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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN PCAF BROMODOMAIN IN COMPLEX WITH FRAGMENT BR013 (FRAGMENT 3)
 
Authors :  A. Chaikuad, F. Von Delft, C. Bountra, C. H. Arrowsmith, A. M. Edwards, Structural Genomics Consortium (Sgc)
Date :  16 Dec 15  (Deposition) - 13 Jan 16  (Release) - 30 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Signaling Protein, Bromodomain, Histone Acetyltransferase Kat2B, Histone, Acetylation, Acetyllysine, Epigenetics, Structural Genomics Consortium (Sgc) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Chaikuad, S. Lang, P. E. Brennan, C. Temperini, O. Fedorov, J. Hollander, R. Nachane, C. Abell, S. Muller, G. Siegal, S. Knapp
Structure-Based Identification Of Inhibitory Fragments Targeting The P300/Cbp-Associated Factor Bromodomain.
J. Med. Chem. V. 59 1648 2016
PubMed-ID: 26731131  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B01719

(-) Compounds

Molecule 1 - HISTONE ACETYLTRANSFERASE KAT2B
    Chains: A, B
    EC Number: 2.3.1.48
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PNIC28-BSA4
    Expression System Taxid: 469008
    Expression System Variant: R3-PRARE2
    Expression System Vector Type: PLASMID
    Fragment: PCAF BROMODOMAIN, UNP RESIDUES 715-831
    Gene: KAT2B, PCAF
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HISTONE ACETYLTRANSFERASE PCAF,HISTONE ACETYLASE PCAF,LYSINE ACETYLTRANSFERASE 2B,P300/CBP-ASSOCIATED FACTOR,P/CAF

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
15WV2Ligand/Ion2-METHYL-3~{H}-ISOINDOL-1-ONE
2EDO4Ligand/Ion1,2-ETHANEDIOL
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
15WV1Ligand/Ion2-METHYL-3~{H}-ISOINDOL-1-ONE
2EDO1Ligand/Ion1,2-ETHANEDIOL
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
15WV1Ligand/Ion2-METHYL-3~{H}-ISOINDOL-1-ONE
2EDO3Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:747 , PHE A:748 , GLU A:756 , ASN A:803 , HOH A:1001binding site for residue 5WV A 901
2AC2SOFTWARELYS A:733 , GLN A:737 , LYS A:740 , SER A:774 , LEU A:777binding site for residue EDO A 902
3AC3SOFTWAREPRO B:747 , GLU B:756 , ALA B:757 , ASN B:803 , TYR B:809 , HOH B:1001binding site for residue 5WV B 901
4AC4SOFTWAREGLN B:743 , SER B:744 , ILE B:815 , HOH B:1009binding site for residue EDO B 902
5AC5SOFTWAREARG B:754binding site for residue EDO B 903
6AC6SOFTWAREGLU A:808 , GLN B:727binding site for residue EDO B 904

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5FE2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5FE2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5FE2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5FE2)

(-) Exons   (0, 0)

(no "Exon" information available for 5FE2)

(-) 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:107
                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhh..hhhhh...hhhhh.hhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 5fe2 A 725 PDQLYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKEAGLID 831
                                   734       744       754       764       774       784       794       804       814       824       


Chain B from PDB  Type:PROTEIN  Length:107
                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh..hhhhh.........hhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 5fe2 B 725 PDQLYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKEAGLID 831
                                   734       744       754       764       774       784       794       804       814       824
   Legend:   → Mismatch (orange background)
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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 5FE2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5FE2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5FE2)

(-) Gene Ontology  (59, 59)

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  5fe2
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  KAT2B_HUMAN | Q92831
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 Related Entries

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

UniProtKB/Swiss-Prot
        KAT2B_HUMAN | Q92831: 1cm0 1jm4 1n72 1wug 1wum 1zs5 2rnw 2rnx 3gg3 4nsq 5fdz 5fe0 5fe1 5fe3 5fe4 5fe5 5fe6 5fe7 5fe8 5fe9 5lvq 5lvr

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5FE2)