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(-) Description

Title :  ULTRA-HIGH RESOLUTION CRYSTAL STRUCTURE OF SECOND BROMODOMAIN OF BRD2 IN COMPLEX WITH INHIBITOR 6B3
 
Authors :  S. K. Tripathi, B. Padmanabhan
Date :  27 Feb 16  (Deposition) - 22 Jun 16  (Release) - 22 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  0.91
Chains :  Asym./Biol. Unit :  A
Keywords :  Bet-Family, Inhibitor, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. Tripathi, S. Mathur, P. Deshmukh, R. Manjula, B. Padmanabhan
A Novel Phenanthridionone Based Scaffold As A Potential Inhibitor Of The Brd2 Bromodomain: Crystal Structure Of The Complex
Plos One V. 11 56344 2016
PubMed-ID: 27243809  |  Reference-DOI: 10.1371/JOURNAL.PONE.0156344

(-) Compounds

Molecule 1 - BROMODOMAIN-CONTAINING PROTEIN 2
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System Taxid469008
    FragmentUNP RESIDUES 348-454
    GeneBRD2, KIAA9001, RING3
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymO27.1.1,REALLY INTERESTING NEW GENE 3 PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
16B31Ligand/Ion2'-[(6-OXO-5,6-DIHYDROPHENANTHRIDIN-3-YL)CARBAMOYL][1,1'-BIPHENYL]-2-CARBOXYLIC ACID
2CL2Ligand/IonCHLORIDE ION
3GOL2Ligand/IonGLYCEROL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:412 , ARG A:419binding site for residue CL A 501
2AC2SOFTWARETYR A:386 , PRO A:393 , MET A:394 , ASN A:424 , HOH A:621 , HOH A:678 , HOH A:707binding site for residue CL A 502
3AC3SOFTWARETYR A:426 , ARG A:440 , GLN A:443 , ASP A:444 , GLU A:447binding site for residue GOL A 503
4AC4SOFTWARETYR A:368 , LYS A:402 , ASP A:407 , MET A:438 , LYS A:441 , HOH A:619 , HOH A:636 , HOH A:646 , HOH A:788binding site for residue GOL A 504
5AC5SOFTWAREPRO A:371 , VAL A:376 , LEU A:381 , LEU A:383 , ASN A:429 , HIS A:433 , HOH A:610 , HOH A:620 , HOH A:635 , HOH A:690 , HOH A:721binding site for residue 6B3 A 505

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5IG6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5IG6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 5IG6)

(-) 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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Chain A from PDB  Type:PROTEIN  Length:115
                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh..hhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 5ig6 A 341 GSHMQDPEQLKHCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPA 455
                                   350       360       370       380       390       400       410       420       430       440       450     

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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 5IG6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5IG6)

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (10, 10)

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
        BRD2_HUMAN | P254401x0j 2dvq 2dvr 2dvs 2dvv 2e3k 2g4a 2ydw 2yek 3aqa 3oni 4a9e 4a9f 4a9h 4a9i 4a9j 4a9m 4a9n 4a9o 4akn 4alg 4alh 4j1p 4mr5 4mr6 4qeu 4qev 4qew 4uyf 4uyg 4uyh 5bt5 5dfb 5dfc 5dfd 5dw1 5ek9 5hel 5hem 5hen 5hfq 5ibn 5u5s 5uew

(-) Related Entries Specified in the PDB File

5ibn