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(-) Description

Title :  CRYSTAL STRUCTURE OF RBBP4 BOUND TO PHF6 PEPTIDE
 
Authors :  Z. Liu, F. Li, B. Zhang, S. Li, J. Wu, Y. Shi
Date :  27 Aug 14  (Deposition) - 14 Jan 15  (Release) - 08 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Wd40 Repeat Domain, Gene Regulation, Nuclear (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Liu, F. Li, B. Zhang, S. Li, J. Wu, Y. Shi
Structural Basis Of Plant Homeodomain Finger 6 (Phf6) Recognition By The Retinoblastoma Binding Protein 4 (Rbbp4) Component Of The Nucleosome Remodeling And Deacetylase (Nurd) Complex
J. Biol. Chem. V. 290 6630 2015
PubMed-ID: 25601084  |  Reference-DOI: 10.1074/JBC.M114.610196

(-) Compounds

Molecule 1 - PHD FINGER PROTEIN 6
    Chains: A
    Engineered: YES
    Fragment: UNP RESIDUES 157-171
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: THIS SEQUENCE OCCURS NATURALLY IN HUMANS
    Synonym: PHD-LIKE ZINC FINGER PROTEIN
    Synthetic: YES
 
Molecule 2 - HISTONE-BINDING PROTEIN RBBP4
    Chains: B
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Taxid: 7108
    Gene: RBBP4, RBAP48
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CHROMATIN ASSEMBLY FACTOR 1 SUBUNIT C, CAF-1 SUBUNIT C, CHROMATIN ASSEMBLY FACTOR I P48 SUBUNIT, CAF-I 48 KDA SUBUNIT, CAF-I P48, NUCLEOSOME-REMODELING FACTOR SUBUNIT RBAP48, RETINOBLASTOMA- BINDING PROTEIN 4, RBBP-4, RETINOBLASTOMA-BINDING PROTEIN P48

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER B:259 , ASN B:261 , LYS B:264 , SER B:266 , ASN B:407 , HOH B:649 , HOH B:724 , HOH B:768BINDING SITE FOR RESIDUE GOL B 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4R7A)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4R7A)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4R7A)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4R7A)

(-) Exons   (0, 0)

(no "Exon" information available for 4R7A)

(-) 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:9
                                         
               SCOP domains --------- SCOP domains
               CATH domains --------- CATH domains
               Pfam domains --------- Pfam domains
         Sec.struct. author ......... Sec.struct. author
                 SAPs(SNPs) --------- SAPs(SNPs)
                    PROSITE --------- PROSITE
                 Transcript --------- Transcript
                 4r7a A 116 SRKGRPRKT 124


Chain B from PDB  Type:PROTEIN  Length:366
                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhheeeeeeee.......eeeeeeee......eeeeeeeee.......eeeeeeeeeee..eeeeeeeee.....eeeee..eeeeeeee.....eeeee.hhh.............eeee........eee......eeeee.....eeeee.........eee..eee......eeeeee......eeeeee...eeeeee..........eeee.....eeeeee......eeeeee...eeeeee........eeee.....eeeeee......eeeeee....eeeee.hhh..........eeeee......eeeeee......eeeeee...eeeeeeehhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4r7a B  15 RVINEEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPDVTRPEGKDFSIHRLVLGTHTSDEQNHLVIASVQLPNKIEIEIKINHEGEVNRARYMPQNPCIIATKTPSSDVLVFDYTKHPSKPDPSGECNPDLRLRGHQKEGYGLSWNPNLSGHLLSASDDHTICLWDISAVPKEGKVVDAKTIFTGHTAVVEDVSWHLLHESLFGSVADDQKLMIWDTRSNNTSKPSHSVDAHTAEVNCLSFNPYSEFILATGSADKTVALWDLRNLKLKLHSFESHKDEIFQVQWSPHNETILASSGTDRRLNVWDLSKIGEEAEDGPPELLFIHGGHTAKISDFSWNPNEPWVICSVSEDNIMQVWQMAENIYN 410
                                    24        34        44        54        64        74        84   ||  119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349   ||  364       374       384       394       404      
                                                                                                    88|                                                                                                                                                                                                                                            353|                                                   
                                                                                                    114                                                                                                                                                                                                                                             359
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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 4R7A)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4R7A)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4R7A)

(-) Gene Ontology  (45, 52)

Asymmetric/Biological Unit(hide GO term definitions)

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  4r7a
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  RBBP4_HUMAN | Q09028
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 Related Entries

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

UniProtKB/Swiss-Prot
        PHF6_HUMAN | Q8IWS0: 4nn2
        RBBP4_HUMAN | Q09028: 2xu7 3gfc 4pby 4pbz 4pc0 5fxy

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4R7A)