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(-) Description

Title :  WILMS TUMOR PROTEIN (WT1) Q369R ZNF2-4 IN COMPLEX WITH DNA
 
Authors :  H. Hashimoto, X. Cheng
Date :  23 Jun 16  (Deposition) - 14 Sep 16  (Release) - 14 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.64
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Zinc Finger, Wilms Tumor, Transcription-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Hashimoto, X. Zhang, Y. Zheng, G. G. Wilson, X. Cheng
Denys-Drash Syndrome Associated Wt1 Glutamine 369 Mutants Have Altered Sequence-Preferences And Altered Responses To Epigenetic Modifications.
Nucleic Acids Res. V. 44 10165 2016
PubMed-ID: 27596598  |  Reference-DOI: 10.1093/NAR/GKW766

(-) Compounds

Molecule 1 - WILMS TUMOR PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PXC1302
    Expression System Strain: BL21 (DE3) RIL-CODON PLUS
    Expression System Taxid: 562
    Expression System Vector Type: PGEX-6P-1
    Gene: WT1
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: WT33
    Variant: -KTS
 
Molecule 2 - DNA (5'-D(*AP*GP*CP*GP*TP*GP*GP*GP*GP*GP*T)-3')
    Chains: B
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES
 
Molecule 3 - DNA (5'-D(*TP*AP*CP*CP*CP*CP*CP*AP*CP*GP*C)-3')
    Chains: C
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1ZN3Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:355 , CYS A:360 , HIS A:373 , HIS A:377binding site for residue ZN A 501
2AC2SOFTWARECYS A:385 , CYS A:388 , HIS A:401 , HIS A:405binding site for residue ZN A 502
3AC3SOFTWARECYS A:413 , CYS A:418 , HIS A:431 , HIS A:435binding site for residue ZN A 503

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5KL6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5KL6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5KL6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5KL6)

(-) Exons   (0, 0)

(no "Exon" information available for 5KL6)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
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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:87
                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee........ee.hhhhhhhhhhhhhh...ee......ee.hhhhhhhhhhhhhh...ee........ee.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 5kl6 A 351 KPYQCDFKDCERRFSRSDRLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRHHNMHQR 437
                                   360       370       380       390       400       410       420       430       


Chain B from PDB  Type:DNA  Length:11
                                           
                 5kl6 B   1 AGCGTGGGGGT  11
                                    10 


Chain C from PDB  Type:DNA  Length:11
                                           
                 5kl6 C   1 TACCCCCACGC  11
                                    10
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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  (0, 0)

(no "SCOP Domain" information available for 5KL6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5KL6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5KL6)

(-) Gene Ontology  (65, 65)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        WT1_HUMAN | P19544: 1lu6 1xf7 2g7t 2g7v 2g7w 2g7x 2jp9 2jpa 2prt 3hpj 3myj 4r2e 4r2p 4r2q 4r2r 4r2s 4wuu 5kl2 5kl3 5kl4 5kl5 5kl7

(-) Related Entries Specified in the PDB File

5kl2 5kl3 5kl4 5kl5 5kl7