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(-) Description

Title :  CRYSTAL STRUCTURE OF TRIM24 PHD-BROMODOMAIN COMPLEXED WITH N-{1,3-DIMETHYL-2-OXO-6-[3-(OXOLAN-3-YLMETHOXY)PHENOXY]-2,3-DIHYDRO-1H-1,3-BENZODIAZOL-5-YL}-1-METHYL-1H-IMIDAZOLE-4-SULFONAMIDE (7L)
 
Authors :  G. Poncet-Montange, W. Palmer, P. Jones
Date :  19 Feb 15  (Deposition) - 24 Jun 15  (Release) - 09 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.82
Chains :  Asym./Biol. Unit :  A
Keywords :  Center For Biomolecular Structure And Function, Bromodomain, Trim24, Inhibitor, Transcription-Transcription Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. S. Palmer, G. Poncet-Montange, G. Liu, A. Petrocchi, N. Reyna, G. Subramanian, J. Theroff, A. Yau, M. Kost-Alimova, J. P. Bardenhagen, E. Leo, H. E. Shepard, T. N. Tieu, X. Shi, Y. Zhan, S. Zhao, M. C. Barton, G. Draetta, C. Toniatti, P. Jones, M. Geck Do, J. N. Andersen
Structure-Guided Design Of Iacs-9571, A Selective High-Affinity Dual Trim24-Brpf1 Bromodomain Inhibitor.
J. Med. Chem. V. 59 1440 2016
PubMed-ID: 26061247  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B00405

(-) Compounds

Molecule 1 - TRANSCRIPTION INTERMEDIARY FACTOR 1-ALPHA
    Chains: A
    EC Number: 6.3.2.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PRSFDUET-1
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: BROMODOMAIN (UNP RESIDUES 824-1006)
    Gene: TRIM24, RNF82, TIF1, TIF1A
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: TIF1-ALPHA,E3 UBIQUITIN-PROTEIN LIGASE TRIM24,RING FINGER PROTEIN 82,TRIPARTITE MOTIF-CONTAINING PROTEIN 24

 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
14BV1Ligand/IonN-(1,3-DIMETHYL-2-OXO-6-{3-[(3S)-TETRAHYDROFURAN-3-YLMETHOXY]PHENOXY}-2,3-DIHYDRO-1H-BENZIMIDAZOL-5-YL)-1-METHYL-1H-IMIDAZOLE-4-SULFONAMIDE
2DMS1Ligand/IonDIMETHYL SULFOXIDE
3ZN2Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:829 , CYS A:832 , HIS A:849 , CYS A:852binding site for residue ZN A 1101
2AC2SOFTWARECYS A:841 , CYS A:844 , CYS A:867 , CYS A:870binding site for residue ZN A 1102
3AC3SOFTWAREPRO A:902 , ARG A:906 , LYS A:1002 , ASN A:1003 , HOH A:1204binding site for residue DMS A 1103
4AC4SOFTWARELEU A:922 , ALA A:923 , PHE A:924 , VAL A:928 , TYR A:935 , PHE A:979 , ASN A:980 , GLU A:985 , ALA A:989 , HOH A:1266 , HOH A:1269 , HOH A:1347binding site for residue 4BV A 1104

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Val A:854 -Pro A:855

 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 4YBT)

(-) 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:178
                                                                                                                                                                                                                   
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............ee......ee...............................hhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhh....hhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ybt A  824 PNEDWCAVCQNGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSKPEVEYDCDAPKKKTEGLVKLTPIDKRKCERLLLFLYCHEMSLAFQDPVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLYP 1006
                                   833       843       853       863       873       883 ||    898       908       918       928       938       948       958       968       978       988       998        
                                                                                       885|                                                                                                                   
                                                                                        891
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

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(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (42, 42)

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
        TIF1A_HUMAN | O15164: 2yyn 3o33 3o34 3o35 3o36 3o37 4yab 4yad 4yat 4yax 4ybm 4ybs 4yc9 4zql 5h1t 5h1u 5h1v

(-) Related Entries Specified in the PDB File

4yab 4yad 4yat 4yax 4ybm 4ybs 4yc9