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(-) Description

Title :  CRYSTAL STRUCTURE OF THE PHENOL-RESPONSIVE SENSORY DOMAIN OF THE TRANSCRIPTION ACTIVATOR POXR IN COMPLEX WITH 4-METHYLPHENOL (CRESOL)
 
Authors :  V. V. Patil, E. J. Woo
Date :  23 Dec 15  (Deposition) - 30 Mar 16  (Release) - 20 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transcription, Phenol, Poxr, Dmpr, Enhancer-Binding Protein, Activator, Atpase Family (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. V. Patil, K. -H. Park, S. -G. Lee, E. J. Woo
Structural Analysis Of The Phenol-Responsive Sensory Domain Of The Transcription Activator Poxr
Structure V. 624 24 2016
PubMed-ID: 27050690  |  Reference-DOI: 10.1016/J.STR.2016.03.006

(-) Compounds

Molecule 1 - POSITIVE PHENOL-DEGRADATIVE GENE REGULATOR
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B-CPD
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: PHENOL BINDING DOMAIN, RESIDUES 1-211
    Organism Scientific: CUPRIAVIDUS NECATOR
    Organism Taxid: 106590
    Synonym: POXR
    Variant: E2

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1PCR2Ligand/IonP-CRESOL
2ZN2Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:151 , GLU A:174 , CYS A:177 , CYS A:185BINDING SITE FOR RESIDUE ZN A1209
2AC2SOFTWARECYS B:151 , GLU B:174 , CYS B:177 , CYS B:185BINDING SITE FOR RESIDUE ZN B1209
3AC3SOFTWARELEU B:95 , PRO B:99 , HIS B:102 , VAL B:110 , PHE B:128 , TRP B:130 , TYR B:157 , THR B:162 , TYR B:172BINDING SITE FOR RESIDUE PCR B1210
4AC4SOFTWAREGLY A:98 , PRO A:99 , HIS A:102 , VAL A:110 , TRP A:130 , THR A:162 , TYR A:172BINDING SITE FOR RESIDUE PCR A1210

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5FRV)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ser B:9 -Ala B:10

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5FRV)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5FRV)

(-) Exons   (0, 0)

(no "Exon" information available for 5FRV)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:200
                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhh.eeee....eeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh...eeeeeeeeee....eeeeeeeee.hhhhhhhhhhhh......hhhhhhhhhhhhhhhhh..eeeeeeehhhhh...eeeeeee.hhh.hhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5frv A   9 SATMRDGLSNLARRLRFAMKEGSIWLGEQRMILLHTAALGALRKELVDTLGMERARGLFMRMGFHSGVRDAELAKTMRSGHSDFGMLEMGPCLHTIEGVVRVTPLTVDINIAAGVYHGEFLWEDSFEGDVHRQMFGVAQAPVCWMQIGYATGYTSALMGKTILYRELECVGCGHPHCRILGKPLEQWEDGEAELALYQPD 208
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208


Chain B from PDB  Type:PROTEIN  Length:200
                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhh.eeeehhhheeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh...eeeeeeeeee....eeeeeeeee.hhhhhhhhhhhh......hhhhhhhhhhhhhhhhh..eeeeeeehhhhh...eeeeeee.hhh.hhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5frv B   9 SATMRDGLSNLARRLRFAMKEGSIWLGEQRMILLHTAALGALRKELVDTLGMERARGLFMRMGFHSGVRDAELAKTMRSGHSDFGMLEMGPCLHTIEGVVRVTPLTVDINIAAGVYHGEFLWEDSFEGDVHRQMFGVAQAPVCWMQIGYATGYTSALMGKTILYRELECVGCGHPHCRILGKPLEQWEDGEAELALYQPD 208
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5FRV)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5FRV)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5FRV)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        O84957_9RALS | O84957: 5fru 5frw 5frx 5fry 5frz 5fs0

(-) Related Entries Specified in the PDB File

5fru CRYSTAL STRUCTURE OF THE PHENOL-RESPONSIVE SENSORY DOMAIN OF THE TRANSCRIPTION ACTIVATOR POXR
5frw CRYSTAL STRUCTURE OF THE PHENOL-RESPONSIVE SENSORY DOMAIN OF THE TRANSCRIPTION ACTIVATOR POXR WITH PHENOL
5frx CRYSTAL STRUCTURE OF THE PHENOL-RESPONSIVE SENSORY DOMAIN OF THE TRANSCRIPTION ACTIVATOR POXR IN COMPLEX WITH 4-NITROPHENOL
5fry CRYSTAL STRUCTURE OF THE PHENOL-RESPONSIVE SENSORY DOMAIN OF THE TRANSCRIPTION ACTIVATOR POXR WITH 3,5- DIMETHYLPHENOL
5frz CRYSTAL STRUCTURE OF THE PHENOL-RESPONSIVE SENSORY DOMAIN OF THE TRANSCRIPTION ACTIVATOR POXR WITH 3,4- DIMETHYLPHENOL
5fs0 CRYSTAL STRUCTURE OF THE PHENOL-RESPONSIVE SENSORY DOMAIN OF THE TRANSCRIPTION ACTIVATOR POXR WITH 2,4- DICHLOROPHENOL