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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN PCAF BROMODOMAIN IN COMPLEX WITH FRAGMENT MB093 (FRAGMENT 7)
 
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 :  2.12
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  (3, 12)

Asymmetric Unit (3, 12)
No.NameCountTypeFull Name
12QC1Ligand/Ion1-[4-(1,2,3-THIADIAZOL-4-YL)PHENYL]METHANAMINE
2DMS1Ligand/IonDIMETHYL SULFOXIDE
3EDO10Ligand/Ion1,2-ETHANEDIOL
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
12QC-1Ligand/Ion1-[4-(1,2,3-THIADIAZOL-4-YL)PHENYL]METHANAMINE
2DMS1Ligand/IonDIMETHYL SULFOXIDE
3EDO5Ligand/Ion1,2-ETHANEDIOL
Biological Unit 2 (2, 6)
No.NameCountTypeFull Name
12QC1Ligand/Ion1-[4-(1,2,3-THIADIAZOL-4-YL)PHENYL]METHANAMINE
2DMS-1Ligand/IonDIMETHYL SULFOXIDE
3EDO5Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:774 , GLU A:775 , LYS A:778 , EDO A:902 , HOH A:1004 , HOH A:1062binding site for residue EDO A 901
02AC2SOFTWARESER A:774 , EDO A:901 , EDO A:904binding site for residue EDO A 902
03AC3SOFTWARESER B:741 , GLN B:743binding site for residue EDO A 903
04AC4SOFTWARELYS A:733 , GLN A:737 , SER A:774 , LEU A:777 , EDO A:902 , HOH A:1004binding site for residue EDO A 904
05AC5SOFTWAREEDO B:904binding site for residue EDO A 905
06AC6SOFTWAREPRO A:747 , VAL A:752 , ASN A:803 , HOH A:1002binding site for residue DMS A 906
07AC7SOFTWARELYS A:818 , HOH B:1068binding site for residue EDO B 901
08AC8SOFTWARETYR B:761binding site for residue EDO B 902
09AC9SOFTWAREEDO B:904 , HOH B:1038binding site for residue EDO B 903
10AD1SOFTWAREEDO A:905 , EDO B:903 , HOH B:1039binding site for residue EDO B 904
11AD2SOFTWARESER B:734 , GLN B:738 , LYS B:823 , GLU B:826 , ALA B:827binding site for residue EDO B 905
12AD3SOFTWAREPRO B:747 , GLU B:756 , TYR B:802 , ASN B:803 , TYR B:809 , HOH B:1008binding site for residue 2QC B 906

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5FE5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5FE5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5FE5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5FE5)

(-) Exons   (0, 0)

(no "Exon" information available for 5FE5)

(-) 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:108
                                                                                                                                            
               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
                 5fe5 A 724 DPDQLYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKEAGLID 831
                                   733       743       753       763       773       783       793       803       813       823        


Chain B from PDB  Type:PROTEIN  Length:109
                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh..hhhhh.........hhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 5fe5 B 723 RDPDQLYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKEAGLID 831
                                   732       742       752       762       772       782       792       802       812       822
   Legend:   → Mismatch (orange background)
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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 5FE5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5FE5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5FE5)

(-) Gene Ontology  (59, 59)

Asymmetric Unit(hide GO term definitions)

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  5fe5
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  KAT2B_HUMAN | Q92831
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  2.3.1.48
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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 5fe2 5fe3 5fe4 5fe6 5fe7 5fe8 5fe9 5lvq 5lvr

(-) Related Entries Specified in the PDB File

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