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(-) Description

Title :  CRYSTAL STRUCTURE OF THE BROMODOMAIN OF HUMAN BAZ2B IN COMPLEX WITH 1-[7-(MORPHOLIN-4-YL)-1-(PYRIDIN-2-YL)INDOLIZIN-3-YL]ETHANONE (GSK2834113A)
 
Authors :  A. Chaikuad, I. Felletar, C. W. Chung, D. Drewry, P. Chen, P. Filippakop O. Fedorov, T. Krojer, F. Von Delft, C. H. Arrowsmith, A. M. Edwards, C S. Knapp, Structural Genomics Consortium (Sgc)
Date :  14 Jan 13  (Deposition) - 23 Jan 13  (Release) - 20 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym./Biol. Unit :  A
Keywords :  Sgc, Structural Genomics Consortium, Transcription, Bromodomain, Acetylated Lysine Binding Protein, Kiaa1476, Walp4 (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Chen, A. Chaikuad, P. Bamborough, M. Bantscheff, C. Bountra, C. W. Chung, O. Fedorov, P. Grandi, D. Jung, R. Lesniak, M. Lindon, S. Muller, M. Philpott, R. Prinjha, C. Rogers, C. Selenski, C. Tallant T. Werner, T. M. Willson, S. Knapp, D. H. Drewry
Discovery And Characterization Of Gsk2801, A Selective Chemical Probe For The Bromodomains Baz2A And Baz2B.
J. Med. Chem. V. 59 1410 2016
PubMed-ID: 25799074  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B00209

(-) Compounds

Molecule 1 - BROMODOMAIN ADJACENT TO ZINC FINGER DOMAIN PROTEIN 2B
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PNIC28-BSA4
    Expression System Strain: BL21(DE3)-R3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: BROMODOMAIN (RESIDUES 2054-2168)
    Gene: BAZ2B, KIAA1476
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HWALP4

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 9)

Asymmetric/Biological Unit (2, 9)
No.NameCountTypeFull Name
1EDO8Ligand/Ion1,2-ETHANEDIOL
2IR41Ligand/Ion1-[7-(MORPHOLIN-4-YL)-1-(PYRIDIN-2-YL)INDOLIZIN-3-YL]ETHANONE

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:1887 , PRO A:1888 , PRO A:1899 , ASN A:1944 , ILE A:1950 , HOH A:2188BINDING SITE FOR RESIDUE IR4 A 2001
2AC2SOFTWAREHIS A:1883 , GLU A:1884BINDING SITE FOR RESIDUE EDO A 2002
3AC3SOFTWAREARG A:1864 , THR A:1968 , PHE A:1969BINDING SITE FOR RESIDUE EDO A 2003
4AC4SOFTWAREGLU A:1927 , TRP A:1965 , HOH A:2217BINDING SITE FOR RESIDUE EDO A 2004
5AC5SOFTWAREVAL A:1893 , ASN A:1894 , LEU A:1895 , HOH A:2110 , HOH A:2169BINDING SITE FOR RESIDUE EDO A 2005
6AC6SOFTWARELYS A:1903 , GLU A:1945 , ASP A:1946BINDING SITE FOR RESIDUE EDO A 2006
7AC7SOFTWARELYS A:1907 , LEU A:1935 , HOH A:2202BINDING SITE FOR RESIDUE EDO A 2007
8AC8SOFTWARELEU A:1872 , MET A:1875 , GLU A:1879 , THR A:1968BINDING SITE FOR RESIDUE EDO A 2008
9AC9SOFTWARELYS A:1902 , GLU A:1945 , ASP A:1947 , HOH A:2195BINDING SITE FOR RESIDUE EDO A 2009

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4IR4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4IR4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4IR4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4IR4)

(-) Exons   (0, 0)

(no "Exon" information available for 4IR4)

(-) 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    
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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:116
                                                                                                                                                     
               SCOP domains d4ir4a_ A: automated matches                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhhhh..hhhhh.........hhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                4ir4 A 1856 SMSVKKPKRDDSKDLALCSMILTEMETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWTDTFKV 1971
                                  1865      1875      1885      1895      1905      1915      1925      1935      1945      1955      1965
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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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4IR4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4IR4)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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  4ir4
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 Related Entries

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

UniProtKB/Swiss-Prot
        BAZ2B_HUMAN | Q9UIF8: 2e7o 3g0l 3q2f 4cup 4cuq 4cur 4cus 4cut 4cuu 4ir3 4ir5 4ir6 4nr9 4nra 4nrb 4nrc 4qc1 4qc3 4qf3 4rvr 4xua 4xub 5cq3 5cq4 5cq5 5cq6 5cq7 5cq8 5cqa 5cu8 5cua 5cub 5cuc 5cud 5cue 5cug 5dyu 5dyx 5e73 5e74 5e9i 5e9k 5e9l 5e9m 5e9y 5l8t 5l8u 5l96 5l97 5l98 5l99 5mge 5mgf 5mgg 5pb7 5pb8 5pb9 5pba 5pbb 5pbc 5pbd 5pbe 5pbf 5pbg 5pbh 5pbi 5pbj 5pbk 5pbl 5pbm 5pbn 5pbo 5pbp 5pbq 5pbr 5pbs 5pbt 5pbu 5pbv 5pbw 5pbx 5pby 5pbz 5pc0 5pc1 5pc2 5pc3 5pc4 5pc5 5pc6 5pc7 5pc8 5pc9 5pca 5pcb 5pcc 5pcd 5pce 5pcf 5pcg 5pch 5pci 5pcj 5pck 5pcl 5pcm 5pcn 5pco 5pcp 5pcq 5pcr 5pcs 5pct 5pcu 5pcv 5pcw 5pcx 5pcz 5pd0 5pd1 5pd2 5pd3 5pd4 5pd5 5pd6 5pd7 5pd8 5pd9 5pda 5pdb 5pdc 5pdd 5pde 5pdf 5pdg 5pdh 5pdi 5pdj 5pdk 5pdl 5pdm 5pdn 5pdo 5pdp 5pdq 5pdr 5pds 5pdt 5pdu 5pdv 5pdw 5pdx 5pdy 5pdz 5pe0 5pe1 5pe2 5pe3 5pe4 5pe5 5pe6 5pe7 5pe8 5pe9 5pea 5peb 5pec 5ped 5pee 5pef 5peg 5peh 5pei 5pej 5pek 5pel 5pem 5pen 5peo 5peq 5per 5pes 5pet 5peu 5pev 5pew 5pex 5pey 5pez 5pf0 5pf1 5pf2 5pf3 5pf4 5pf5 5pf6 5pf7 5pf8 5pf9 5pfa 5pfb 5pfc 5pfd 5pfe 5pff 5pfg 5pfh 5pfi 5pfj 5pfl 5pfm 5pfn 5pfo 5pfp 5pfq 5pfr 5pfs 5pft 5pfu 5pfv 5pfw 5pfx 5pfy 5pfz 5pg0 5pg1 5pg2 5pg3 5pg4 5pg5 5pg6 5pg7 5pg8 5pg9 5pga 5pgb 5pgc 5pgd 5pge 5pgf 5pgg 5pgh 5pgi 5pgj 5pgk 5pgl 5pgn 5pgo 5pgp 5pgq 5pgr 5pgs 5pgt

(-) Related Entries Specified in the PDB File

4ir3 4ir5 4ir6 4rvr