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(-) Description

Title :  N-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH I-BET726 (GSK1324726A)
 
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 :  1.60
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Transcription, Inhibitor, 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
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: N-TERMINAL BROMODOMAIN, UNP 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
 
Molecule 2 - BROMODOMAIN-CONTAINING PROTEIN 2
    Chains: C, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: N-TERMINAL BROMODOMAIN, UNP 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, 9)

Asymmetric Unit (3, 9)
No.NameCountTypeFull Name
173B3Ligand/Ion4-[(2S,4R)-1-ACETYL-4-[(4-CHLOROPHENYL)AMINO]-2-METHYL-1,2,3,4-TETRAHYDROQUINOLIN-6-YL]BENZOIC ACID
2EDO3Ligand/Ion1,2-ETHANEDIOL
3SO43Ligand/IonSULFATE ION
Biological Unit 1 (3, 3)
No.NameCountTypeFull Name
173B1Ligand/Ion4-[(2S,4R)-1-ACETYL-4-[(4-CHLOROPHENYL)AMINO]-2-METHYL-1,2,3,4-TETRAHYDROQUINOLIN-6-YL]BENZOIC ACID
2EDO1Ligand/Ion1,2-ETHANEDIOL
3SO41Ligand/IonSULFATE ION
Biological Unit 2 (3, 3)
No.NameCountTypeFull Name
173B1Ligand/Ion4-[(2S,4R)-1-ACETYL-4-[(4-CHLOROPHENYL)AMINO]-2-METHYL-1,2,3,4-TETRAHYDROQUINOLIN-6-YL]BENZOIC ACID
2EDO1Ligand/Ion1,2-ETHANEDIOL
3SO41Ligand/IonSULFATE ION
Biological Unit 3 (3, 3)
No.NameCountTypeFull Name
173B1Ligand/Ion4-[(2S,4R)-1-ACETYL-4-[(4-CHLOROPHENYL)AMINO]-2-METHYL-1,2,3,4-TETRAHYDROQUINOLIN-6-YL]BENZOIC ACID
2EDO1Ligand/Ion1,2-ETHANEDIOL
3SO41Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:146 , THR A:150 , TYR A:153 , GLU A:170 , ASN B:146 , THR B:150 , TYR B:153 , GLU B:170BINDING SITE FOR RESIDUE EDO B1184
2AC2SOFTWARETYR A:153 , GLN A:167 , GLU A:170 , HOH A:2149 , HOH A:2169 , ASN B:146 , THR B:150BINDING SITE FOR RESIDUE EDO A1190
3AC3SOFTWAREMET C:165 , HOH C:2012BINDING SITE FOR RESIDUE EDO C1182
4AC4SOFTWARETRP A:97 , PRO A:98 , PHE A:99 , LYS A:107 , LEU A:108 , ASN A:156 , HOH A:2080 , HOH A:2170 , HOH A:2171 , HOH A:2172 , GLN B:94BINDING SITE FOR RESIDUE 73B A1191
5AC5SOFTWAREGLN A:94 , TRP B:97 , PRO B:98 , PHE B:99 , LEU B:110 , ASN B:156 , HOH B:2044 , HOH B:2110 , HOH B:2111BINDING SITE FOR RESIDUE 73B B1185
6AC6SOFTWAREASN A:77 , GLN A:80 , HIS A:83 , LYS A:84 , PRO A:181 , HOH A:2012 , HOH A:2018 , HOH A:2020 , TRP C:97 , PRO C:98 , LEU C:110 , ASN C:156 , HOH C:2039BINDING SITE FOR RESIDUE 73B C1183
7AC7SOFTWAREARG B:100 , HOH B:2009 , HOH B:2012 , HOH B:2014 , HOH B:2113 , ARG C:128 , ASN C:132 , TYR C:134 , HOH C:2062BINDING SITE FOR RESIDUE SO4 B1186
8AC8SOFTWARELYS A:84 , LYS A:88 , HOH A:2019 , ARG C:100 , GLN C:101BINDING SITE FOR RESIDUE SO4 A1192
9AC9SOFTWAREHIS C:83 , MET C:87 , LYS C:88 , TRP C:91 , LYS C:127BINDING SITE FOR RESIDUE SO4 C1184

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4UYF)

(-) 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:119
                                                                                                                                                       
               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
                 4uyf A  71 NPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQEEQELVV 189
                                    80        90       100       110       120       130       140       150       160       170       180         


Chain B from PDB  Type:PROTEIN  Length:108
                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh...hhhhh...hhhhhh..hhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------ Transcript
                 4uyf B  76 TNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQE 183
                                    85        95       105       115       125       135       145       155       165       175        


Chain C 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...hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 4uyf C  75 VTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMP 181
                                    84        94       104       114       124       134       144       154       164       174
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 4UYF)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)

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  4uyf
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  BRD2_HUMAN | P25440
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 Related Entries

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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 4uyg 4uyh 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
4uyg THE DISCOVERY OF I-BET726 (GSK1324726A), A POTENT TETRAHYDROQUINOLINE APOA1 UP-REGULATOR AND SELECTIVE BET BROMODOMAIN INHIBITOR
4uyh 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