; Region: sensory_box; TIGR00229 376686009578 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 376686009579 putative active site [active] 376686009580 heme pocket [chemical binding]; other site 376686009581 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 376686009582 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 376686009583 putative active site [active] 376686009584 heme pocket [chemical binding]; other site 376686009585 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 376686009586 putative active site [active] 376686009587 heme pocket [chemical binding]; other site 376686009588 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 376686009589 dimer interface [polypeptide binding]; other site 376686009590 phosphorylation site [posttranslational modification] 376686009591 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 376686009592 ATP binding site [chemical binding]; other site 376686009593 Mg2+ binding site [ion binding]; other site 376686009594 G-X-G motif; other site 376686009595 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686009596 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 376686009597 Putative esterase; Region: Esterase; pfam00756 376686009598 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; cl02915 376686009599 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686009600 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686009601 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 376686009602 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686009603 catalytic residues [active] 376686009604 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 376686009605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009606 NAD(P) binding site [chemical binding]; other site 376686009607 active site 376686009608 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 376686009609 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 376686009610 GtrA-like protein; Region: GtrA; pfam04138 376686009611 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686009612 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 376686009613 active site 376686009614 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686009615 Secretin and TonB N terminus short domain; Region: STN; pfam07660 376686009616 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009617 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686009618 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686009619 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686009620 FecR protein; Region: FecR; pfam04773 376686009621 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686009622 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686009623 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 376686009624 DNA binding residues [nucleotide binding] 376686009625 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686009626 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 376686009627 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 376686009628 Methyltransferase domain; Region: Methyltransf_31; pfam13847 376686009629 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 376686009630 S-adenosylmethionine binding site [chemical binding]; other site 376686009631 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 376686009632 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 376686009633 malonyl-CoA binding site [chemical binding]; other site 376686009634 dimer interface [polypeptide binding]; other site 376686009635 active site 376686009636 product binding site; other site 376686009637 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 376686009638 active site 2 [active] 376686009639 active site 1 [active] 376686009640 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 376686009641 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 376686009642 dimer interface [polypeptide binding]; other site 376686009643 active site 376686009644 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686009645 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 376686009646 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 376686009647 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686009648 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 376686009649 ligand binding site [chemical binding]; other site 376686009650 flexible hinge region; other site 376686009651 SnoaL-like domain; Region: SnoaL_2; pfam12680 376686009652 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686009653 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686009654 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686009655 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686009656 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009657 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009658 active site 376686009659 phosphorylation site [posttranslational modification] 376686009660 intermolecular recognition site; other site 376686009661 dimerization interface [polypeptide binding]; other site 376686009662 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 376686009663 GAF domain; Region: GAF; pfam01590 376686009664 Phytochrome region; Region: PHY; pfam00360 376686009665 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 376686009666 phosphorylation site [posttranslational modification] 376686009667 dimer interface [polypeptide binding]; other site 376686009668 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 376686009669 ATP binding site [chemical binding]; other site 376686009670 Mg2+ binding site [ion binding]; other site 376686009671 G-X-G motif; other site 376686009672 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009674 intermolecular recognition site; other site 376686009675 active site 376686009676 dimerization interface [polypeptide binding]; other site 376686009677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009678 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009679 active site 376686009680 phosphorylation site [posttranslational modification] 376686009681 intermolecular recognition site; other site 376686009682 dimerization interface [polypeptide binding]; other site 376686009683 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 376686009684 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 376686009685 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 376686009686 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 376686009687 dimer interface [polypeptide binding]; other site 376686009688 phosphorylation site [posttranslational modification] 376686009689 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 376686009690 ATP binding site [chemical binding]; other site 376686009691 Mg2+ binding site [ion binding]; other site 376686009692 G-X-G motif; other site 376686009693 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009694 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009695 active site 376686009696 phosphorylation site [posttranslational modification] 376686009697 intermolecular recognition site; other site 376686009698 dimerization interface [polypeptide binding]; other site 376686009699 short chain dehydrogenase; Provisional; Region: PRK07326 376686009700 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009701 NAD(P) binding site [chemical binding]; other site 376686009702 active site 376686009703 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686009704 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 376686009705 ligand binding site [chemical binding]; other site 376686009706 flexible hinge region; other site 376686009707 short chain dehydrogenase; Provisional; Region: PRK12828 376686009708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009709 NAD(P) binding site [chemical binding]; other site 376686009710 active site 376686009711 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 376686009712 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 376686009713 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 376686009714 Ligand Binding Site [chemical binding]; other site 376686009715 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 376686009716 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 376686009717 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 376686009718 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 376686009719 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 376686009720 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 376686009721 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 376686009722 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 376686009723 dimer interface [polypeptide binding]; other site 376686009724 PYR/PP interface [polypeptide binding]; other site 376686009725 TPP binding site [chemical binding]; other site 376686009726 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 376686009727 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 376686009728 TPP-binding site [chemical binding]; other site 376686009729 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 376686009730 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 376686009731 putative DNA binding site [nucleotide binding]; other site 376686009732 putative Zn2+ binding site [ion binding]; other site 376686009733 AsnC family; Region: AsnC_trans_reg; pfam01037 376686009734 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 376686009735 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 376686009736 methionine synthase; Provisional; Region: PRK01207 376686009737 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 376686009738 substrate binding site [chemical binding]; other site 376686009739 THF binding site; other site 376686009740 zinc-binding site [ion binding]; other site 376686009741 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 376686009742 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686009743 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686009744 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686009745 putative substrate translocation pore; other site 376686009746 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686009747 Active site serine [active] 376686009748 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 376686009749 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686009750 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009751 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 376686009752 ACT domain; Region: ACT_5; pfam13710 376686009753 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 376686009754 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686009755 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686009756 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 376686009757 classical (c) SDRs; Region: SDR_c; cd05233 376686009758 NAD(P) binding site [chemical binding]; other site 376686009759 active site 376686009760 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686009761 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686009762 short chain dehydrogenase; Provisional; Region: PRK06523 376686009763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009764 NAD(P) binding site [chemical binding]; other site 376686009765 active site 376686009766 polyphosphate kinase; Provisional; Region: PRK05443 376686009767 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 376686009768 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 376686009769 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 376686009770 domain interface [polypeptide binding]; other site 376686009771 active site 376686009772 catalytic site [active] 376686009773 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 376686009774 domain interface [polypeptide binding]; other site 376686009775 active site 376686009776 catalytic site [active] 376686009777 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686009778 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 376686009779 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 376686009780 Catalytic dyad [active] 376686009781 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686009782 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686009783 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 376686009784 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 376686009785 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 376686009786 FecR protein; Region: FecR; pfam04773 376686009787 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 376686009788 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686009789 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686009790 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 376686009791 DNA binding residues [nucleotide binding] 376686009792 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 376686009793 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686009794 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686009795 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 376686009796 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686009797 Two component regulator propeller; Region: Reg_prop; pfam07494 376686009798 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686009799 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686009800 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 376686009801 dimer interface [polypeptide binding]; other site 376686009802 phosphorylation site [posttranslational modification] 376686009803 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 376686009804 ATP binding site [chemical binding]; other site 376686009805 Mg2+ binding site [ion binding]; other site 376686009806 G-X-G motif; other site 376686009807 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009809 active site 376686009810 phosphorylation site [posttranslational modification] 376686009811 intermolecular recognition site; other site 376686009812 dimerization interface [polypeptide binding]; other site 376686009813 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686009814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009815 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009816 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686009817 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686009818 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 376686009819 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686009820 starch binding outer membrane protein SusD; Region: SusD; cl17845 376686009821 SusD family; Region: SusD; pfam07980 376686009822 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 376686009823 Interdomain contacts; other site 376686009824 Cytokine receptor motif; other site 376686009825 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 376686009826 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 376686009827 active site 376686009828 catalytic residues [active] 376686009829 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 376686009830 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 376686009831 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 376686009832 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686009833 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686009834 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009835 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686009836 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686009837 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686009838 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686009839 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686009840 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686009841 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 376686009842 dimer interface [polypeptide binding]; other site 376686009843 phosphorylation site [posttranslational modification] 376686009844 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 376686009845 ATP binding site [chemical binding]; other site 376686009846 Mg2+ binding site [ion binding]; other site 376686009847 G-X-G motif; other site 376686009848 Response regulator receiver domain; Region: Response_reg; pfam00072 376686009849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009850 active site 376686009851 phosphorylation site [posttranslational modification] 376686009852 intermolecular recognition site; other site 376686009853 dimerization interface [polypeptide binding]; other site 376686009854 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686009855 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009856 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686009857 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686009858 PA14 domain; Region: PA14; cl08459 376686009859 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 376686009860 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 376686009861 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 376686009862 active site 376686009863 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 376686009864 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 376686009865 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 376686009866 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686009867 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 376686009868 Putative esterase; Region: Esterase; pfam00756 376686009869 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 376686009870 active site 376686009871 catalytic triad [active] 376686009872 oxyanion hole [active] 376686009873 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 376686009874 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 376686009875 inhibitor binding site; inhibition site 376686009876 active site 376686009877 starch binding outer membrane protein SusD; Region: SusD; cl17845 376686009878 SusD family; Region: SusD; pfam07980 376686009879 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009880 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686009881 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686009882 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686009883 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 376686009884 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686009885 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 376686009886 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 376686009887 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009889 active site 376686009890 phosphorylation site [posttranslational modification] 376686009891 intermolecular recognition site; other site 376686009892 dimerization interface [polypeptide binding]; other site 376686009893 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl17581 376686009894 putative proton transfer pathway, P2; other site 376686009895 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 376686009896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009897 NAD(P) binding site [chemical binding]; other site 376686009898 active site 376686009899 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 376686009900 LytTr DNA-binding domain; Region: LytTR; smart00850 376686009901 Haem-binding domain; Region: Haem_bd; pfam14376 376686009902 oxidoreductase; Provisional; Region: PRK06196 376686009903 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 376686009904 putative NAD(P) binding site [chemical binding]; other site 376686009905 active site 376686009906 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686009907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009908 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686009909 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009910 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 376686009911 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 376686009912 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 376686009913 dimer interface [polypeptide binding]; other site 376686009914 active site 376686009915 heme binding site [chemical binding]; other site 376686009916 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 376686009917 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686009918 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 376686009919 N-terminal plug; other site 376686009920 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686009921 ligand-binding site [chemical binding]; other site 376686009922 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 376686009923 dimerization interface [polypeptide binding]; other site 376686009924 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 376686009925 ATP binding site [chemical binding]; other site 376686009926 HupF/HypC family; Region: HupF_HypC; pfam01455 376686009927 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 376686009928 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 376686009929 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 376686009930 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 376686009931 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 376686009932 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 376686009933 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 376686009934 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 376686009935 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 376686009936 putative substrate-binding site; other site 376686009937 nickel binding site [ion binding]; other site 376686009938 Acylphosphatase; Region: Acylphosphatase; pfam00708 376686009939 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 376686009940 HypF finger; Region: zf-HYPF; pfam07503 376686009941 HypF finger; Region: zf-HYPF; pfam07503 376686009942 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 376686009943 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 376686009944 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 376686009945 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 376686009946 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 376686009947 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 376686009948 High-affinity nickel-transport protein; Region: NicO; cl00964 376686009949 gag-polyprotein putative aspartyl protease; Region: gag-asp_proteas; pfam13975 376686009950 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 376686009951 MgtC family; Region: MgtC; pfam02308 376686009952 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 376686009953 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 376686009954 putative active site [active] 376686009955 putative metal binding site [ion binding]; other site 376686009956 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686009957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009958 active site 376686009959 phosphorylation site [posttranslational modification] 376686009960 intermolecular recognition site; other site 376686009961 dimerization interface [polypeptide binding]; other site 376686009962 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 376686009963 DNA binding site [nucleotide binding] 376686009964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686009965 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 376686009966 dimerization interface [polypeptide binding]; other site 376686009967 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 376686009968 dimer interface [polypeptide binding]; other site 376686009969 phosphorylation site [posttranslational modification] 376686009970 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 376686009971 ATP binding site [chemical binding]; other site 376686009972 Mg2+ binding site [ion binding]; other site 376686009973 G-X-G motif; other site 376686009974 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686009975 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686009976 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 376686009977 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686009978 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 376686009979 DXD motif; other site 376686009980 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 376686009981 TPR motif; other site 376686009982 binding surface 376686009983 Response regulator receiver domain; Region: Response_reg; pfam00072 376686009984 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686009985 active site 376686009986 phosphorylation site [posttranslational modification] 376686009987 intermolecular recognition site; other site 376686009988 dimerization interface [polypeptide binding]; other site 376686009989 GAF domain; Region: GAF; pfam01590 376686009990 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 376686009991 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 376686009992 dimer interface [polypeptide binding]; other site 376686009993 phosphorylation site [posttranslational modification] 376686009994 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 376686009995 ATP binding site [chemical binding]; other site 376686009996 Mg2+ binding site [ion binding]; other site 376686009997 G-X-G motif; other site 376686009998 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009999 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686010000 active site 376686010001 phosphorylation site [posttranslational modification] 376686010002 intermolecular recognition site; other site 376686010003 dimerization interface [polypeptide binding]; other site 376686010004 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 376686010005 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010006 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010007 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 376686010008 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686010009 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 376686010010 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686010011 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 376686010012 Outer membrane efflux protein; Region: OEP; pfam02321 376686010013 Outer membrane efflux protein; Region: OEP; pfam02321 376686010014 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 376686010015 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 376686010016 GAF domain; Region: GAF; pfam01590 376686010017 Phytochrome region; Region: PHY; pfam00360 376686010018 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 376686010019 ATP binding site [chemical binding]; other site 376686010020 Mg2+ binding site [ion binding]; other site 376686010021 G-X-G motif; other site 376686010022 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 376686010023 heme binding pocket [chemical binding]; other site 376686010024 heme ligand [chemical binding]; other site 376686010025 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 376686010026 NADH(P)-binding; Region: NAD_binding_10; pfam13460 376686010027 NAD binding site [chemical binding]; other site 376686010028 active site 376686010029 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 376686010030 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 376686010031 S-adenosylmethionine binding site [chemical binding]; other site 376686010032 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686010033 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 376686010034 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686010035 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686010036 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 376686010037 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686010038 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 376686010039 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686010040 catalytic residues [active] 376686010041 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686010042 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010043 Secretin and TonB N terminus short domain; Region: STN; pfam07660 376686010044 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010045 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010046 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686010047 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686010048 FecR protein; Region: FecR; pfam04773 376686010049 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 376686010050 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686010051 Tetratricopeptide repeat; Region: TPR_16; pfam13432 376686010052 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686010053 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686010054 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686010055 ligand binding site [chemical binding]; other site 376686010056 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 376686010057 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 376686010058 Domain of unknown function DUF11; Region: DUF11; pfam01345 376686010059 conserved repeat domain; Region: B_ant_repeat; TIGR01451 376686010060 VCBS repeat; Region: VCBS_repeat; TIGR01965 376686010061 VCBS repeat; Region: VCBS_repeat; TIGR01965 376686010062 VCBS repeat; Region: VCBS_repeat; TIGR01965 376686010063 VCBS repeat; Region: VCBS_repeat; TIGR01965 376686010064 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 376686010065 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686010066 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686010067 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 376686010068 ligand binding site [chemical binding]; other site 376686010069 flexible hinge region; other site 376686010070 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 376686010071 homotrimer interaction site [polypeptide binding]; other site 376686010072 putative active site [active] 376686010073 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686010074 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686010075 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 376686010076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010077 NAD(P) binding site [chemical binding]; other site 376686010078 active site 376686010079 Outer membrane efflux protein; Region: OEP; pfam02321 376686010080 Outer membrane efflux protein; Region: OEP; pfam02321 376686010081 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686010082 HlyD family secretion protein; Region: HlyD; pfam00529 376686010083 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686010084 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 376686010085 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686010086 Walker A/P-loop; other site 376686010087 ATP binding site [chemical binding]; other site 376686010088 Q-loop/lid; other site 376686010089 ABC transporter signature motif; other site 376686010090 Walker B; other site 376686010091 D-loop; other site 376686010092 H-loop/switch region; other site 376686010093 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686010094 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686010095 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 376686010096 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686010097 putative substrate translocation pore; other site 376686010098 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 376686010099 active site 376686010100 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 376686010101 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 376686010102 putative ADP-binding pocket [chemical binding]; other site 376686010103 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 376686010104 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 376686010105 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686010106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686010107 active site 376686010108 phosphorylation site [posttranslational modification] 376686010109 intermolecular recognition site; other site 376686010110 dimerization interface [polypeptide binding]; other site 376686010111 LytTr DNA-binding domain; Region: LytTR; smart00850 376686010112 Histidine kinase; Region: His_kinase; pfam06580 376686010113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 376686010114 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010115 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686010116 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 376686010117 Domain of unknown function DUF11; Region: DUF11; pfam01345 376686010118 conserved repeat domain; Region: B_ant_repeat; TIGR01451 376686010119 Domain of unknown function DUF11; Region: DUF11; pfam01345 376686010120 conserved repeat domain; Region: B_ant_repeat; TIGR01451 376686010121 conserved repeat domain; Region: B_ant_repeat; TIGR01451 376686010122 Domain of unknown function DUF11; Region: DUF11; pfam01345 376686010123 conserved repeat domain; Region: B_ant_repeat; TIGR01451 376686010124 Domain of unknown function DUF11; Region: DUF11; pfam01345 376686010125 conserved repeat domain; Region: B_ant_repeat; TIGR01451 376686010126 Domain of unknown function DUF11; Region: DUF11; pfam01345 376686010127 conserved repeat domain; Region: B_ant_repeat; TIGR01451 376686010128 Domain of unknown function DUF11; Region: DUF11; cl17728 376686010129 Domain of unknown function DUF11; Region: DUF11; cl17728 376686010130 conserved repeat domain; Region: B_ant_repeat; TIGR01451 376686010131 conserved repeat domain; Region: B_ant_repeat; TIGR01451 376686010132 Domain of unknown function DUF11; Region: DUF11; cl17728 376686010133 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 376686010134 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 376686010135 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686010136 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686010137 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686010138 ligand binding site [chemical binding]; other site 376686010139 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 376686010140 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 376686010141 active site 376686010142 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686010143 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686010144 active site 376686010145 phosphorylation site [posttranslational modification] 376686010146 intermolecular recognition site; other site 376686010147 dimerization interface [polypeptide binding]; other site 376686010148 LytTr DNA-binding domain; Region: LytTR; smart00850 376686010149 Histidine kinase; Region: His_kinase; pfam06580 376686010150 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 376686010151 Mg2+ binding site [ion binding]; other site 376686010152 G-X-G motif; other site 376686010153 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 376686010154 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 376686010155 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 376686010156 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 376686010157 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 376686010158 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 376686010159 dimer interface [polypeptide binding]; other site 376686010160 conserved gate region; other site 376686010161 ABC-ATPase subunit interface; other site 376686010162 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 376686010163 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 376686010164 Walker A/P-loop; other site 376686010165 ATP binding site [chemical binding]; other site 376686010166 Q-loop/lid; other site 376686010167 ABC transporter signature motif; other site 376686010168 Walker B; other site 376686010169 D-loop; other site 376686010170 H-loop/switch region; other site 376686010171 NIL domain; Region: NIL; pfam09383 376686010172 Cupin domain; Region: Cupin_2; pfam07883 376686010173 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 376686010174 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 376686010175 putative NAD(P) binding site [chemical binding]; other site 376686010176 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686010177 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686010178 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 376686010179 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 376686010180 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686010181 catalytic residue [active] 376686010182 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686010183 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 376686010184 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686010185 catalytic residues [active] 376686010186 Nitronate monooxygenase; Region: NMO; pfam03060 376686010187 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 376686010188 FMN binding site [chemical binding]; other site 376686010189 substrate binding site [chemical binding]; other site 376686010190 putative catalytic residue [active] 376686010191 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 376686010192 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 376686010193 classical (c) SDRs; Region: SDR_c; cd05233 376686010194 NAD(P) binding site [chemical binding]; other site 376686010195 active site 376686010196 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 376686010197 active site 1 [active] 376686010198 dimer interface [polypeptide binding]; other site 376686010199 hexamer interface [polypeptide binding]; other site 376686010200 active site 2 [active] 376686010201 YceI-like domain; Region: YceI; pfam04264 376686010202 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686010203 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 376686010204 ligand binding site [chemical binding]; other site 376686010205 flexible hinge region; other site 376686010206 DoxX-like family; Region: DoxX_2; pfam13564 376686010207 short chain dehydrogenase; Provisional; Region: PRK08263 376686010208 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686010209 NADP binding site [chemical binding]; other site 376686010210 active site 376686010211 steroid binding site; other site 376686010212 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 376686010213 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686010214 two-component response regulator; Provisional; Region: PRK14084 376686010215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686010216 active site 376686010217 phosphorylation site [posttranslational modification] 376686010218 intermolecular recognition site; other site 376686010219 dimerization interface [polypeptide binding]; other site 376686010220 LytTr DNA-binding domain; Region: LytTR; smart00850 376686010221 Histidine kinase; Region: His_kinase; pfam06580 376686010222 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 376686010223 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 376686010224 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 376686010225 Cupin domain; Region: Cupin_2; pfam07883 376686010226 short chain dehydrogenase; Provisional; Region: PRK06500 376686010227 classical (c) SDRs; Region: SDR_c; cd05233 376686010228 NAD(P) binding site [chemical binding]; other site 376686010229 active site 376686010230 circadian clock protein KaiC; Reviewed; Region: PRK09302 376686010231 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 376686010232 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 376686010233 Walker A motif; other site 376686010234 Walker A motif; other site 376686010235 ATP binding site [chemical binding]; other site 376686010236 Walker B motif; other site 376686010237 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 376686010238 Walker A motif; other site 376686010239 ATP binding site [chemical binding]; other site 376686010240 Walker B motif; other site 376686010241 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 376686010242 tetramer interface [polypeptide binding]; other site 376686010243 dimer interface [polypeptide binding]; other site 376686010244 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 376686010245 tetramer interface [polypeptide binding]; other site 376686010246 dimer interface [polypeptide binding]; other site 376686010247 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 376686010248 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 376686010249 putative active site [active] 376686010250 heme pocket [chemical binding]; other site 376686010251 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 376686010252 dimer interface [polypeptide binding]; other site 376686010253 phosphorylation site [posttranslational modification] 376686010254 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 376686010255 ATP binding site [chemical binding]; other site 376686010256 Mg2+ binding site [ion binding]; other site 376686010257 G-X-G motif; other site 376686010258 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686010259 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686010260 active site 376686010261 phosphorylation site [posttranslational modification] 376686010262 intermolecular recognition site; other site 376686010263 dimerization interface [polypeptide binding]; other site 376686010264 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 376686010265 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686010266 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 376686010267 catalytic motif [active] 376686010268 Catalytic residue [active] 376686010269 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 376686010270 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 376686010271 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686010272 Transcriptional regulator [Transcription]; Region: LysR; COG0583 376686010273 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 376686010274 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 376686010275 dimerization interface [polypeptide binding]; other site 376686010276 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 376686010277 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 376686010278 FAD binding pocket [chemical binding]; other site 376686010279 FAD binding motif [chemical binding]; other site 376686010280 phosphate binding motif [ion binding]; other site 376686010281 NAD binding pocket [chemical binding]; other site 376686010282 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 376686010283 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 376686010284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686010285 MarR family; Region: MarR_2; pfam12802 376686010286 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 376686010287 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686010288 Coenzyme A binding pocket [chemical binding]; other site 376686010289 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686010290 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686010291 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 376686010292 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686010293 Coenzyme A binding pocket [chemical binding]; other site 376686010294 EamA-like transporter family; Region: EamA; pfam00892 376686010295 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010296 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686010297 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 376686010298 N-terminal plug; other site 376686010299 ligand-binding site [chemical binding]; other site 376686010300 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686010301 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 376686010302 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686010303 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686010304 DNA binding site [nucleotide binding] 376686010305 domain linker motif; other site 376686010306 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686010307 dimerization interface [polypeptide binding]; other site 376686010308 ligand binding site [chemical binding]; other site 376686010309 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 376686010310 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 376686010311 putative substrate binding site [chemical binding]; other site 376686010312 putative ATP binding site [chemical binding]; other site 376686010313 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 376686010314 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686010315 putative substrate translocation pore; other site 376686010316 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 376686010317 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 376686010318 AP (apurinic/apyrimidinic) site pocket; other site 376686010319 DNA interaction; other site 376686010320 Metal-binding active site; metal-binding site 376686010321 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686010322 Phage Tail Collar Domain; Region: Collar; pfam07484 376686010323 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686010324 Phage Tail Collar Domain; Region: Collar; pfam07484 376686010325 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 376686010326 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686010327 Phage Tail Collar Domain; Region: Collar; pfam07484 376686010328 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 376686010329 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 376686010330 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_5; cd08823 376686010331 putative active site [active] 376686010332 putative substrate binding site [chemical binding]; other site 376686010333 putative cosubstrate binding site; other site 376686010334 catalytic site [active] 376686010335 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 376686010336 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686010337 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686010338 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686010339 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686010340 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686010341 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 376686010342 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 376686010343 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 376686010344 ligand binding site [chemical binding]; other site 376686010345 flexible hinge region; other site 376686010346 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 376686010347 putative switch regulator; other site 376686010348 non-specific DNA interactions [nucleotide binding]; other site 376686010349 DNA binding site [nucleotide binding] 376686010350 sequence specific DNA binding site [nucleotide binding]; other site 376686010351 putative cAMP binding site [chemical binding]; other site 376686010352 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 376686010353 heme-binding site [chemical binding]; other site 376686010354 Quinolinate synthetase A protein; Region: NadA; pfam02445 376686010355 L-aspartate oxidase; Provisional; Region: PRK06175 376686010356 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 376686010357 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 376686010358 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 376686010359 Hemerythrin-like domain; Region: Hr-like; cd12108 376686010360 Fe binding site [ion binding]; other site 376686010361 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 376686010362 ATP cone domain; Region: ATP-cone; pfam03477 376686010363 Class III ribonucleotide reductase; Region: RNR_III; cd01675 376686010364 effector binding site; other site 376686010365 active site 376686010366 Zn binding site [ion binding]; other site 376686010367 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 376686010368 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 376686010369 FeS/SAM binding site; other site 376686010370 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 376686010371 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 376686010372 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 376686010373 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 376686010374 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 376686010375 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686010376 ligand binding site [chemical binding]; other site 376686010377 flexible hinge region; other site 376686010378 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 376686010379 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 376686010380 Class I ribonucleotide reductase; Region: RNR_I; cd01679 376686010381 active site 376686010382 dimer interface [polypeptide binding]; other site 376686010383 catalytic residues [active] 376686010384 effector binding site; other site 376686010385 R2 peptide binding site; other site 376686010386 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 376686010387 dimer interface [polypeptide binding]; other site 376686010388 putative radical transfer pathway; other site 376686010389 diiron center [ion binding]; other site 376686010390 tyrosyl radical; other site 376686010391 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 376686010392 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 376686010393 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686010394 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 376686010395 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 376686010396 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686010397 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 376686010398 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686010399 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 376686010400 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 376686010401 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686010402 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 376686010403 Flavodoxin; Region: Flavodoxin_1; pfam00258 376686010404 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 376686010405 FAD binding pocket [chemical binding]; other site 376686010406 conserved FAD binding motif [chemical binding]; other site 376686010407 phosphate binding motif [ion binding]; other site 376686010408 beta-alpha-beta structure motif; other site 376686010409 NAD binding pocket [chemical binding]; other site 376686010410 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 376686010411 ApbE family; Region: ApbE; pfam02424 376686010412 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010413 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686010414 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 376686010415 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 376686010416 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 376686010417 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686010418 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686010419 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686010420 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 376686010421 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686010422 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686010423 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686010424 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 376686010425 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 376686010426 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 376686010427 catalytic site [active] 376686010428 BNR repeat-like domain; Region: BNR_2; pfam13088 376686010429 Asp-box motif; other site 376686010430 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 376686010431 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 376686010432 Protein of unknown function, DUF608; Region: DUF608; pfam04685 376686010433 Trehalase; Region: Trehalase; cl17346 376686010434 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 376686010435 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 376686010436 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686010437 BNR repeat-like domain; Region: BNR_2; pfam13088 376686010438 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686010439 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686010440 active site 376686010441 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 376686010442 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686010443 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 376686010444 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 376686010445 Protein of unknown function (DUF3826); Region: DUF3826; pfam12875 376686010446 Pectate lyase; Region: Pec_lyase_C; cl01593 376686010447 starch binding outer membrane protein SusD; Region: SusD; cl17845 376686010448 SusD family; Region: SusD; pfam07980 376686010449 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010450 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010451 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686010452 putative pectinesterase; Region: PLN02432; cl01911 376686010453 Pectinesterase; Region: Pectinesterase; pfam01095 376686010454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 376686010455 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 376686010456 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686010457 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686010458 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 376686010459 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686010460 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686010461 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686010462 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 376686010463 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686010464 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686010465 active site 376686010466 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686010467 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 376686010468 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 376686010469 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686010470 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686010471 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686010472 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 376686010473 putative substrate translocation pore; other site 376686010474 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 376686010475 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 376686010476 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686010477 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 376686010478 non-specific DNA binding site [nucleotide binding]; other site 376686010479 salt bridge; other site 376686010480 sequence-specific DNA binding site [nucleotide binding]; other site 376686010481 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 376686010482 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 376686010483 putative transporter; Provisional; Region: PRK10484 376686010484 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 376686010485 Na binding site [ion binding]; other site 376686010486 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 376686010487 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 376686010488 Right handed beta helix region; Region: Beta_helix; pfam13229 376686010489 Domain of unknown function (DUF718); Region: DUF718; cl01281 376686010490 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 376686010491 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686010492 Pectic acid lyase; Region: Pec_lyase; pfam09492 376686010493 Amidohydrolase; Region: Amidohydro_2; pfam04909 376686010494 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 376686010495 active site 376686010496 short chain dehydrogenase; Provisional; Region: PRK08628 376686010497 classical (c) SDRs; Region: SDR_c; cd05233 376686010498 NAD(P) binding site [chemical binding]; other site 376686010499 active site 376686010500 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 376686010501 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 376686010502 putative NAD(P) binding site [chemical binding]; other site 376686010503 catalytic Zn binding site [ion binding]; other site 376686010504 structural Zn binding site [ion binding]; other site 376686010505 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 376686010506 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 376686010507 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 376686010508 classical (c) SDRs; Region: SDR_c; cd05233 376686010509 NAD(P) binding site [chemical binding]; other site 376686010510 active site 376686010511 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 376686010512 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 376686010513 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 376686010514 CoA-transferase family III; Region: CoA_transf_3; pfam02515 376686010515 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 376686010516 CoA-transferase family III; Region: CoA_transf_3; pfam02515 376686010517 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 376686010518 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 376686010519 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 376686010520 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 376686010521 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 376686010522 active site 2 [active] 376686010523 active site 1 [active] 376686010524 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 376686010525 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686010526 putative substrate translocation pore; other site 376686010527 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 376686010528 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686010529 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686010530 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 376686010531 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686010532 Histidine kinase; Region: His_kinase; pfam06580 376686010533 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 376686010534 ATP binding site [chemical binding]; other site 376686010535 Mg2+ binding site [ion binding]; other site 376686010536 G-X-G motif; other site 376686010537 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686010538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686010539 active site 376686010540 phosphorylation site [posttranslational modification] 376686010541 intermolecular recognition site; other site 376686010542 dimerization interface [polypeptide binding]; other site 376686010543 LytTr DNA-binding domain; Region: LytTR; smart00850 376686010544 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 376686010545 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686010546 active site 376686010547 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 376686010548 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 376686010549 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686010550 DNA-binding site [nucleotide binding]; DNA binding site 376686010551 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 376686010552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686010553 homodimer interface [polypeptide binding]; other site 376686010554 catalytic residue [active] 376686010555 Transcriptional regulators [Transcription]; Region: MarR; COG1846 376686010556 MarR family; Region: MarR_2; pfam12802 376686010557 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 376686010558 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 376686010559 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 376686010560 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686010561 catalytic residue [active] 376686010562 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 376686010563 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 376686010564 Walker A motif; other site 376686010565 ATP binding site [chemical binding]; other site 376686010566 Walker B motif; other site 376686010567 arginine finger; other site 376686010568 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 376686010569 putative catalytic residue [active] 376686010570 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686010571 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686010572 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 376686010573 catalytic residues [active] 376686010574 DKNYY family; Region: DKNYY; pfam13644 376686010575 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 376686010576 Transposase IS200 like; Region: Y1_Tnp; pfam01797 376686010577 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 376686010578 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 376686010579 Predicted transcriptional regulators [Transcription]; Region: COG1733 376686010580 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 376686010581 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 376686010582 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 376686010583 catalytic residues [active] 376686010584 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 376686010585 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 376686010586 Competence-damaged protein; Region: CinA; pfam02464 376686010587 PrgI family protein; Region: PrgI; pfam12666 376686010588 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 376686010589 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 376686010590 D-arabinose dehydrogenase; Region: arabinose_DH_like; cd05284 376686010591 NAD binding site [chemical binding]; other site 376686010592 substrate binding site [chemical binding]; other site 376686010593 catalytic Zn binding site [ion binding]; other site 376686010594 structural Zn binding site [ion binding]; other site 376686010595 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686010596 starch binding outer membrane protein SusD; Region: SusD; cl17845 376686010597 SusD family; Region: SusD; pfam07980 376686010598 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010599 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010600 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 376686010601 FecR protein; Region: FecR; pfam04773 376686010602 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686010603 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 376686010604 DNA binding residues [nucleotide binding] 376686010605 Catalytic domain of Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1-like proteins; Region: PI-PLCc_SaPLC1_like; cd08589 376686010606 putative active site [active] 376686010607 catalytic site [active] 376686010608 putative metal binding site [ion binding]; other site 376686010609 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 376686010610 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686010611 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686010612 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 376686010613 Beta/Gamma crystallin; Region: Crystall; cl02528 376686010614 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 376686010615 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 376686010616 putative sugar binding sites [chemical binding]; other site 376686010617 Q-X-W motif; other site 376686010618 Carbohydrate Binding Module 6 (CBM6); appended to glycoside hydrolase (GH) domains, including GH5 (cellulase); Region: CBM6_cellulase-like; cd04080 376686010619 Ca binding site [ion binding]; other site 376686010620 ligand binding site I [chemical binding]; other site 376686010621 homodimer interface [polypeptide binding]; other site 376686010622 ligand binding site II [chemical binding]; other site 376686010623 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686010624 Glyco_18 domain; Region: Glyco_18; smart00636 376686010625 The Bacteroides thetaiotaomicron protein represented by pdb structure 3CO4 is an uncharacterized bacterial member of the family 18 glycosyl hydrolases with homologs found in Flavobacterium, Stigmatella, and Pseudomonas; Region: GH18_3CO4_chitinase; cd06545 376686010626 putative active site [active] 376686010627 Carbohydrate Binding Module 6 (CBM6); appended to glycoside hydrolase (GH) domains, including GH5 (cellulase); Region: CBM6_cellulase-like; cd04080 376686010628 Ca binding site [ion binding]; other site 376686010629 ligand binding site I [chemical binding]; other site 376686010630 homodimer interface [polypeptide binding]; other site 376686010631 ligand binding site II [chemical binding]; other site 376686010632 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686010633 glycosyl hydrolase 64 family; Region: GH64-like; cd09214 376686010634 substrate binding pocket [chemical binding]; other site 376686010635 catalytic residues [active] 376686010636 Beta/Gamma crystallin; Region: Crystall; cl02528 376686010637 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 376686010638 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 376686010639 putative sugar binding sites [chemical binding]; other site 376686010640 Q-X-W motif; other site 376686010641 Carbohydrate Binding Module 6 (CBM6); appended to glycoside hydrolase (GH) domains, including GH5 (cellulase); Region: CBM6_cellulase-like; cd04080 376686010642 Ca binding site [ion binding]; other site 376686010643 ligand binding site I [chemical binding]; other site 376686010644 homodimer interface [polypeptide binding]; other site 376686010645 ligand binding site II [chemical binding]; other site 376686010646 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686010647 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 376686010648 active site 376686010649 catalytic residues [active] 376686010650 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 376686010651 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 376686010652 sugar binding site [chemical binding]; other site 376686010653 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686010654 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686010655 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686010656 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 376686010657 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 376686010658 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 376686010659 TAP-like protein; Region: Abhydrolase_4; pfam08386 376686010660 Predicted acetyltransferase [General function prediction only]; Region: COG2388 376686010661 putative hydrolase; Provisional; Region: PRK11460 376686010662 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 376686010663 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 376686010664 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686010665 Zn binding site [ion binding]; other site 376686010666 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 376686010667 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686010668 Zn binding site [ion binding]; other site 376686010669 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 376686010670 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 376686010671 motif II; other site 376686010672 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_5; cd04662 376686010673 nudix motif; other site 376686010674 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686010675 DNA binding site [nucleotide binding] 376686010676 domain linker motif; other site 376686010677 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 376686010678 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 376686010679 ligand binding site [chemical binding]; other site 376686010680 Domain of unknown function (DUF386); Region: DUF386; cl01047 376686010681 D-mannonate oxidoreductase; Provisional; Region: PRK08277 376686010682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010683 NAD(P) binding site [chemical binding]; other site 376686010684 active site 376686010685 mannonate dehydratase; Provisional; Region: PRK03906 376686010686 mannonate dehydratase; Region: uxuA; TIGR00695 376686010687 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686010688 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686010689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686010690 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 376686010691 dimer interface [polypeptide binding]; other site 376686010692 phosphorylation site [posttranslational modification] 376686010693 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 376686010694 ATP binding site [chemical binding]; other site 376686010695 Mg2+ binding site [ion binding]; other site 376686010696 G-X-G motif; other site 376686010697 Response regulator receiver domain; Region: Response_reg; pfam00072 376686010698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686010699 active site 376686010700 phosphorylation site [posttranslational modification] 376686010701 intermolecular recognition site; other site 376686010702 dimerization interface [polypeptide binding]; other site 376686010703 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686010704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686010705 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010706 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010707 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 376686010708 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686010709 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010710 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 376686010711 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686010712 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686010713 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686010714 beta-D-glucuronidase; Provisional; Region: PRK10150 376686010715 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686010716 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686010717 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686010718 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 376686010719 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 376686010720 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 376686010721 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 376686010722 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 376686010723 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 376686010724 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 376686010725 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 376686010726 catalytic loop [active] 376686010727 iron binding site [ion binding]; other site 376686010728 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 376686010729 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 376686010730 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 376686010731 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686010732 catalytic residue [active] 376686010733 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 376686010734 Ligand binding site; other site 376686010735 metal-binding site 376686010736 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 376686010737 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 376686010738 XdhC Rossmann domain; Region: XdhC_C; pfam13478 376686010739 NlpE N-terminal domain; Region: NlpE; pfam04170 376686010740 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 376686010741 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 376686010742 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686010743 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 376686010744 non-specific DNA binding site [nucleotide binding]; other site 376686010745 salt bridge; other site 376686010746 sequence-specific DNA binding site [nucleotide binding]; other site 376686010747 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 376686010748 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 376686010749 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 376686010750 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 376686010751 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 376686010752 Cysteine-rich domain; Region: CCG; pfam02754 376686010753 Cysteine-rich domain; Region: CCG; pfam02754 376686010754 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 376686010755 N- and C-terminal domain interface [polypeptide binding]; other site 376686010756 putative active site [active] 376686010757 putative MgATP binding site [chemical binding]; other site 376686010758 putative catalytic site [active] 376686010759 metal binding site [ion binding]; metal-binding site 376686010760 putative carbohydrate binding site [chemical binding]; other site 376686010761 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 376686010762 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 376686010763 short chain dehydrogenase; Validated; Region: PRK08324 376686010764 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 376686010765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010766 NAD(P) binding site [chemical binding]; other site 376686010767 active site 376686010768 rhamnose-proton symporter; Provisional; Region: PRK13499 376686010769 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 376686010770 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 376686010771 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686010772 DNA-binding site [nucleotide binding]; DNA binding site 376686010773 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 376686010774 putative dimerization interface [polypeptide binding]; other site 376686010775 putative ligand binding site [chemical binding]; other site 376686010776 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686010777 Uncharacterized conserved protein [Function unknown]; Region: COG5361 376686010778 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 376686010779 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 376686010780 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686010781 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686010782 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686010783 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 376686010784 DNA binding residues [nucleotide binding] 376686010785 dimerization interface [polypeptide binding]; other site 376686010786 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010787 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686010788 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 376686010789 N-terminal plug; other site 376686010790 ligand-binding site [chemical binding]; other site 376686010791 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 376686010792 metal binding site [ion binding]; metal-binding site 376686010793 active site 376686010794 Glycoside hydrolase family 94 N-terminal-like domain of uncharacterized function; Region: GH94N_like_1; cd11747 376686010795 homodimer interface [polypeptide binding]; other site 376686010796 Protein of unknown function, DUF608; Region: DUF608; pfam04685 376686010797 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 376686010798 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686010799 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 376686010800 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 376686010801 active site 376686010802 catalytic triad [active] 376686010803 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 376686010804 active site 376686010805 catalytic triad [active] 376686010806 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686010807 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 376686010808 Domain of unknown function (DUF718); Region: DUF718; pfam05336 376686010809 Glycosyl hydrolase 43-like family consists of hypothetical proteins; Region: GH43_like_2; cd08994 376686010810 active site 376686010811 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686010812 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010813 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686010814 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010815 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010816 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686010817 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 376686010818 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 376686010819 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 376686010820 dimerization interface [polypeptide binding]; other site 376686010821 putative DNA binding site [nucleotide binding]; other site 376686010822 putative Zn2+ binding site [ion binding]; other site 376686010823 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 376686010824 active site 376686010825 nucleophile elbow; other site 376686010826 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 376686010827 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 376686010828 Dual-action HEIGH metallo-peptidase; Region: Peptidase_M57; pfam12388 376686010829 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 376686010830 active site 376686010831 catalytic triad [active] 376686010832 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686010833 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 376686010834 GAF domain; Region: GAF; pfam01590 376686010835 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686010836 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 376686010837 dimer interface [polypeptide binding]; other site 376686010838 phosphorylation site [posttranslational modification] 376686010839 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 376686010840 ATP binding site [chemical binding]; other site 376686010841 Mg2+ binding site [ion binding]; other site 376686010842 G-X-G motif; other site 376686010843 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686010844 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686010845 active site 376686010846 phosphorylation site [posttranslational modification] 376686010847 intermolecular recognition site; other site 376686010848 dimerization interface [polypeptide binding]; other site 376686010849 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 376686010850 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 376686010851 NAD(P) binding site [chemical binding]; other site 376686010852 catalytic residues [active] 376686010853 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686010854 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 376686010855 active site 376686010856 catalytic triad [active] 376686010857 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686010858 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 376686010859 Pectic acid lyase; Region: Pec_lyase; pfam09492 376686010860 putative pectinesterase; Region: PLN02432; cl01911 376686010861 Pectinesterase; Region: Pectinesterase; pfam01095 376686010862 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 376686010863 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 376686010864 active site 376686010865 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 376686010866 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 376686010867 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 376686010868 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 376686010869 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686010870 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686010871 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010872 SusD family; Region: SusD; pfam07980 376686010873 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010874 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686010875 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686010876 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 376686010877 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686010878 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686010879 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686010880 DNA binding site [nucleotide binding] 376686010881 domain linker motif; other site 376686010882 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686010883 dimerization interface [polypeptide binding]; other site 376686010884 ligand binding site [chemical binding]; other site 376686010885 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 376686010886 galactarate dehydratase; Region: galactar-dH20; TIGR03248 376686010887 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 376686010888 altronate oxidoreductase; Provisional; Region: PRK03643 376686010889 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 376686010890 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 376686010891 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 376686010892 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 376686010893 active site 376686010894 intersubunit interface [polypeptide binding]; other site 376686010895 catalytic residue [active] 376686010896 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 376686010897 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 376686010898 substrate binding site [chemical binding]; other site 376686010899 ATP binding site [chemical binding]; other site 376686010900 Glucuronate isomerase; Region: UxaC; pfam02614 376686010901 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 376686010902 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 376686010903 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 376686010904 NADP binding site [chemical binding]; other site 376686010905 homodimer interface [polypeptide binding]; other site 376686010906 active site 376686010907 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 376686010908 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686010909 putative substrate translocation pore; other site 376686010910 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 376686010911 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686010912 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 376686010913 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686010914 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 376686010915 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 376686010916 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 376686010917 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686010918 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686010919 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 376686010920 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686010921 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686010922 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 376686010923 Isochorismatase family; Region: Isochorismatase; pfam00857 376686010924 catalytic triad [active] 376686010925 dimer interface [polypeptide binding]; other site 376686010926 conserved cis-peptide bond; other site 376686010927 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 376686010928 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 376686010929 active site 376686010930 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 376686010931 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 376686010932 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 376686010933 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686010934 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686010935 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 376686010936 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010937 NAD(P) binding site [chemical binding]; other site 376686010938 active site 376686010939 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 376686010940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010941 NAD(P) binding site [chemical binding]; other site 376686010942 active site 376686010943 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686010944 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686010945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686010946 active site 376686010947 phosphorylation site [posttranslational modification] 376686010948 intermolecular recognition site; other site 376686010949 dimerization interface [polypeptide binding]; other site 376686010950 LytTr DNA-binding domain; Region: LytTR; smart00850 376686010951 Histidine kinase; Region: His_kinase; pfam06580 376686010952 Outer membrane efflux protein; Region: OEP; pfam02321 376686010953 Outer membrane efflux protein; Region: OEP; pfam02321 376686010954 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686010955 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686010956 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686010957 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686010958 intracellular protease, PfpI family; Region: PfpI; TIGR01382 376686010959 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 376686010960 proposed catalytic triad [active] 376686010961 conserved cys residue [active] 376686010962 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686010963 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686010964 active site 376686010965 phosphorylation site [posttranslational modification] 376686010966 intermolecular recognition site; other site 376686010967 dimerization interface [polypeptide binding]; other site 376686010968 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 376686010969 DNA binding site [nucleotide binding] 376686010970 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686010971 HAMP domain; Region: HAMP; pfam00672 376686010972 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 376686010973 dimer interface [polypeptide binding]; other site 376686010974 phosphorylation site [posttranslational modification] 376686010975 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 376686010976 ATP binding site [chemical binding]; other site 376686010977 Mg2+ binding site [ion binding]; other site 376686010978 G-X-G motif; other site 376686010979 Outer membrane efflux protein; Region: OEP; pfam02321 376686010980 Outer membrane efflux protein; Region: OEP; pfam02321 376686010981 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686010982 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686010983 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 376686010984 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686010985 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 376686010986 Cupin domain; Region: Cupin_2; pfam07883 376686010987 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686010988 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686010989 WHG domain; Region: WHG; pfam13305 376686010990 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686010991 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686010992 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686010993 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686010994 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686010995 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686010996 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 376686010997 ligand binding site [chemical binding]; other site 376686010998 flexible hinge region; other site 376686010999 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686011000 Coenzyme A binding pocket [chemical binding]; other site 376686011001 DoxX-like family; Region: DoxX_2; pfam13564 376686011002 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 376686011003 putative dimer interface [polypeptide binding]; other site 376686011004 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686011005 DinB superfamily; Region: DinB_2; pfam12867 376686011006 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 376686011007 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686011008 active site 376686011009 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686011010 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 376686011011 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686011012 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686011013 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 376686011014 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 376686011015 dimer interface [polypeptide binding]; other site 376686011016 active site 376686011017 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 376686011018 Permease; Region: Permease; pfam02405 376686011019 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 376686011020 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 376686011021 Walker A/P-loop; other site 376686011022 ATP binding site [chemical binding]; other site 376686011023 Q-loop/lid; other site 376686011024 ABC transporter signature motif; other site 376686011025 Walker B; other site 376686011026 D-loop; other site 376686011027 H-loop/switch region; other site 376686011028 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 376686011029 mce related protein; Region: MCE; pfam02470 376686011030 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 376686011031 Low affinity iron permease; Region: Iron_permease; pfam04120 376686011032 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 376686011033 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 376686011034 Transcriptional regulators [Transcription]; Region: MarR; COG1846 376686011035 MarR family; Region: MarR_2; cl17246 376686011036 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686011037 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686011038 Coenzyme A binding pocket [chemical binding]; other site 376686011039 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686011040 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686011041 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 376686011042 putative active site [active] 376686011043 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686011044 Uncharacterized glycoside hydrolase family 99-like domain; Region: GH99_GH71_like_3; cd11575 376686011045 putative ligand binding site [chemical binding]; other site 376686011046 putative catalytic site [active] 376686011047 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686011048 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011049 SusD family; Region: SusD; pfam07980 376686011050 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011051 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686011052 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 376686011053 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 376686011054 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 376686011055 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 376686011056 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 376686011057 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 376686011058 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 376686011059 NAD(P) binding site [chemical binding]; other site 376686011060 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 376686011061 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; cd00198 376686011062 metal ion-dependent adhesion site (MIDAS); other site 376686011063 hypothetical protein; Provisional; Region: PRK04233 376686011064 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 376686011065 HSP70 interaction site [polypeptide binding]; other site 376686011066 KTSC domain; Region: KTSC; pfam13619 376686011067 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686011068 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 376686011069 active site 376686011070 DNA binding site [nucleotide binding] 376686011071 Int/Topo IB signature motif; other site 376686011072 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 376686011073 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 376686011074 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 376686011075 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 376686011076 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 376686011077 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 376686011078 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 376686011079 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 376686011080 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 376686011081 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 376686011082 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 376686011083 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686011084 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686011085 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 376686011086 binding surface 376686011087 TPR motif; other site 376686011088 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686011089 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686011090 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 376686011091 non-specific DNA binding site [nucleotide binding]; other site 376686011092 salt bridge; other site 376686011093 sequence-specific DNA binding site [nucleotide binding]; other site 376686011094 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686011095 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011096 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686011097 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686011098 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011099 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686011100 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 376686011101 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686011102 Methylamine utilisation protein MauE; Region: MauE; pfam07291 376686011103 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 376686011104 YWFCY protein; Region: YWFCY; pfam14293 376686011105 AAA-like domain; Region: AAA_10; pfam12846 376686011106 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 376686011107 Walker A motif; other site 376686011108 ATP binding site [chemical binding]; other site 376686011109 Walker B motif; other site 376686011110 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 376686011111 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 376686011112 dimer interface [polypeptide binding]; other site 376686011113 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 376686011114 ssDNA binding site [nucleotide binding]; other site 376686011115 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686011116 PcfK-like protein; Region: PcfK; pfam14058 376686011117 PcfJ-like protein; Region: PcfJ; pfam14284 376686011118 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 376686011119 MPN+ (JAMM) motif; other site 376686011120 Zinc-binding site [ion binding]; other site 376686011121 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 376686011122 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 376686011123 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 376686011124 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 376686011125 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 376686011126 HsdM N-terminal domain; Region: HsdM_N; pfam12161 376686011127 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 376686011128 S-adenosylmethionine binding site [chemical binding]; other site 376686011129 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 376686011130 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 376686011131 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 376686011132 AAA domain; Region: AAA_13; pfam13166 376686011133 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 376686011134 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 376686011135 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 376686011136 ATP binding site [chemical binding]; other site 376686011137 putative Mg++ binding site [ion binding]; other site 376686011138 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 376686011139 Uncharacterized conserved protein [Function unknown]; Region: COG3586 376686011140 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 376686011141 ATP binding site [chemical binding]; other site 376686011142 G-X-G motif; other site 376686011143 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 376686011144 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 376686011145 Cl- selectivity filter; other site 376686011146 Cl- binding residues [ion binding]; other site 376686011147 pore gating glutamate residue; other site 376686011148 dimer interface [polypeptide binding]; other site 376686011149 FOG: CBS domain [General function prediction only]; Region: COG0517 376686011150 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 376686011151 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_4; cd06254 376686011152 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 376686011153 putative active site [active] 376686011154 Zn binding site [ion binding]; other site 376686011155 Domain of unknown function (DUF389); Region: DUF389; pfam04087 376686011156 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 376686011157 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686011158 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686011159 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686011160 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 376686011161 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 376686011162 oxidoreductase; Provisional; Region: PRK06196 376686011163 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 376686011164 putative NAD(P) binding site [chemical binding]; other site 376686011165 active site 376686011166 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686011167 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 376686011168 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 376686011169 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 376686011170 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 376686011171 putative dimer interface [polypeptide binding]; other site 376686011172 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 376686011173 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 376686011174 Chromate transporter; Region: Chromate_transp; pfam02417 376686011175 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 376686011176 putative DNA binding site [nucleotide binding]; other site 376686011177 dimerization interface [polypeptide binding]; other site 376686011178 putative Zn2+ binding site [ion binding]; other site 376686011179 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 376686011180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686011181 Coenzyme A binding pocket [chemical binding]; other site 376686011182 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 376686011183 Low molecular weight phosphatase family; Region: LMWPc; cl00105 376686011184 active site 376686011185 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 376686011186 arsenical-resistance protein; Region: acr3; TIGR00832 376686011187 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686011188 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686011189 active site 376686011190 metal binding site [ion binding]; metal-binding site 376686011191 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686011192 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 376686011193 ligand binding site [chemical binding]; other site 376686011194 flexible hinge region; other site 376686011195 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 376686011196 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686011197 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 376686011198 DNA binding residues [nucleotide binding] 376686011199 Transposase; Region: HTH_Tnp_1; cl17663 376686011200 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 376686011201 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 376686011202 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686011203 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 376686011204 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 376686011205 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 376686011206 active site 376686011207 catalytic site [active] 376686011208 Glycosyl hydrolase family 66; Region: Glyco_hydro_66; pfam13199 376686011209 SusE outer membrane protein; Region: SusE; pfam14292 376686011210 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cl17376 376686011211 starch binding site [chemical binding]; other site 376686011212 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cl17376 376686011213 starch binding site [chemical binding]; other site 376686011214 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686011215 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011216 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011217 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686011218 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686011219 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686011220 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; cl17315 376686011221 alpha-galactosidase; Region: PLN02229 376686011222 alpha-galactosidase; Region: PLN02808; cl17638 376686011223 putative sugar binding sites [chemical binding]; other site 376686011224 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 376686011225 Q-X-W motif; other site 376686011226 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686011227 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686011228 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686011229 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl17426 376686011230 folate binding site [chemical binding]; other site 376686011231 NADP+ binding site [chemical binding]; other site 376686011232 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 376686011233 NADH(P)-binding; Region: NAD_binding_10; pfam13460 376686011234 NAD binding site [chemical binding]; other site 376686011235 active site 376686011236 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 376686011237 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686011238 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686011239 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 376686011240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686011241 NAD(P) binding site [chemical binding]; other site 376686011242 active site 376686011243 short chain dehydrogenase; Provisional; Region: PRK12937 376686011244 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 376686011245 NADP binding site [chemical binding]; other site 376686011246 homodimer interface [polypeptide binding]; other site 376686011247 active site 376686011248 substrate binding site [chemical binding]; other site 376686011249 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 376686011250 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 376686011251 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686011252 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 376686011253 ligand binding site [chemical binding]; other site 376686011254 flexible hinge region; other site 376686011255 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 376686011256 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 376686011257 lipoyl attachment site [posttranslational modification]; other site 376686011258 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 376686011259 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 376686011260 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 376686011261 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 376686011262 lipoyl attachment site [posttranslational modification]; other site 376686011263 Methyltransferase domain; Region: Methyltransf_31; pfam13847 376686011264 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 376686011265 S-adenosylmethionine binding site [chemical binding]; other site 376686011266 Protein of unknown function (DUF983); Region: DUF983; cl02211 376686011267 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 376686011268 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 376686011269 PhnA protein; Region: PhnA; pfam03831 376686011270 Methyltransferase domain; Region: Methyltransf_31; pfam13847 376686011271 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 376686011272 S-adenosylmethionine binding site [chemical binding]; other site 376686011273 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686011274 active site 376686011275 dimerization interface [polypeptide binding]; other site 376686011276 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 376686011277 dimer interface [polypeptide binding]; other site 376686011278 catalytic triad [active] 376686011279 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 376686011280 Outer membrane efflux protein; Region: OEP; pfam02321 376686011281 Outer membrane efflux protein; Region: OEP; pfam02321 376686011282 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686011283 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686011284 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 376686011285 Sulfatase; Region: Sulfatase; pfam00884 376686011286 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 376686011287 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 376686011288 ApbE family; Region: ApbE; pfam02424 376686011289 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 376686011290 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 376686011291 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 376686011292 active site 376686011293 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 376686011294 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 376686011295 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 376686011296 Zn2+ binding site [ion binding]; other site 376686011297 Mg2+ binding site [ion binding]; other site 376686011298 RteC protein; Region: RteC; pfam09357 376686011299 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 376686011300 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 376686011301 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686011302 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 376686011303 motif II; other site 376686011304 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 376686011305 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 376686011306 helicase superfamily c-terminal domain; Region: HELICc; smart00490 376686011307 ATP-binding site [chemical binding]; other site 376686011308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 376686011309 PAS fold; Region: PAS_4; pfam08448 376686011310 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 376686011311 putative active site [active] 376686011312 heme pocket [chemical binding]; other site 376686011313 PAS fold; Region: PAS_3; pfam08447 376686011314 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 376686011315 dimer interface [polypeptide binding]; other site 376686011316 phosphorylation site [posttranslational modification] 376686011317 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 376686011318 ATP binding site [chemical binding]; other site 376686011319 Mg2+ binding site [ion binding]; other site 376686011320 G-X-G motif; other site 376686011321 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 376686011322 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 376686011323 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 376686011324 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686011325 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686011326 Outer membrane efflux protein; Region: OEP; pfam02321 376686011327 Outer membrane efflux protein; Region: OEP; pfam02321 376686011328 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 376686011329 dimer interface [polypeptide binding]; other site 376686011330 FMN binding site [chemical binding]; other site 376686011331 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686011332 starch binding outer membrane protein SusD; Region: SusD; cl17845 376686011333 SusD family; Region: SusD; pfam07980 376686011334 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686011335 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011336 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686011337 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 376686011338 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 376686011339 active site 376686011340 catalytic site [active] 376686011341 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686011342 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686011343 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 376686011344 Histidine kinase; Region: His_kinase; pfam06580 376686011345 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686011346 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686011347 active site 376686011348 phosphorylation site [posttranslational modification] 376686011349 intermolecular recognition site; other site 376686011350 dimerization interface [polypeptide binding]; other site 376686011351 LytTr DNA-binding domain; Region: LytTR; smart00850 376686011352 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 376686011353 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 376686011354 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011355 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011356 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686011357 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686011358 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 376686011359 Uncharacterized conserved protein [Function unknown]; Region: COG2968 376686011360 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 376686011361 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 376686011362 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 376686011363 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 376686011364 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 376686011365 putative acyl-acceptor binding pocket; other site 376686011366 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 376686011367 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 376686011368 active site 376686011369 substrate binding site [chemical binding]; other site 376686011370 metal binding site [ion binding]; metal-binding site 376686011371 Protein of unknown function, DUF479; Region: DUF479; pfam04336 376686011372 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 376686011373 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 376686011374 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 376686011375 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 376686011376 Cl- selectivity filter; other site 376686011377 Cl- binding residues [ion binding]; other site 376686011378 pore gating glutamate residue; other site 376686011379 dimer interface [polypeptide binding]; other site 376686011380 FOG: CBS domain [General function prediction only]; Region: COG0517 376686011381 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 376686011382 Fic family protein [Function unknown]; Region: COG3177 376686011383 Fic/DOC family; Region: Fic; pfam02661 376686011384 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 376686011385 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 376686011386 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 376686011387 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 376686011388 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 376686011389 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 376686011390 Zn binding site [ion binding]; other site 376686011391 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 376686011392 tetramer interface [polypeptide binding]; other site 376686011393 TPP-binding site [chemical binding]; other site 376686011394 heterodimer interface [polypeptide binding]; other site 376686011395 phosphorylation loop region [posttranslational modification] 376686011396 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 376686011397 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 376686011398 PYR/PP interface [polypeptide binding]; other site 376686011399 dimer interface [polypeptide binding]; other site 376686011400 TPP binding site [chemical binding]; other site 376686011401 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 376686011402 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 376686011403 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 376686011404 Ligand binding site; other site 376686011405 oligomer interface; other site 376686011406 YWTD domain; Region: YWTD; pfam13570 376686011407 PQQ-like domain; Region: PQQ_2; pfam13360 376686011408 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 376686011409 active site 376686011410 Trp docking motif [polypeptide binding]; other site 376686011411 PQQ-like domain; Region: PQQ_2; pfam13360 376686011412 AAA domain; Region: AAA_30; pfam13604 376686011413 Family description; Region: UvrD_C_2; pfam13538 376686011414 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 376686011415 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 376686011416 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 376686011417 S-adenosylmethionine binding site [chemical binding]; other site 376686011418 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686011419 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 376686011420 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686011421 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 376686011422 dimer interface [polypeptide binding]; other site 376686011423 phosphorylation site [posttranslational modification] 376686011424 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 376686011425 ATP binding site [chemical binding]; other site 376686011426 Mg2+ binding site [ion binding]; other site 376686011427 G-X-G motif; other site 376686011428 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686011429 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686011430 active site 376686011431 phosphorylation site [posttranslational modification] 376686011432 intermolecular recognition site; other site 376686011433 dimerization interface [polypeptide binding]; other site 376686011434 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 376686011435 DNA binding site [nucleotide binding] 376686011436 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 376686011437 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 376686011438 Src Homology 3 domain superfamily; Region: SH3; cl17036 376686011439 peptide ligand binding site [polypeptide binding]; other site 376686011440 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 376686011441 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 376686011442 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 376686011443 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 376686011444 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14970 376686011445 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 376686011446 Walker A motif; other site 376686011447 ATP binding site [chemical binding]; other site 376686011448 Walker B motif; other site 376686011449 arginine finger; other site 376686011450 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 376686011451 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 376686011452 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 376686011453 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 376686011454 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686011455 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 376686011456 ligand binding site [chemical binding]; other site 376686011457 flexible hinge region; other site 376686011458 exopolyphosphatase; Region: exo_poly_only; TIGR03706 376686011459 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 376686011460 polyphosphate kinase; Provisional; Region: PRK05443 376686011461 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 376686011462 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 376686011463 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 376686011464 domain interface [polypeptide binding]; other site 376686011465 active site 376686011466 catalytic site [active] 376686011467 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 376686011468 domain interface [polypeptide binding]; other site 376686011469 active site 376686011470 catalytic site [active] 376686011471 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 376686011472 catalytic core [active] 376686011473 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; cd00198 376686011474 metal ion-dependent adhesion site (MIDAS); other site 376686011475 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 376686011476 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 376686011477 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 376686011478 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686011479 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686011480 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686011481 ligand binding site [chemical binding]; other site 376686011482 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 376686011483 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 376686011484 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 376686011485 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 376686011486 ribonuclease Z; Reviewed; Region: PRK00055 376686011487 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 376686011488 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 376686011489 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 376686011490 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 376686011491 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686011492 active site 376686011493 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 376686011494 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686011495 Walker A/P-loop; other site 376686011496 ATP binding site [chemical binding]; other site 376686011497 Q-loop/lid; other site 376686011498 ABC transporter signature motif; other site 376686011499 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686011500 Walker B; other site 376686011501 D-loop; other site 376686011502 H-loop/switch region; other site 376686011503 ABC transporter; Region: ABC_tran_2; pfam12848 376686011504 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686011505 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 376686011506 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 376686011507 catalytic residues [active] 376686011508 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 376686011509 non-specific DNA binding site [nucleotide binding]; other site 376686011510 salt bridge; other site 376686011511 sequence-specific DNA binding site [nucleotide binding]; other site 376686011512 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 376686011513 Glyco_18 domain; Region: Glyco_18; smart00636 376686011514 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 376686011515 active site 376686011516 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 376686011517 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686011518 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686011519 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686011520 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 376686011521 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 376686011522 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 376686011523 putative active site [active] 376686011524 A functionally uncharacterized subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the chitobiase of Serratia marcescens, a beta-N-1,4-acetylhexosaminidase that hydrolyzes the beta-1,4-glycosidic linkages in...; Region: GH20_chitobiase-like_1; cd06570 376686011525 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 376686011526 active site 376686011527 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 376686011528 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 376686011529 active site 376686011530 trimer interface [polypeptide binding]; other site 376686011531 allosteric site; other site 376686011532 active site lid [active] 376686011533 hexamer (dimer of trimers) interface [polypeptide binding]; other site 376686011534 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 376686011535 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 376686011536 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011537 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686011538 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011539 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 376686011540 Glyco_18 domain; Region: Glyco_18; smart00636 376686011541 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 376686011542 active site 376686011543 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 376686011544 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011545 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011546 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686011547 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686011548 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 376686011549 Histidine kinase; Region: His_kinase; pfam06580 376686011550 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686011551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686011552 active site 376686011553 phosphorylation site [posttranslational modification] 376686011554 intermolecular recognition site; other site 376686011555 dimerization interface [polypeptide binding]; other site 376686011556 LytTr DNA-binding domain; Region: LytTR; smart00850 376686011557 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 376686011558 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686011559 putative substrate translocation pore; other site 376686011560 L-fucose transporter; Provisional; Region: PRK10133; cl17665 376686011561 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 376686011562 active site 376686011563 intersubunit interactions; other site 376686011564 catalytic residue [active] 376686011565 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686011566 NADP binding site [chemical binding]; other site 376686011567 short chain dehydrogenase; Provisional; Region: PRK06914 376686011568 active site 376686011569 steroid binding site; other site 376686011570 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 376686011571 imidazolonepropionase; Validated; Region: PRK09356 376686011572 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 376686011573 active site 376686011574 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 376686011575 putative active site [active] 376686011576 putative metal binding site [ion binding]; other site 376686011577 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 376686011578 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 376686011579 ATP binding site [chemical binding]; other site 376686011580 Mg++ binding site [ion binding]; other site 376686011581 motif III; other site 376686011582 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 376686011583 nucleotide binding region [chemical binding]; other site 376686011584 ATP-binding site [chemical binding]; other site 376686011585 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686011586 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 376686011587 binding surface 376686011588 TPR motif; other site 376686011589 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686011590 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 376686011591 dimer interface [polypeptide binding]; other site 376686011592 phosphorylation site [posttranslational modification] 376686011593 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 376686011594 ATP binding site [chemical binding]; other site 376686011595 Mg2+ binding site [ion binding]; other site 376686011596 G-X-G motif; other site 376686011597 Response regulator receiver domain; Region: Response_reg; pfam00072 376686011598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686011599 active site 376686011600 phosphorylation site [posttranslational modification] 376686011601 intermolecular recognition site; other site 376686011602 dimerization interface [polypeptide binding]; other site 376686011603 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 376686011604 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 376686011605 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 376686011606 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 376686011607 Tetramer interface [polypeptide binding]; other site 376686011608 active site 376686011609 FMN-binding site [chemical binding]; other site 376686011610 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686011611 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 376686011612 putative active site [active] 376686011613 putative metal binding site [ion binding]; other site 376686011614 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 376686011615 PrcB C-terminal; Region: PrcB_C; pfam14343 376686011616 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 376686011617 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_5; cd04962 376686011618 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 376686011619 Cysteine-rich domain; Region: CCG; pfam02754 376686011620 Cysteine-rich domain; Region: CCG; pfam02754 376686011621 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 376686011622 4Fe-4S binding domain; Region: Fer4; cl02805 376686011623 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 376686011624 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 376686011625 mce related protein; Region: MCE; pfam02470 376686011626 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 376686011627 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 376686011628 active site 376686011629 metal binding site [ion binding]; metal-binding site 376686011630 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 376686011631 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 376686011632 homotrimer interaction site [polypeptide binding]; other site 376686011633 putative active site [active] 376686011634 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 376686011635 substrate binding site [chemical binding]; other site 376686011636 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 376686011637 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PTZ00023 376686011638 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 376686011639 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 376686011640 6-phosphofructokinase; Provisional; Region: PRK03202 376686011641 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 376686011642 active site 376686011643 ADP/pyrophosphate binding site [chemical binding]; other site 376686011644 dimerization interface [polypeptide binding]; other site 376686011645 allosteric effector site; other site 376686011646 fructose-1,6-bisphosphate binding site; other site 376686011647 Family of unknown function (DUF490); Region: DUF490; pfam04357 376686011648 Family of unknown function (DUF490); Region: DUF490; pfam04357 376686011649 UGMP family protein; Validated; Region: PRK09604 376686011650 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 376686011651 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 376686011652 RNA methyltransferase, RsmE family; Region: TIGR00046 376686011653 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 376686011654 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 376686011655 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 376686011656 active site 376686011657 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 376686011658 Domain of unknown function DUF20; Region: UPF0118; pfam01594 376686011659 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 376686011660 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 376686011661 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 376686011662 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 376686011663 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 376686011664 metal binding site [ion binding]; metal-binding site 376686011665 Fatty acid desaturase; Region: FA_desaturase; pfam00487 376686011666 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 376686011667 putative di-iron ligands [ion binding]; other site 376686011668 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686011669 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 376686011670 substrate binding site [chemical binding]; other site 376686011671 dimerization interface [polypeptide binding]; other site 376686011672 active site 376686011673 calcium binding site [ion binding]; other site 376686011674 Trehalose utilisation; Region: ThuA; pfam06283 376686011675 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686011676 Coenzyme A binding pocket [chemical binding]; other site 376686011677 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686011678 putative substrate translocation pore; other site 376686011679 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686011680 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 376686011681 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 376686011682 acetyl-CoA C-acetyltransferase; Region: PLN02644 376686011683 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 376686011684 dimer interface [polypeptide binding]; other site 376686011685 active site 376686011686 Bacterial SH3 domain; Region: SH3_3; pfam08239 376686011687 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 376686011688 NlpC/P60 family; Region: NLPC_P60; pfam00877 376686011689 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 376686011690 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 376686011691 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686011692 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686011693 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 376686011694 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 376686011695 active site 376686011696 catalytic tetrad [active] 376686011697 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 376686011698 Uncharacterized conserved protein [Function unknown]; Region: COG1359 376686011699 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 376686011700 Methyltransferase domain; Region: Methyltransf_31; pfam13847 376686011701 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 376686011702 S-adenosylmethionine binding site [chemical binding]; other site 376686011703 Transcriptional regulator [Transcription]; Region: LysR; COG0583 376686011704 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 376686011705 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 376686011706 dimerization interface [polypeptide binding]; other site 376686011707 substrate binding pocket [chemical binding]; other site 376686011708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 376686011709 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 376686011710 Predicted membrane protein [Function unknown]; Region: COG3650 376686011711 META domain; Region: META; pfam03724 376686011712 nitrite reductase subunit NirD; Provisional; Region: PRK14989 376686011713 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686011714 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 376686011715 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 376686011716 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 376686011717 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 376686011718 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 376686011719 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686011720 Histidine kinase; Region: HisKA_3; pfam07730 376686011721 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 376686011722 ATP binding site [chemical binding]; other site 376686011723 Mg2+ binding site [ion binding]; other site 376686011724 G-X-G motif; other site 376686011725 Response regulator receiver domain; Region: Response_reg; pfam00072 376686011726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686011727 active site 376686011728 phosphorylation site [posttranslational modification] 376686011729 intermolecular recognition site; other site 376686011730 dimerization interface [polypeptide binding]; other site 376686011731 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 376686011732 DNA binding residues [nucleotide binding] 376686011733 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 376686011734 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686011735 putative substrate translocation pore; other site 376686011736 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 376686011737 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 376686011738 S-adenosylmethionine binding site [chemical binding]; other site 376686011739 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686011740 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 376686011741 ligand binding site [chemical binding]; other site 376686011742 flexible hinge region; other site 376686011743 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 376686011744 putative switch regulator; other site 376686011745 non-specific DNA interactions [nucleotide binding]; other site 376686011746 DNA binding site [nucleotide binding] 376686011747 sequence specific DNA binding site [nucleotide binding]; other site 376686011748 putative cAMP binding site [chemical binding]; other site 376686011749 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 376686011750 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 376686011751 [4Fe-4S] binding site [ion binding]; other site 376686011752 molybdopterin cofactor binding site; other site 376686011753 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 376686011754 molybdopterin cofactor binding site; other site 376686011755 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 376686011756 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 376686011757 Rubredoxin; Region: Rubredoxin; pfam00301 376686011758 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 376686011759 iron binding site [ion binding]; other site 376686011760 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 376686011761 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 376686011762 FeS/SAM binding site; other site 376686011763 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 376686011764 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 376686011765 MoaC family. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine derivative to the precursor...; Region: MoaC; cl00242 376686011766 trimer interface [polypeptide binding]; other site 376686011767 dimer interface [polypeptide binding]; other site 376686011768 putative active site [active] 376686011769 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 376686011770 MPT binding site; other site 376686011771 trimer interface [polypeptide binding]; other site 376686011772 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 376686011773 MoaE homodimer interface [polypeptide binding]; other site 376686011774 MoaD interaction [polypeptide binding]; other site 376686011775 active site residues [active] 376686011776 hypothetical protein; Validated; Region: PRK07411 376686011777 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 376686011778 ATP binding site [chemical binding]; other site 376686011779 substrate interface [chemical binding]; other site 376686011780 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 376686011781 active site residue [active] 376686011782 Ubiquitin-like proteins; Region: UBQ; cl00155 376686011783 charged pocket; other site 376686011784 hydrophobic patch; other site 376686011785 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 376686011786 active site 376686011787 SAM binding site [chemical binding]; other site 376686011788 homodimer interface [polypeptide binding]; other site 376686011789 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 376686011790 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 376686011791 GTP binding site; other site 376686011792 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 376686011793 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 376686011794 dimer interface [polypeptide binding]; other site 376686011795 putative functional site; other site 376686011796 putative MPT binding site; other site 376686011797 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011798 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686011799 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 376686011800 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686011801 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011802 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686011803 Sulfatase; Region: Sulfatase; pfam00884 376686011804 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 376686011805 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 376686011806 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 376686011807 active site residue [active] 376686011808 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 376686011809 catalytic residues [active] 376686011810 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686011811 Sulfatase; Region: Sulfatase; pfam00884 376686011812 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 376686011813 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686011814 Sulfatase; Region: Sulfatase; pfam00884 376686011815 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 376686011816 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 376686011817 dimer interface [polypeptide binding]; other site 376686011818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686011819 catalytic residue [active] 376686011820 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 376686011821 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 376686011822 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686011823 catalytic residue [active] 376686011824 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 376686011825 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 376686011826 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 376686011827 inhibitor-cofactor binding pocket; inhibition site 376686011828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686011829 catalytic residue [active] 376686011830 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 376686011831 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 376686011832 AsnC family; Region: AsnC_trans_reg; pfam01037 376686011833 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 376686011834 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686011835 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 376686011836 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 376686011837 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 376686011838 Peptidase family M28; Region: Peptidase_M28; pfam04389 376686011839 metal binding site [ion binding]; metal-binding site 376686011840 transcription termination factor Rho; Provisional; Region: PRK12608 376686011841 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 376686011842 RNA binding site [nucleotide binding]; other site 376686011843 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 376686011844 multimer interface [polypeptide binding]; other site 376686011845 Walker A motif; other site 376686011846 ATP binding site [chemical binding]; other site 376686011847 Walker B motif; other site 376686011848 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 376686011849 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686011850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686011851 active site 376686011852 phosphorylation site [posttranslational modification] 376686011853 intermolecular recognition site; other site 376686011854 dimerization interface [polypeptide binding]; other site 376686011855 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 376686011856 DNA binding residues [nucleotide binding] 376686011857 dimerization interface [polypeptide binding]; other site 376686011858 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686011859 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 376686011860 ATP binding site [chemical binding]; other site 376686011861 Mg2+ binding site [ion binding]; other site 376686011862 G-X-G motif; other site 376686011863 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 376686011864 active site 376686011865 metal binding site [ion binding]; metal-binding site 376686011866 homotetramer interface [polypeptide binding]; other site 376686011867 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 376686011868 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 376686011869 dimerization interface 3.5A [polypeptide binding]; other site 376686011870 active site 376686011871 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 376686011872 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 376686011873 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 376686011874 Walker A/P-loop; other site 376686011875 ATP binding site [chemical binding]; other site 376686011876 Q-loop/lid; other site 376686011877 ABC transporter signature motif; other site 376686011878 Walker B; other site 376686011879 D-loop; other site 376686011880 H-loop/switch region; other site 376686011881 Cache domain; Region: Cache_1; pfam02743 376686011882 Histidine kinase; Region: His_kinase; pfam06580 376686011883 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 376686011884 active site 376686011885 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011886 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686011887 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686011888 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686011889 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 376686011890 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011891 two-component response regulator; Provisional; Region: PRK14084 376686011892 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686011893 active site 376686011894 phosphorylation site [posttranslational modification] 376686011895 intermolecular recognition site; other site 376686011896 dimerization interface [polypeptide binding]; other site 376686011897 LytTr DNA-binding domain; Region: LytTR; smart00850 376686011898 NUMOD4 motif; Region: NUMOD4; pfam07463 376686011899 HNH endonuclease; Region: HNH_3; pfam13392 376686011900 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 376686011901 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 376686011902 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686011903 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 376686011904 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 376686011905 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 376686011906 Short C-terminal domain; Region: SHOCT; pfam09851 376686011907 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 376686011908 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 376686011909 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 376686011910 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 376686011911 Repair protein; Region: Repair_PSII; pfam04536 376686011912 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 376686011913 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 376686011914 active site 376686011915 Mn binding site [ion binding]; other site 376686011916 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686011917 Coenzyme A binding pocket [chemical binding]; other site 376686011918 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 376686011919 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 376686011920 putative hydrophobic ligand binding site [chemical binding]; other site 376686011921 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 376686011922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686011923 NAD(P) binding site [chemical binding]; other site 376686011924 active site 376686011925 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686011926 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686011927 SnoaL-like domain; Region: SnoaL_2; pfam12680 376686011928 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686011929 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686011930 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 376686011931 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 376686011932 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 376686011933 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 376686011934 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686011935 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 376686011936 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 376686011937 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 376686011938 putative hydrophobic ligand binding site [chemical binding]; other site 376686011939 Domain of unknown function (DU1801); Region: DUF1801; cl17490 376686011940 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 376686011941 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_17; cd08356 376686011942 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686011943 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 376686011944 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 376686011945 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 376686011946 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 376686011947 Ligand Binding Site [chemical binding]; other site 376686011948 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 376686011949 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 376686011950 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 376686011951 Bacterial SH3 domain homologues; Region: SH3b; smart00287 376686011952 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 376686011953 oligomerization interface [polypeptide binding]; other site 376686011954 active site 376686011955 metal binding site [ion binding]; metal-binding site 376686011956 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 376686011957 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 376686011958 active site 376686011959 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 376686011960 NAD(P) binding site [chemical binding]; other site 376686011961 catalytic residues [active] 376686011962 PAS domain; Region: PAS_9; pfam13426 376686011963 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 376686011964 putative active site [active] 376686011965 heme pocket [chemical binding]; other site 376686011966 PAS domain S-box; Region: sensory_box; TIGR00229 376686011967 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 376686011968 putative active site [active] 376686011969 heme pocket [chemical binding]; other site 376686011970 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 376686011971 GAF domain; Region: GAF; pfam01590 376686011972 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 376686011973 GAF domain; Region: GAF; pfam01590 376686011974 PAS fold; Region: PAS_3; pfam08447 376686011975 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 376686011976 putative active site [active] 376686011977 heme pocket [chemical binding]; other site 376686011978 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 376686011979 dimer interface [polypeptide binding]; other site 376686011980 phosphorylation site [posttranslational modification] 376686011981 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 376686011982 ATP binding site [chemical binding]; other site 376686011983 Mg2+ binding site [ion binding]; other site 376686011984 G-X-G motif; other site 376686011985 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 376686011986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686011987 active site 376686011988 phosphorylation site [posttranslational modification] 376686011989 intermolecular recognition site; other site 376686011990 dimerization interface [polypeptide binding]; other site 376686011991 Predicted metalloprotease [General function prediction only]; Region: COG2321 376686011992 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 376686011993 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 376686011994 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 376686011995 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 376686011996 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 376686011997 CoenzymeA binding site [chemical binding]; other site 376686011998 subunit interaction site [polypeptide binding]; other site 376686011999 PHB binding site; other site 376686012000 Endonuclease I; Region: Endonuclease_1; pfam04231 376686012001 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686012002 Endonuclease I; Region: Endonuclease_1; pfam04231 376686012003 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686012004 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 376686012005 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 376686012006 dimerization interface [polypeptide binding]; other site 376686012007 ATP binding site [chemical binding]; other site 376686012008 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 376686012009 dimerization interface [polypeptide binding]; other site 376686012010 ATP binding site [chemical binding]; other site 376686012011 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 376686012012 putative active site [active] 376686012013 catalytic triad [active] 376686012014 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686012015 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 376686012016 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686012017 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 376686012018 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 376686012019 acyl-activating enzyme (AAE) consensus motif; other site 376686012020 putative AMP binding site [chemical binding]; other site 376686012021 putative active site [active] 376686012022 putative CoA binding site [chemical binding]; other site 376686012023 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 376686012024 active site 376686012025 catalytic site [active] 376686012026 substrate binding site [chemical binding]; other site 376686012027 SWIM zinc finger; Region: SWIM; pfam04434 376686012028 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 376686012029 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686012030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686012031 active site 376686012032 phosphorylation site [posttranslational modification] 376686012033 intermolecular recognition site; other site 376686012034 dimerization interface [polypeptide binding]; other site 376686012035 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 376686012036 dimerization interface [polypeptide binding]; other site 376686012037 DNA binding residues [nucleotide binding] 376686012038 Histidine kinase; Region: HisKA_3; pfam07730 376686012039 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 376686012040 ATP binding site [chemical binding]; other site 376686012041 Mg2+ binding site [ion binding]; other site 376686012042 G-X-G motif; other site 376686012043 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 376686012044 non-specific DNA binding site [nucleotide binding]; other site 376686012045 salt bridge; other site 376686012046 sequence-specific DNA binding site [nucleotide binding]; other site 376686012047 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 376686012048 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 376686012049 active site 376686012050 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 376686012051 Catalytic site [active] 376686012052 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 376686012053 hypothetical protein; Reviewed; Region: PRK09588 376686012054 Prokaryotic RING finger family 4; Region: Prok-RING_4; pfam14447 376686012055 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cl17565 376686012056 putative metal binding site [ion binding]; other site 376686012057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 376686012058 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 376686012059 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686012060 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686012061 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686012062 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686012063 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686012064 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686012065 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 376686012066 WYL domain; Region: WYL; pfam13280 376686012067 MarR family; Region: MarR; pfam01047 376686012068 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 376686012069 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 376686012070 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 376686012071 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 376686012072 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 376686012073 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 376686012074 substrate binding site [chemical binding]; other site 376686012075 oxyanion hole (OAH) forming residues; other site 376686012076 trimer interface [polypeptide binding]; other site 376686012077 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 376686012078 four helix bundle protein; Region: TIGR02436 376686012079 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 376686012080 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 376686012081 dimer interface [polypeptide binding]; other site 376686012082 active site 376686012083 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 376686012084 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 376686012085 active site 376686012086 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 376686012087 Glyco_18 domain; Region: Glyco_18; smart00636 376686012088 active site 376686012089 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 376686012090 META domain; Region: META; pfam03724 376686012091 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 376686012092 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 376686012093 E-class dimer interface [polypeptide binding]; other site 376686012094 P-class dimer interface [polypeptide binding]; other site 376686012095 active site 376686012096 Cu2+ binding site [ion binding]; other site 376686012097 Zn2+ binding site [ion binding]; other site 376686012098 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 376686012099 active site clefts [active] 376686012100 zinc binding site [ion binding]; other site 376686012101 dimer interface [polypeptide binding]; other site 376686012102 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 376686012103 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 376686012104 Sulfate transporter family; Region: Sulfate_transp; pfam00916 376686012105 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 376686012106 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 376686012107 dimerization interface [polypeptide binding]; other site 376686012108 DPS ferroxidase diiron center [ion binding]; other site 376686012109 ion pore; other site 376686012110 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 376686012111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 376686012112 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 376686012113 dimerization interface [polypeptide binding]; other site 376686012114 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 376686012115 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 376686012116 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 376686012117 homodimer interface [polypeptide binding]; other site 376686012118 substrate-cofactor binding pocket; other site 376686012119 catalytic residue [active] 376686012120 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 376686012121 metal binding site [ion binding]; metal-binding site 376686012122 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 376686012123 putative hydrophobic ligand binding site [chemical binding]; other site 376686012124 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686012125 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686012126 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 376686012127 DNA binding residues [nucleotide binding] 376686012128 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 376686012129 K+ potassium transporter; Region: K_trans; pfam02705 376686012130 16S rRNA methyltransferase B; Provisional; Region: PRK14902 376686012131 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 376686012132 S-adenosylmethionine binding site [chemical binding]; other site 376686012133 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 376686012134 AMP binding site [chemical binding]; other site 376686012135 active site 376686012136 acyl-activating enzyme (AAE) consensus motif; other site 376686012137 CoA binding site [chemical binding]; other site 376686012138 CAAX protease self-immunity; Region: Abi; pfam02517 376686012139 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686012140 ArsC family; Region: ArsC; pfam03960 376686012141 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686012142 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 376686012143 fumarate hydratase; Reviewed; Region: fumC; PRK00485 376686012144 Class II fumarases; Region: Fumarase_classII; cd01362 376686012145 active site 376686012146 tetramer interface [polypeptide binding]; other site 376686012147 alanine dehydrogenase; Region: alaDH; TIGR00518 376686012148 Saccharopine Dehydrogenase like proteins; Region: SDH_like; cd05199 376686012149 active site 376686012150 ligand binding site [chemical binding]; other site 376686012151 NAD(P) binding site [chemical binding]; other site 376686012152 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686012153 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686012154 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686012155 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 376686012156 FecR protein; Region: FecR; pfam04773 376686012157 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686012158 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686012159 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 376686012160 DNA binding residues [nucleotide binding] 376686012161 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 376686012162 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686012163 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 376686012164 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_C39B; cd02418 376686012165 putative active site [active] 376686012166 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 376686012167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686012168 Walker A/P-loop; other site 376686012169 ATP binding site [chemical binding]; other site 376686012170 Q-loop/lid; other site 376686012171 ABC transporter signature motif; other site 376686012172 Walker B; other site 376686012173 D-loop; other site 376686012174 H-loop/switch region; other site 376686012175 Vitamin K epoxide reductase (VKOR) family in bacteria; Region: VKOR_4; cd12921 376686012176 putative active site [active] 376686012177 redox center [active] 376686012178 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 376686012179 catalytic residues [active] 376686012180 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 376686012181 non-specific DNA binding site [nucleotide binding]; other site 376686012182 salt bridge; other site 376686012183 sequence-specific DNA binding site [nucleotide binding]; other site 376686012184 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 376686012185 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 376686012186 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 376686012187 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 376686012188 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 376686012189 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 376686012190 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 376686012191 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 376686012192 putative active site [active] 376686012193 Acyltransferase family; Region: Acyl_transf_3; pfam01757 376686012194 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686012195 putative transporter; Provisional; Region: PRK10504 376686012196 putative substrate translocation pore; other site 376686012197 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686012198 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 376686012199 Beta-lactamase; Region: Beta-lactamase; cl17358 376686012200 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686012201 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 376686012202 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 376686012203 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 376686012204 active site 376686012205 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C_1; pfam13290 376686012206 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 376686012207 Putative esterase; Region: Esterase; pfam00756 376686012208 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 376686012209 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 376686012210 FAD binding domain; Region: FAD_binding_4; pfam01565 376686012211 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 376686012212 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 376686012213 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 376686012214 active site 376686012215 trimer interface [polypeptide binding]; other site 376686012216 allosteric site; other site 376686012217 active site lid [active] 376686012218 hexamer (dimer of trimers) interface [polypeptide binding]; other site 376686012219 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 376686012220 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 376686012221 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 376686012222 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 376686012223 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686012224 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686012225 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686012226 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686012227 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686012228 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 376686012229 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 376686012230 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 376686012231 putative active site [active] 376686012232 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 376686012233 Na binding site [ion binding]; other site 376686012234 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 376686012235 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686012236 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686012237 Beta-lactamase; Region: Beta-lactamase; cl17358 376686012238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 376686012239 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 376686012240 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 376686012241 N-terminal plug; other site 376686012242 ligand-binding site [chemical binding]; other site 376686012243 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 376686012244 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686012245 DNA-binding site [nucleotide binding]; DNA binding site 376686012246 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 376686012247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686012248 homodimer interface [polypeptide binding]; other site 376686012249 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686012250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686012251 NADH(P)-binding; Region: NAD_binding_10; pfam13460 376686012252 NAD(P) binding site [chemical binding]; other site 376686012253 active site 376686012254 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686012255 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686012256 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686012257 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 376686012258 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686012259 Urea transporter; Region: UT; pfam03253 376686012260 UreD urease accessory protein; Region: UreD; pfam01774 376686012261 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 376686012262 G1 box; other site 376686012263 GTP/Mg2+ binding site [chemical binding]; other site 376686012264 G2 box; other site 376686012265 Switch I region; other site 376686012266 G3 box; other site 376686012267 Switch II region; other site 376686012268 G4 box; other site 376686012269 G5 box; other site 376686012270 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 376686012271 UreF; Region: UreF; pfam01730 376686012272 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 376686012273 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 376686012274 dimer interface [polypeptide binding]; other site 376686012275 catalytic residues [active] 376686012276 urease subunit alpha; Reviewed; Region: ureC; PRK13207 376686012277 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 376686012278 subunit interactions [polypeptide binding]; other site 376686012279 active site 376686012280 flap region; other site 376686012281 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 376686012282 gamma-beta subunit interface [polypeptide binding]; other site 376686012283 alpha-beta subunit interface [polypeptide binding]; other site 376686012284 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 376686012285 alpha-gamma subunit interface [polypeptide binding]; other site 376686012286 beta-gamma subunit interface [polypeptide binding]; other site 376686012287 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686012288 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 376686012289 DXD motif; other site 376686012290 Response regulator receiver domain; Region: Response_reg; pfam00072 376686012291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686012292 active site 376686012293 phosphorylation site [posttranslational modification] 376686012294 intermolecular recognition site; other site 376686012295 dimerization interface [polypeptide binding]; other site 376686012296 PAS domain S-box; Region: sensory_box; TIGR00229 376686012297 PAS fold; Region: PAS_4; pfam08448 376686012298 PAS fold; Region: PAS_4; pfam08448 376686012299 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 376686012300 PAS fold; Region: PAS_3; pfam08447 376686012301 putative active site [active] 376686012302 heme pocket [chemical binding]; other site 376686012303 PAS domain; Region: PAS_9; pfam13426 376686012304 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 376686012305 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 376686012306 putative active site [active] 376686012307 heme pocket [chemical binding]; other site 376686012308 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 376686012309 putative active site [active] 376686012310 heme pocket [chemical binding]; other site 376686012311 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 376686012312 dimer interface [polypeptide binding]; other site 376686012313 phosphorylation site [posttranslational modification] 376686012314 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 376686012315 ATP binding site [chemical binding]; other site 376686012316 Mg2+ binding site [ion binding]; other site 376686012317 G-X-G motif; other site 376686012318 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 376686012319 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686012320 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 376686012321 TPR motif; other site 376686012322 binding surface 376686012323 Tetratricopeptide repeat; Region: TPR_16; pfam13432 376686012324 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686012325 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686012326 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 376686012327 ATP binding site [chemical binding]; other site 376686012328 Mg2+ binding site [ion binding]; other site 376686012329 G-X-G motif; other site 376686012330 Response regulator receiver domain; Region: Response_reg; pfam00072 376686012331 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 376686012332 active site 376686012333 phosphorylation site [posttranslational modification] 376686012334 intermolecular recognition site; other site 376686012335 dimerization interface [polypeptide binding]; other site 376686012336 Haemolytic domain; Region: Haemolytic; cl00506 376686012337 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 376686012338 Domain of unknown function (DUF4359); Region: DUF4359; pfam14271 376686012339 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 376686012340 beta-galactosidase; Region: BGL; TIGR03356 376686012341 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686012342 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 376686012343 ATP binding site [chemical binding]; other site 376686012344 Mg2+ binding site [ion binding]; other site 376686012345 G-X-G motif; other site 376686012346 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 376686012347 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 376686012348 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 376686012349 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 376686012350 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686012351 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686012352 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686012353 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686012354 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686012355 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686012356 Coenzyme A binding pocket [chemical binding]; other site 376686012357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 376686012358 ACT domain; Region: ACT_3; pfam10000 376686012359 Family description; Region: ACT_7; pfam13840 376686012360 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 376686012361 Zn binding site [ion binding]; other site 376686012362 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 376686012363 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 376686012364 tetrameric interface [polypeptide binding]; other site 376686012365 activator binding site; other site 376686012366 NADP binding site [chemical binding]; other site 376686012367 substrate binding site [chemical binding]; other site 376686012368 catalytic residues [active] 376686012369 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 376686012370 active site residue [active] 376686012371 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686012372 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 376686012373 ligand binding site [chemical binding]; other site 376686012374 flexible hinge region; other site 376686012375 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 376686012376 putative switch regulator; other site 376686012377 non-specific DNA interactions [nucleotide binding]; other site 376686012378 DNA binding site [nucleotide binding] 376686012379 sequence specific DNA binding site [nucleotide binding]; other site 376686012380 putative cAMP binding site [chemical binding]; other site 376686012381 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 376686012382 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686012383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686012384 Coenzyme A binding pocket [chemical binding]; other site 376686012385 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 376686012386 non-specific DNA binding site [nucleotide binding]; other site 376686012387 salt bridge; other site 376686012388 sequence-specific DNA binding site [nucleotide binding]; other site 376686012389 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 376686012390 AAA domain; Region: AAA_21; pfam13304 376686012391 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 376686012392 Q-loop/lid; other site 376686012393 ABC transporter signature motif; other site 376686012394 Walker B; other site 376686012395 D-loop; other site 376686012396 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 376686012397 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 376686012398 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 376686012399 HD domain; Region: HD_3; pfam13023 376686012400 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 376686012401 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 376686012402 active site residue [active] 376686012403 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 376686012404 active site residue [active] 376686012405 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 376686012406 Sulphur transport; Region: Sulf_transp; pfam04143 376686012407 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686012408 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 376686012409 Coenzyme A binding pocket [chemical binding]; other site 376686012410 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 376686012411 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 376686012412 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 376686012413 MarR family; Region: MarR_2; cl17246 376686012414 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 376686012415 dimer interface [polypeptide binding]; other site 376686012416 FMN binding site [chemical binding]; other site 376686012417 YceI-like domain; Region: YceI; pfam04264 376686012418 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 376686012419 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 376686012420 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 376686012421 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 376686012422 Glutamine amidotransferase class-I; Region: GATase; pfam00117 376686012423 glutamine binding [chemical binding]; other site 376686012424 catalytic triad [active] 376686012425 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 376686012426 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 376686012427 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 376686012428 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 376686012429 active site 376686012430 ribulose/triose binding site [chemical binding]; other site 376686012431 phosphate binding site [ion binding]; other site 376686012432 substrate (anthranilate) binding pocket [chemical binding]; other site 376686012433 product (indole) binding pocket [chemical binding]; other site 376686012434 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 376686012435 active site 376686012436 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 376686012437 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 376686012438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686012439 catalytic residue [active] 376686012440 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 376686012441 putative active site pocket [active] 376686012442 dimerization interface [polypeptide binding]; other site 376686012443 putative catalytic residue [active] 376686012444 Predicted amidohydrolase [General function prediction only]; Region: COG0388 376686012445 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 376686012446 active site 376686012447 catalytic triad [active] 376686012448 dimer interface [polypeptide binding]; other site 376686012449 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 376686012450 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 376686012451 substrate binding site [chemical binding]; other site 376686012452 active site 376686012453 catalytic residues [active] 376686012454 heterodimer interface [polypeptide binding]; other site 376686012455 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 376686012456 Zn binding site [ion binding]; other site 376686012457 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686012458 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686012459 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 376686012460 Outer membrane efflux protein; Region: OEP; pfam02321 376686012461 Outer membrane efflux protein; Region: OEP; pfam02321 376686012462 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 376686012463 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 376686012464 HlyD family secretion protein; Region: HlyD_3; pfam13437 376686012465 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 376686012466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686012467 putative substrate translocation pore; other site 376686012468 hypothetical protein; Validated; Region: PRK02101 376686012469 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 376686012470 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 376686012471 active site 376686012472 NTP binding site [chemical binding]; other site 376686012473 metal binding triad [ion binding]; metal-binding site 376686012474 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 376686012475 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 376686012476 Zn2+ binding site [ion binding]; other site 376686012477 Mg2+ binding site [ion binding]; other site 376686012478 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 376686012479 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 376686012480 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 376686012481 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686012482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686012483 active site 376686012484 phosphorylation site [posttranslational modification] 376686012485 intermolecular recognition site; other site 376686012486 dimerization interface [polypeptide binding]; other site 376686012487 LytTr DNA-binding domain; Region: LytTR; smart00850 376686012488 2TM domain; Region: 2TM; pfam13239 376686012489 2TM domain; Region: 2TM; pfam13239 376686012490 2TM domain; Region: 2TM; pfam13239 376686012491 2TM domain; Region: 2TM; pfam13239 376686012492 Histidine kinase; Region: His_kinase; pfam06580 376686012493 2TM domain; Region: 2TM; pfam13239 376686012494 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 376686012495 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686012496 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 376686012497 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 376686012498 DinB superfamily; Region: DinB_2; pfam12867 376686012499 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 376686012500 maltose O-acetyltransferase; Provisional; Region: PRK10092 376686012501 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 376686012502 active site 376686012503 substrate binding site [chemical binding]; other site 376686012504 trimer interface [polypeptide binding]; other site 376686012505 CoA binding site [chemical binding]; other site 376686012506 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 376686012507 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686012508 putative metal binding site [ion binding]; other site 376686012509 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 376686012510 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 376686012511 Cl- selectivity filter; other site 376686012512 Cl- binding residues [ion binding]; other site 376686012513 pore gating glutamate residue; other site 376686012514 dimer interface [polypeptide binding]; other site 376686012515 HPP family; Region: HPP; pfam04982 376686012516 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 376686012517 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 376686012518 four helix bundle protein; Region: TIGR02436 376686012519 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 376686012520 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686012521 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 376686012522 short chain dehydrogenase; Provisional; Region: PRK06500 376686012523 classical (c) SDRs; Region: SDR_c; cd05233 376686012524 NAD(P) binding site [chemical binding]; other site 376686012525 active site 376686012526 GAF domain; Region: GAF_2; pfam13185 376686012527 GAF domain; Region: GAF; pfam01590 376686012528 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 376686012529 Zn2+ binding site [ion binding]; other site 376686012530 Mg2+ binding site [ion binding]; other site 376686012531 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 376686012532 active site 376686012533 metal binding site [ion binding]; metal-binding site 376686012534 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686012535 SdiA-regulated; Region: SdiA-regulated; cd09971 376686012536 putative active site [active] 376686012537 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 376686012538 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 376686012539 Walker A/P-loop; other site 376686012540 ATP binding site [chemical binding]; other site 376686012541 Q-loop/lid; other site 376686012542 ABC transporter signature motif; other site 376686012543 Walker B; other site 376686012544 D-loop; other site 376686012545 H-loop/switch region; other site 376686012546 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 376686012547 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 376686012548 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 376686012549 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 376686012550 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 376686012551 G1 box; other site 376686012552 putative GEF interaction site [polypeptide binding]; other site 376686012553 GTP/Mg2+ binding site [chemical binding]; other site 376686012554 Switch I region; other site 376686012555 G2 box; other site 376686012556 G3 box; other site 376686012557 Switch II region; other site 376686012558 G4 box; other site 376686012559 G5 box; other site 376686012560 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 376686012561 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 376686012562 PAS fold; Region: PAS_3; pfam08447 376686012563 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 376686012564 putative active site [active] 376686012565 heme pocket [chemical binding]; other site 376686012566 PAS domain; Region: PAS_9; pfam13426 376686012567 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 376686012568 putative active site [active] 376686012569 heme pocket [chemical binding]; other site 376686012570 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686012571 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 376686012572 ATP binding site [chemical binding]; other site 376686012573 Mg2+ binding site [ion binding]; other site 376686012574 G-X-G motif; other site 376686012575 Response regulator receiver domain; Region: Response_reg; pfam00072 376686012576 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686012577 active site 376686012578 phosphorylation site [posttranslational modification] 376686012579 intermolecular recognition site; other site 376686012580 dimerization interface [polypeptide binding]; other site 376686012581 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 376686012582 prolyl-tRNA synthetase; Provisional; Region: PRK08661 376686012583 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 376686012584 dimer interface [polypeptide binding]; other site 376686012585 motif 1; other site 376686012586 active site 376686012587 motif 2; other site 376686012588 motif 3; other site 376686012589 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 376686012590 anticodon binding site; other site 376686012591 zinc-binding site [ion binding]; other site 376686012592 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 376686012593 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 376686012594 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 376686012595 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 376686012596 FeS/SAM binding site; other site 376686012597 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 376686012598 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 376686012599 amidase catalytic site [active] 376686012600 Zn binding residues [ion binding]; other site 376686012601 substrate binding site [chemical binding]; other site 376686012602 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 376686012603 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 376686012604 alpha-galactosidase; Region: PLN02808; cl17638 376686012605 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 376686012606 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 376686012607 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686012608 SusD family; Region: SusD; pfam07980 376686012609 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686012610 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686012611 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 376686012612 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 376686012613 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686012614 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686012615 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 376686012616 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 376686012617 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686012618 putative substrate translocation pore; other site 376686012619 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686012620 active site 376686012621 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 376686012622 dimerization interface [polypeptide binding]; other site 376686012623 putative active cleft [active] 376686012624 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 376686012625 Endo-beta-mannanase [Carbohydrate transport and metabolism]; Region: COG3934 376686012626 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686012627 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 376686012628 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 376686012629 active site 376686012630 catalytic tetrad [active] 376686012631 Protein of unknown function (DUF433); Region: DUF433; pfam04255 376686012632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 376686012633 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686012634 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 376686012635 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 376686012636 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686012637 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 376686012638 active site 376686012639 catalytic triad [active] 376686012640 oxyanion hole [active] 376686012641 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 376686012642 NlpC/P60 family; Region: NLPC_P60; pfam00877 376686012643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 376686012644 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 376686012645 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 376686012646 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 376686012647 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686012648 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 376686012649 dimer interface [polypeptide binding]; other site 376686012650 phosphorylation site [posttranslational modification] 376686012651 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 376686012652 ATP binding site [chemical binding]; other site 376686012653 Mg2+ binding site [ion binding]; other site 376686012654 G-X-G motif; other site 376686012655 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686012656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686012657 active site 376686012658 phosphorylation site [posttranslational modification] 376686012659 intermolecular recognition site; other site 376686012660 dimerization interface [polypeptide binding]; other site 376686012661 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 376686012662 DNA binding site [nucleotide binding] 376686012663 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 376686012664 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686012665 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 376686012666 B12 binding site [chemical binding]; other site 376686012667 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 376686012668 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 376686012669 metabolite-proton symporter; Region: 2A0106; TIGR00883 376686012670 putative substrate translocation pore; other site 376686012671 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 376686012672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 376686012673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 376686012674 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 376686012675 active site 376686012676 multimer interface [polypeptide binding]; other site 376686012677 Protein of unknown function (DUF721); Region: DUF721; pfam05258 376686012678 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686012679 Beta-lactamase; Region: Beta-lactamase; pfam00144 376686012680 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 376686012681 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 376686012682 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 376686012683 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 376686012684 ribosomal protein L33; Region: rpl33; CHL00104 376686012685 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 376686012686 competence damage-inducible protein A; Provisional; Region: PRK00549 376686012687 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 376686012688 putative MPT binding site; other site 376686012689 Competence-damaged protein; Region: CinA; pfam02464 376686012690 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 376686012691 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 376686012692 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 376686012693 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686012694 active site 376686012695 catalytic site [active] 376686012696 substrate binding site [chemical binding]; other site 376686012697 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 376686012698 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 376686012699 E3 interaction surface; other site 376686012700 lipoyl attachment site [posttranslational modification]; other site 376686012701 e3 binding domain; Region: E3_binding; pfam02817 376686012702 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 376686012703 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686012704 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 376686012705 Probable Catalytic site; other site 376686012706 metal-binding site 376686012707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 376686012708 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 376686012709 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 376686012710 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 376686012711 Bacterial sugar transferase; Region: Bac_transf; pfam02397 376686012712 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 376686012713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 376686012714 Walker A/P-loop; other site 376686012715 ATP binding site [chemical binding]; other site 376686012716 Q-loop/lid; other site 376686012717 ABC transporter signature motif; other site 376686012718 Walker B; other site 376686012719 D-loop; other site 376686012720 H-loop/switch region; other site 376686012721 ABC transporter; Region: ABC_tran_2; pfam12848 376686012722 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 376686012723 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 376686012724 Methyltransferase domain; Region: Methyltransf_24; pfam13578 376686012725 Helix-turn-helix domain; Region: HTH_19; pfam12844 376686012726 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 376686012727 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 376686012728 Walker A/P-loop; other site 376686012729 ATP binding site [chemical binding]; other site 376686012730 Q-loop/lid; other site 376686012731 ABC transporter signature motif; other site 376686012732 Walker B; other site 376686012733 D-loop; other site 376686012734 H-loop/switch region; other site 376686012735 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 376686012736 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 376686012737 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 376686012738 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 376686012739 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 376686012740 nucleotide binding region [chemical binding]; other site 376686012741 ATP-binding site [chemical binding]; other site 376686012742 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 376686012743 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 376686012744 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 376686012745 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 376686012746 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 376686012747 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 376686012748 AAA domain; Region: AAA_33; pfam13671 376686012749 ligand-binding site [chemical binding]; other site 376686012750 NAD-dependent deacetylase; Provisional; Region: PRK00481 376686012751 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 376686012752 NAD+ binding site [chemical binding]; other site 376686012753 substrate binding site [chemical binding]; other site 376686012754 Zn binding site [ion binding]; other site 376686012755 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 376686012756 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 376686012757 adenylosuccinate lyase; Provisional; Region: PRK09285 376686012758 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 376686012759 tetramer interface [polypeptide binding]; other site 376686012760 active site 376686012761 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 376686012762 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 376686012763 TrkA-C domain; Region: TrkA_C; pfam02080 376686012764 TrkA-C domain; Region: TrkA_C; pfam02080 376686012765 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 376686012766 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 376686012767 dimer interface [polypeptide binding]; other site 376686012768 decamer (pentamer of dimers) interface [polypeptide binding]; other site 376686012769 catalytic triad [active] 376686012770 Predicted permeases [General function prediction only]; Region: COG0679 376686012771 Predicted transcriptional regulator [Transcription]; Region: COG1959 376686012772 Transcriptional regulator; Region: Rrf2; pfam02082 376686012773 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 376686012774 NADH(P)-binding; Region: NAD_binding_10; pfam13460 376686012775 NAD binding site [chemical binding]; other site 376686012776 substrate binding site [chemical binding]; other site 376686012777 putative active site [active] 376686012778 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 376686012779 GTP/Mg2+ binding site [chemical binding]; other site 376686012780 G4 box; other site 376686012781 membrane ATPase/protein kinase; Provisional; Region: PRK09435 376686012782 G5 box; other site 376686012783 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 376686012784 Walker A; other site 376686012785 G1 box; other site 376686012786 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 376686012787 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 376686012788 Sulfatase; Region: Sulfatase; pfam00884 376686012789 multidrug efflux protein; Reviewed; Region: PRK01766 376686012790 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 376686012791 cation binding site [ion binding]; other site 376686012792 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686012793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686012794 active site 376686012795 phosphorylation site [posttranslational modification] 376686012796 intermolecular recognition site; other site 376686012797 dimerization interface [polypeptide binding]; other site 376686012798 LytTr DNA-binding domain; Region: LytTR; smart00850 376686012799 Histidine kinase; Region: His_kinase; pfam06580 376686012800 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 376686012801 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 376686012802 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686012803 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686012804 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686012805 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 376686012806 DNA binding residues [nucleotide binding] 376686012807 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686012808 Cna protein B-type domain; Region: Cna_B_2; pfam13715 376686012809 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 376686012810 von Willebrand factor; Region: vWF_A; pfam12450 376686012811 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 376686012812 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 376686012813 metal ion-dependent adhesion site (MIDAS); other site 376686012814 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 376686012815 Scramblase; Region: Scramblase; pfam03803 376686012816 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 376686012817 classical (c) SDRs; Region: SDR_c; cd05233 376686012818 NAD(P) binding site [chemical binding]; other site 376686012819 active site 376686012820 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 376686012821 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 376686012822 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686012823 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 376686012824 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 376686012825 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 376686012826 motif II; other site 376686012827 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 376686012828 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 376686012829 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 376686012830 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 376686012831 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 376686012832 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 376686012833 ATP binding site [chemical binding]; other site 376686012834 putative Mg++ binding site [ion binding]; other site 376686012835 Response regulator receiver domain; Region: Response_reg; pfam00072 376686012836 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 376686012837 active site 376686012838 phosphorylation site [posttranslational modification] 376686012839 intermolecular recognition site; other site 376686012840 dimerization interface [polypeptide binding]; other site 376686012841 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 376686012842 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686012843 Walker A motif; other site 376686012844 ATP binding site [chemical binding]; other site 376686012845 Walker B motif; other site 376686012846 arginine finger; other site 376686012847 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 376686012848 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 376686012849 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 376686012850 Walker A/P-loop; other site 376686012851 ATP binding site [chemical binding]; other site 376686012852 Q-loop/lid; other site 376686012853 ABC transporter signature motif; other site 376686012854 Walker B; other site 376686012855 D-loop; other site 376686012856 H-loop/switch region; other site 376686012857 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 376686012858 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 376686012859 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 376686012860 HSP70 interaction site [polypeptide binding]; other site 376686012861 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 376686012862 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 376686012863 dimer interface [polypeptide binding]; other site 376686012864 GrpE; Region: GrpE; pfam01025 376686012865 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 376686012866 dimer interface [polypeptide binding]; other site 376686012867 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 376686012868 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 376686012869 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 376686012870 dimer interface [polypeptide binding]; other site 376686012871 motif 1; other site 376686012872 active site 376686012873 motif 2; other site 376686012874 motif 3; other site 376686012875 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 376686012876 anticodon binding site; other site 376686012877 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686012878 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 376686012879 FtsX-like permease family; Region: FtsX; pfam02687 376686012880 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 376686012881 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 376686012882 S-adenosylmethionine binding site [chemical binding]; other site 376686012883 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686012884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686012885 Coenzyme A binding pocket [chemical binding]; other site