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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN ATAD2 BROMODOMAIN IN COMPLEX WITH 8-2-(DIMETHYLAMINO)ETHYLAMINO-3-METHYL-1,2-DIHYDROQUINOLIN-2-ONE
 
Authors :  C. Chung, P. Bamborough, E. Demont
Date :  20 Jun 15  (Deposition) - 22 Jul 15  (Release) - 05 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.03
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Inhibitor, Atad2 , Bromodomain, Epigenetics, Atpase Family Aaa Domain-Containing Protein 2 (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  E. H. Demont, C. Chung, R. C. Furze, P. Grandi, A. Michon, C. Wellaway, N. Barrett, A. M. Bridges, P. D. Craggs, H. Diallo, D. P. Dixon, C. Douault, A. J. Emmons, E. J. Jones, B. V. Karamshi, K. Locke, D. J. Mitchell, B. H. Mouzon, R. K. Prinjha, A. D. Roberts, R. J. Sheppard, R. J. Watson, P. Bamborough
Fragment-Based Discovery Of Low-Micromolar Atad2 Bromodomain Inhibitors.
J. Med. Chem. V. 58 5649 2015
PubMed-ID: 26155854  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B00772

(-) Compounds

Molecule 1 - ATPASE FAMILY AAA DOMAIN-CONTAINING PROTEIN 2
    ChainsA
    EC Number3.6.1.3
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPNIC28-BSA4
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentBROMODOMAIN, RESIDUES 981-1108
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymAAA NUCLEAR COREGULATOR CANCER-ASSOCIATED PROTEIN, ANCCA, HUMAN ATPASE FAMILY AAA DOMAIN-CONTAINING PROTEIN 2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2JTF1Ligand/Ion8-{[2-(DIMETHYLAMINO)ETHYL]AMINO}-3-METHYL-1,2-DIHYDROQUINOLIN-2-ONE
3SO41Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:988 , LEU A:1093 , ASP A:1094 , PHE A:1097 , HOH A:3210 , HOH A:3211 , HOH A:3212BINDING SITE FOR RESIDUE EDO A2109
2AC2SOFTWAREHIS A:998 , GLU A:1091 , GLU A:1092 , ASP A:1094 , HOH A:3195 , HOH A:3213 , HOH A:3214BINDING SITE FOR RESIDUE EDO A2110
3AC3SOFTWAREVAL A:1008 , VAL A:1013 , VAL A:1018 , TYR A:1063 , ASN A:1064 , ASP A:1071 , ILE A:1074 , HOH A:3104 , HOH A:3160BINDING SITE FOR RESIDUE JTF A2111
4AC4SOFTWAREARG A:987 , ARG A:990 , ARG A:994 , ARG A:1067 , ARG A:1072 , HOH A:3074 , HOH A:3161BINDING SITE FOR RESIDUE SO4 A2112

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5A5P)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5A5P)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5A5P)

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 5A5P)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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Chain A from PDB  Type:PROTEIN  Length:130
                                                                                                                                                                   
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                5a5p A  979 SMQEEDTFRELRIFLRNVTHRLAIDKRFRVFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAIIKEELDEDFEQLCEEIQESR 1108
                                   988       998      1008      1018      1028      1038      1048      1058      1068      1078      1088      1098      1108

   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 5A5P)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5A5P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5A5P)

(-) Gene Ontology  (14, 14)

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
        ATAD2_HUMAN | Q6PL183dai 4qsp 4qsq 4qsr 4qss 4qst 4qsu 4qsv 4qsw 4qsx 4qut 4quu 4tt2 4tt4 4tt6 4tte 4tu4 4tu6 4tyl 4tz2 4tz8 5a5n 5a5o 5a5q 5a5r 5a81 5a82 5a83 5epb 5f36 5f3a 5lj0

(-) Related Entries Specified in the PDB File

5a5n CRYSTAL STRUCTURE OF HUMAN ATAD2 BROMODOMAIN IN COMPLEX WITH (2S)-2,6-DIACETAMIDO-N-METHYLHEXANAMIDE
5a5o CRYSTAL STRUCTURE OF HUMAN ATAD2 BROMODOMAIN IN COMPLEX WITH 3-METHYL-1,2-DIHYDROQUINOLIN-2-ONE
5a5q CRYSTAL STRUCTURE OF HUMAN ATAD2 BROMODOMAIN IN COMPLEX WITH 3-METHYL-8-PIPERIDIN-4-YLAMINO-1,2-DIHYDRO- 1,7-NAPHTHYRIDIN-2-ONE HYDROCHLORIDE
5a5r CRYSTAL STRUCTURE OF HUMAN ATAD2 BROMODOMAIN IN COMPLEX WITH 5-5-METHOXYPYRIDIN-3-YL-3-METHYL-8-PIPERIDIN -4-YLAMINO-1,2-DIHYDRO-1,7-NAPHTHYRIDIN-2-ONE
5a5s NN-TERMINAL BROMODOMAIN OF HUMAN BRD4 WITH 5-5- METHOXYPYRIDIN-3-YL-3-METHYL-8-PIPERIDIN-4-YLAMINO-1 ,2-DIHYDRO-1,7-NAPHTHYRIDIN-2-ONE