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(-) Description

Title :  N-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH 1-((2R,4S)-2-METHYL-4-(PHENYLAMINO)-6-(4-(PIPERIDIN-1-YLMETHYL)PHENYL)-3,4-DIHYDROQUINOLIN-1(2H)-YL)ETHANONE
 
Authors :  C. Chung, P. Bamborough, R. Gosmini
Date :  31 Aug 14  (Deposition) - 08 Oct 14  (Release) - 22 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.73
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Transcription, Histone, Epigenetic Reader, Bet, Brd2, Bromodomain (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Gosmini, V. L. Nguyen, J. Toum, C. Simon, J. M. Brusq, G. Krysa, O. Mirguet, A. M. Riou-Eymard, E. V. Boursier, L. Trottet, P. Bamborough, H. Clark, C. W. Chung, L. Cutler, E. H. Demont, R. Kaur, A. J. Lewis, M. B. Schilling, P. E. Soden, S. Taylor, A. L. Walker, M. D. Walker, R. K. Prinjha, E. Nicodeme
The Discovery Of I-Bet726 (Gsk1324726A), A Potent Tetrahydroquinoline Apoa1 Up-Regulator And Selective Bet Bromodomain Inhibitor.
J. Med. Chem. V. 57 8111 2014
PubMed-ID: 25249180  |  Reference-DOI: 10.1021/JM5010539

(-) Compounds

Molecule 1 - BROMODOMAIN-CONTAINING PROTEIN 2
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: N-TERMINAL BROMODOMAIN, RESIDUES 67-200
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: O27.1.1, REALLY INTERESTING NEW GENE 3 PROTEIN, HUMAN BRD2

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
19S32Ligand/Ion1-[(2S,4R)-2-METHYL-4-(PHENYLAMINO)-6-[4-(PIPERIDIN-1-YLMETHYL)PHENYL]-3,4-DIHYDROQUINOLIN-1(2H)-YL]ETHANONE
2DMS1Ligand/IonDIMETHYL SULFOXIDE
3SO41Ligand/IonSULFATE ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
19S31Ligand/Ion1-[(2S,4R)-2-METHYL-4-(PHENYLAMINO)-6-[4-(PIPERIDIN-1-YLMETHYL)PHENYL]-3,4-DIHYDROQUINOLIN-1(2H)-YL]ETHANONE
2DMS-1Ligand/IonDIMETHYL SULFOXIDE
3SO4-1Ligand/IonSULFATE ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
19S31Ligand/Ion1-[(2S,4R)-2-METHYL-4-(PHENYLAMINO)-6-[4-(PIPERIDIN-1-YLMETHYL)PHENYL]-3,4-DIHYDROQUINOLIN-1(2H)-YL]ETHANONE
2DMS-1Ligand/IonDIMETHYL SULFOXIDE
3SO41Ligand/IonSULFATE ION
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
19S3-1Ligand/Ion1-[(2S,4R)-2-METHYL-4-(PHENYLAMINO)-6-[4-(PIPERIDIN-1-YLMETHYL)PHENYL]-3,4-DIHYDROQUINOLIN-1(2H)-YL]ETHANONE
2DMS1Ligand/IonDIMETHYL SULFOXIDE
3SO4-1Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL C:103 , ASN C:156 , ILE C:162 , HOH C:2038BINDING SITE FOR RESIDUE DMS C1182
2AC2SOFTWARETRP A:97 , PRO A:98 , LYS A:107 , LEU A:108 , LEU A:110 , ASN A:156 , ILE A:162 , HOH A:2071 , GLN B:94BINDING SITE FOR RESIDUE 9S3 A1184
3AC3SOFTWAREGLN A:94 , PRO B:98 , LYS B:107 , LEU B:108 , LEU B:110 , ASN B:156 , ILE B:162 , HOH B:2050BINDING SITE FOR RESIDUE 9S3 B1183
4AC4SOFTWAREARG B:100 , HOH B:2016 , HOH B:2018 , HOH B:2126 , ARG C:128 , ASN C:132 , TYR C:134 , HOH C:2057BINDING SITE FOR RESIDUE SO4 B1184

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4UYH)

(-) 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:109
                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh...hhhhh...hhhhhh..hhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 4uyh A  75 VTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQE 183
                                    84        94       104       114       124       134       144       154       164       174         


Chain B from PDB  Type:PROTEIN  Length:107
                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhh..hhhhh...........hhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 4uyh B  76 TNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQ 182
                                    85        95       105       115       125       135       145       155       165       175       


Chain C from PDB  Type:PROTEIN  Length:105
                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhh...hhhhh...........hhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 4uyh C  77 NQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMP 181
                                    86        96       106       116       126       136       146       156       166       176
   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 4UYH)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

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 Related Entries

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

UniProtKB/Swiss-Prot
        BRD2_HUMAN | P25440: 1x0j 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 5bt5 5dfb 5dfc 5dfd 5dw1 5ek9 5hel 5hem 5hen 5hfq 5ibn 5ig6 5u5s 5uew

(-) Related Entries Specified in the PDB File

4uyd N-TERMINAL BROMODOMAIN OF HUMAN BRD4 WITH 1,3- DIMETHYL-2-OXO-2,3-DIHYDRO-1H-1,3-BENZODIAZOLE-5- CARBOXAMIDE
4uye BROMODOMAIN OF HUMAN BRPF1 WITH N-1,3-DIMETHYL-2- OXO-6-(PIPERIDIN-1-YL)-2,3-DIHYDRO-1H-1,3- BENZODIAZOL-5-YL-2-METHOXYBENZAMIDE
4uyf N-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH I-BET726 ( GSK1324726A)
4uyg C-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH I-BET726 ( GSK1324726A)