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(-) Description

Title :  CRYSTAL STRUCTURE OF OXIDIZED CPRK IN COMPLEX WITH O-CHLOROPHENOLACETIC ACID
 
Authors :  M. G. Joyce, C. Levy, D. Leys
Date :  31 May 06  (Deposition) - 04 Jul 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (4x)
Biol. Unit 2:  A,B  (2x)
Keywords :  Halorespiration, Dna Binding, Chlorinated Ligand, Chlorophenol, Cprk, Helix-Turn-Helix, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. G. Joyce, C. Levy, S. M. Pop, B. D. Biehl, T. I. Doukov, J. M. Ryter, H. Mazon, H. Smidt, R. H. Van Den Heuvel, S. W. Ragsdale, J. Van Der Oost, D. Leys
Cprk Crystal Structures Reveal Mechanism For Transcriptiona Control Of Halorespiration.
J. Biol. Chem. V. 281 28318 2006
PubMed-ID: 16803881  |  Reference-DOI: 10.1074/JBC.M602654200

(-) Compounds

Molecule 1 - CHLOROPHENOL REDUCTION GENE K
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: DESULFITOBACTERIUM HAFNIENSE
    Organism Taxid: 49338
    Synonym: CPRK

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (4x): AB
Biological Unit 2 (2x): AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
13C42Ligand/Ion(3-CHLORO-4-HYDROXYPHENYL)ACETIC ACID
2SO42Ligand/IonSULFATE ION
Biological Unit 1 (2, 16)
No.NameCountTypeFull Name
13C48Ligand/Ion(3-CHLORO-4-HYDROXYPHENYL)ACETIC ACID
2SO48Ligand/IonSULFATE ION
Biological Unit 2 (2, 8)
No.NameCountTypeFull Name
13C44Ligand/Ion(3-CHLORO-4-HYDROXYPHENYL)ACETIC ACID
2SO44Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:179 , GLN A:180 , LYS A:209 , HOH A:309 , HOH A:332BINDING SITE FOR RESIDUE SO4 A 251
2AC2SOFTWARESER B:179 , GLN B:180 , LYS B:181 , LYS B:209 , HOH B:309BINDING SITE FOR RESIDUE SO4 B 251
3AC3SOFTWAREVAL A:134 , TYR B:76 , ILE B:84 , GLY B:85 , LYS B:86 , THR B:90 , ASN B:92 , ILE B:94 , LYS B:133BINDING SITE FOR RESIDUE 3C4 B 301
4AC4SOFTWARETYR A:76 , ILE A:84 , GLY A:85 , LYS A:86 , THR A:90 , ASN A:92 , ILE A:94 , TYR A:130 , LYS A:133 , VAL B:134BINDING SITE FOR RESIDUE 3C4 A 302

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:11 -B:200
2A:200 -B:11

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2H6B)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2H6B)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2H6B)

(-) Exons   (0, 0)

(no "Exon" information available for 2H6B)

(-) Sequences/Alignments

Asymmetric 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:239
 aligned with Q8RPJ2_DESHA | Q8RPJ2 from UniProtKB/TrEMBL  Length:202

    Alignment length:239
                                                        1                                                                                                                                                                                                   199       200  
                                     -         -        |2        12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192      |  -      |  
         Q8RPJ2_DESHA     - ----------------------------MGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGELKHLSEQT---------SYY 202
               SCOP domains d2h6ba2 A:3-147 Chlorophenol reduction protein CprK                                                                                              d2h6ba1 A:148-229 Chlorophenol reduction protein CprK                             ------------ SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee..eeee.....hhhhhhhhhhheeeee....eee........eeeeee..eeeeee.....eeeeeee....ee........eeeeee...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee..hhhhhhhhhhhhhhhheee..eeeee...hhhhhhhhhh.hhhhhhhhhhhhhhh..eee...eeee.hhhhhhhhhh...eehhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2h6b A   3 VEGLGKDFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGELKHLSEQTSVDKLAAALDHH 250
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222      |241         
                                                                                                                                                                                                                                                            229|           
                                                                                                                                                                                                                                                             239           


Chain B from PDB  Type:PROTEIN  Length:235
 aligned with Q8RPJ2_DESHA | Q8RPJ2 from UniProtKB/TrEMBL  Length:202

    Alignment length:235
                                                  1                                                                                                                                                                                                      202           
                                     -         -  |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198   |     -     
         Q8RPJ2_DESHA     - ----------------------MGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGELKHLSEQTSYY-----------   -
               SCOP domains d2h6bb2 B:9-147 Chlorophenol reduction protein CprK                                                                                        d2h6bb1 B:148-243 Chlorophenol reduction protein CprK                                            SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhh......hhhhhhhhhhheeeee....eee........eeeeee..eeeeee.....eeeeeee....ee........eeeeee...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhheee..eeee....hhhhhhhhhh.hhhhhhhhhhhhhhh..eee....eee.hhhhhhhhh.......hhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2h6b B   9 DFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGELKHLSEQTSYYSDPNSSSVDKL 243
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 4)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2H6B)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2H6B)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q8RPJ2_DESHA | Q8RPJ2)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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