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(-) Description

Title :  CRYSTAL STRUCTURE OF THE PHENOL-RESPONSIVE SENSORY DOMAIN OF THE TRANSCRIPTION ACTIVATOR POXR WITH PHENOL
 
Authors :  V. V. Patil, E. J. Woo
Date :  23 Dec 15  (Deposition) - 06 Apr 16  (Release) - 20 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transcription, Phenol, 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, UNP 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
1IPH2Ligand/IonPHENOL
2ZN2Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS B:102 , VAL B:110 , TRP B:130BINDING SITE FOR RESIDUE IPH B1209
2AC2SOFTWAREPRO A:99 , HIS A:102 , VAL A:110 , PHE A:128 , TRP A:130BINDING SITE FOR RESIDUE IPH A1209
3AC3SOFTWARECYS A:151 , GLU A:174 , CYS A:177 , CYS A:185BINDING SITE FOR RESIDUE ZN A1210
4AC4SOFTWARECYS B:151 , GLU B:174 , CYS B:177 , CYS B:185BINDING SITE FOR RESIDUE ZN B1210

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ala A:10 -Thr A:11

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5FRW)

(-) 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:201
                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh.eeee....eeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh...eeeeeeeeee....eeeeeeeee.hhhhhhhhhhhh......hhhhhhhhhhhhhhhhh..eeeeeeehhhhh...eeeeeee.hhh.hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5frw A   8 FSATMRDGLSNLARRLRFAMKEGSIWLGEQRMILLHTAALGALRKELVDTLGMERARGLFMRMGFHSGVRDAELAKTMRSGHSDFGMLEMGPCLHTIEGVVRVTPLTVDINIAAGVYHGEFLWEDSFEGDVHRQMFGVAQAPVCWMQIGYATGYTSALMGKTILYRELECVGCGHPHCRILGKPLEQWEDGEAELALYQPD 208
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207 


Chain B from PDB  Type:PROTEIN  Length:198
                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhh.eeeehhhheeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh...eeeeeeeeee....eeeeeeeee.hhhhhhhhhhh.......hhhhhhhhhhhhhhhhh..eeeeeeehhhhh...eeeeeee.hhh.....hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5frw B  11 TMRDGLSNLARRLRFAMKEGSIWLGEQRMILLHTAALGALRKELVDTLGMERARGLFMRMGFHSGVRDAELAKTMRSGHSDFGMLEMGPCLHTIEGVVRVTPLTVDINIAAGVYHGEFLWEDSFEGDVHRQMFGVAQAPVCWMQIGYATGYTSALMGKTILYRELECVGCGHPHCRILGKPLEQWEDGEAELALYQPD 208
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 5FRW)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) 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 5frv 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
5frv CRYSTAL STRUCTURE OF THE PHENOL-RESPONSIVE SENSORY DOMAIN OF THE TRANSCRIPTION ACTIVATOR POXR IN COMPLEX WITH 4-METHYLPHENOL (CRESOL)
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