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(-) Description

Title :  OCPA COMPLEXED CPRK
 
Authors :  C. Levy
Date :  14 Aug 08  (Deposition) - 09 Dec 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Cprk, Halorespiration, Transcriptional Regulator, Transcription Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Levy, K. Pike, D. J. Heyes, M. G. Joyce, K. Gabor, H. Smidt, J. Van Der Oost, D. Leys
Molecular Basis Of Halorespiration Control By Cprk, A Crp-Fnr Type Transcriptional Regulator
Mol. Microbiol. V. 70 151 2008
PubMed-ID: 18717788  |  Reference-DOI: 10.1111/J.1365-2958.2008.06399.X

(-) Compounds

Molecule 1 - CYCLIC NUCLEOTIDE-BINDING PROTEIN
    Chains: A, C, B, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTRC99
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: DHAF_0678
    Organism Scientific: DESULFITOBACTERIUM HAFNIENSE
    Organism Taxid: 272564
    Strain: DCB-2
    Synonym: CPRK

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 5)

Asymmetric Unit (1, 5)
No.NameCountTypeFull Name
13C45Ligand/Ion(3-CHLORO-4-HYDROXYPHENYL)ACETIC ACID
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
13C43Ligand/Ion(3-CHLORO-4-HYDROXYPHENYL)ACETIC ACID
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
13C42Ligand/Ion(3-CHLORO-4-HYDROXYPHENYL)ACETIC ACID

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR 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 , LEU B:131 , VAL B:134 , ALA B:135BINDING SITE FOR RESIDUE 3C4 A 501
2AC2SOFTWARETYR C:76 , ILE C:84 , GLY C:85 , LYS C:86 , THR C:90 , ASN C:92 , ILE C:94 , TYR C:130 , LYS C:133 , VAL D:134 , ALA D:135BINDING SITE FOR RESIDUE 3C4 C 502
3AC3SOFTWAREASP B:36 , PHE B:37 , ALA B:38 , GLU B:58 , PRO B:101 , THR B:102 , ARG B:103BINDING SITE FOR RESIDUE 3C4 B 505
4AC4SOFTWARELEU A:131 , VAL A:134 , ALA A:135 , TYR B:76 , ILE B:84 , GLY B:85 , LYS B:86 , THR B:90 , ASN B:92 , ILE B:94 , TYR B:130 , LYS B:133BINDING SITE FOR RESIDUE 3C4 B 504
5AC5SOFTWARELEU C:131 , VAL C:134 , ALA C:135 , TYR D:76 , ILE D:84 , GLY D:85 , LYS D:86 , THR D:90 , ASN D:92 , ILE D:94 , TYR D:130 , LYS D:133BINDING SITE FOR RESIDUE 3C4 D 503

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3E5X)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3E5X)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3E5X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3E5X)

(-) Exons   (0, 0)

(no "Exon" information available for 3E5X)

(-) 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:214
 aligned with B8FW11_DESHD | B8FW11 from UniProtKB/TrEMBL  Length:232

    Alignment length:214
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218    
         B8FW11_DESHD     9 DFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGEL 222
               SCOP domains d3e5xa1 A:9-147 Chlorophenol reduction protein CprK                                                                                        d3e5xa2 A:148-222 Chlorophenol reduction protein CprK                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhheeeee....eee........eeeeee..eeeeee.....eeeeeee....ee........eeeeee...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhheee..eeeee...hhhhhhhhhh.hhhhhhhhhhhhhhh..ee....eeee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3e5x A   9 DFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGEL 222
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218    


Chain B from PDB  Type:PROTEIN  Length:219
 aligned with B8FW11_DESHD | B8FW11 from UniProtKB/TrEMBL  Length:232

    Alignment length:219
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218         
         B8FW11_DESHD     9 DFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGELKHLSE 227
               SCOP domains d3e5xb1 B:9-147 Chlorophenol reduction protein CprK                                                                                        d3e5xb2 B:148-227 Chlorophenol reduction protein CprK                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhheeeee....eee........eeeeee.eeeeeee.....eeeeeeee...ee........eeeeee...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhheee..eeee....hhhhhhhhhh.hhhhhhhhhhhhhhh..eee....eee.hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3e5x B   9 DFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGELKHLSE 227
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218         


Chain C from PDB  Type:PROTEIN  Length:214
 aligned with B8FW11_DESHD | B8FW11 from UniProtKB/TrEMBL  Length:232

    Alignment length:214
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218    
         B8FW11_DESHD     9 DFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGEL 222
               SCOP domains d3e5xc1 C:9-147 Chlorophenol reduction protein CprK                                                                                        d3e5xc2 C:148-222 Chlorophenol reduction protein CprK                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhheeeee....eee.......eeeeeee..eeeeee.....eeeeeee....ee........eeeeee...eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhheee..eeee....hhhhhhhhhh.hhhhhhhhhhhhhhh..eee....eee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3e5x C   9 DFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGEL 222
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218    


Chain D from PDB  Type:PROTEIN  Length:220
 aligned with B8FW11_DESHD | B8FW11 from UniProtKB/TrEMBL  Length:232

    Alignment length:220
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228
         B8FW11_DESHD     9 DFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGELKHLSEQ 228
               SCOP domains d3e5xd1 D:9-147 Chlorophenol reduction protein CprK                                                                                        d3e5xd2 D:148-228 Chlorophenol reduction protein CprK                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhheeeee....eee........eeeeee.eeeeeee.....eeeeeeee...ee........eeeeee...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheee..eeeee...hhhhhhhhhh.hhhhhhhhhhhhhhh..ee....eeee.hhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3e5x D   9 DFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQVAEMNTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQKSIGEITGVHHVTVSRVLACLKRENILDKKKNKIIVYNLGELKHLSEQ 228
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228
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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  (2, 8)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3E5X)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3E5X)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (B8FW11_DESHD | B8FW11)
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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 Related Entries

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UniProtKB/TrEMBL
        B8FW11_DESHD | B8FW11: 3e5q 3e5u 3e6b 3e6c 3e6d

(-) Related Entries Specified in the PDB File

3e5q 3e5u 3e6b 3e6c 3e6d