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(-) Description

Title :  STRUCTURE OF RAD14 IN COMPLEX WITH CISPLATIN CONTAINING DNA
 
Authors :  S. C. Koch, J. Kuper, K. L. Gasteiger, N. Wichlein, R. Strasser, D. Eisen S. Geiger, S. Schneider, C. Kisker, T. Carell
Date :  28 May 15  (Deposition) - 24 Jun 15  (Release) - 22 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A (1x),B (1x),C (1x),D (1x),E (1x),F (1x),G (1x),H (1x)
Biol. Unit 2:  A (1x),B (1x),C (1x),D (1x),E (1x),F (1x),G (1x),H (1x)
Keywords :  Replication, Dna Repair, Dna Damage Recognition, Cisplatin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. C. Koch, J. Kuper, K. L. Gasteiger, N. Simon, R. Strasser, D. Eisen, S. Geiger, S. Schneider, C. Kisker, T. Carell
Structural Insights Into The Recognition Of Cisplatin And Aaf-Dg Lesion By Rad14 (Xpa).
Proc. Natl. Acad. Sci. Usa V. 112 8272 2015
PubMed-ID: 26100901  |  Reference-DOI: 10.1073/PNAS.1508509112

(-) Compounds

Molecule 1 - DNA REPAIR PROTEIN RAD14
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Fragment: DNA BINDING DOMAIN, UNP RESIDUES 188-302
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: RAD14
 
Molecule 2 - DNA
    Chains: C, D
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
 
Molecule 3 - 5'-D(*DTP*GP*AP*TP*GP*AP*CP*CP*GP*TP*AP*GP*AP)-3'
    Chains: E, F
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
 
Molecule 4 - 5'-D(*DGP*AP*TP*GP*AP*CP*CP*GP*TP*AP*GP*AP*GP)-3'
    Chains: G, H
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): A (1x)B (1x)C (1x)D (1x)E (1x)F (1x)G (1x)H (1x)
Biological Unit 2 (1x): A (1x)B (1x)C (1x)D (1x)E (1x)F (1x)G (1x)H (1x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1CPT4Ligand/IonCISPLATIN
2ZN2Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CPT-1Ligand/IonCISPLATIN
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CPT-1Ligand/IonCISPLATIN
2ZN-1Ligand/IonZINC ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:103 , CYS A:106 , CYS A:125 , CYS A:128BINDING SITE FOR RESIDUE ZN A 300
2AC2SOFTWARECYS B:103 , CYS B:106 , CYS B:125 , CYS B:128BINDING SITE FOR RESIDUE ZN B 300
3AC3SOFTWAREDC C:7 , DG C:8 , DG C:9 , DT C:10 , CPT C:1016BINDING SITE FOR RESIDUE CPT C1015
4AC4SOFTWAREDC C:7 , DG C:8 , CPT C:1015BINDING SITE FOR RESIDUE CPT C1016
5AC5SOFTWARECPT D:1016 , DC G:6 , DG G:7BINDING SITE FOR RESIDUE CPT D1015
6AC6SOFTWARECPT D:1015 , DA G:4 , DC G:5 , DC G:6 , DG G:7BINDING SITE FOR RESIDUE CPT D1016

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5A39)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5A39)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5A39)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5A39)

(-) Exons   (0, 0)

(no "Exon" information available for 5A39)

(-) 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:114
                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............hhhhhhh.....hhhhhhhhhhhhheeehhhhhhhhh.hhhhhh.......eee..........eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 5a39 A 100 APKCIECHINIEMDPVLHDVFKLQVCKQCSKEHPEKYALLTKTECKEDYFLTDPELNDEDLFHRLEKPNPHSGTFARMQLFVRCEVEAFAFKKWGGEEGLDEEWQRREEGKAHR 213
                                   109       119       129       139       149       159       169       179       189       199       209    


Chain B from PDB  Type:PROTEIN  Length:115
                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhh.....hhhhhhhhhhhhheeehhhhhhhhh.hhhhhh.......eee..........eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 5a39 B 100 APKCIECHINIEMDPVLHDVFKLQVCKQCSKEHPEKYALLTKTECKEDYFLTDPELNDEDLFHRLEKPNPHSGTFARMQLFVRCEVEAFAFKKWGGEEGLDEEWQRREEGKAHRR 214
                                   109       119       129       139       149       159       169       179       189       199       209     


Chain C from PDB  Type:DNA  Length:15
                                               
                 5a39 C   1 TCTCTACGGTCATCA  15
                                    10     


Chain D from PDB  Type:DNA  Length:15
                                               
                 5a39 D   1 TCTCTACGGTCATCA  15
                                    10     


Chain E from PDB  Type:DNA  Length:13
                                             
                 5a39 E   2 TGATGACCGTAGA  14
                                    11   


Chain F from PDB  Type:DNA  Length:13
                                             
                 5a39 F   2 TGATGACCGTAGA  14
                                    11   


Chain G from PDB  Type:DNA  Length:13
                                             
                 5a39 G   0 GATGACCGTAGAG  12
                                     9   


Chain H from PDB  Type:DNA  Length:13
                                             
                 5a39 H   0 GATGACCGTAGAG  12
                                     9
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  - → 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 5A39)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5A39)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5A39)

(-) Gene Ontology  (15, 15)

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  5a39
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  RAD14_YEAST | P28519
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 Related Entries

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

UniProtKB/Swiss-Prot
        RAD14_YEAST | P28519: 5a3d 5g32 5g33 5g34 5g35 5lcl 5lcm

(-) Related Entries Specified in the PDB File

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