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(-) Description

Title :  CRYSTAL STRUCTURE OF THE BROMODOMAIN OF HUMAN BRG1 (SMARCA4) IN COMPLEX WITH PFI-3 CHEMICAL PROBE
 
Authors :  C. Tallant, D. R. Owen, B. S. Gerstenberger, O. Fedorov, P. Savitsky, G. Alonso, J. A. Newman, P. Filippakopoulos, N. Burgess-Brown, F. Von D C. H. Arrowsmith, A. M. Edwards, C. Bountra, S. Muller, S. Knapp
Date :  03 Sep 15  (Deposition) - 14 Oct 15  (Release) - 14 Oct 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Swi-Snf Complex, Chromatin Remodeling, Brg Associated Factors (Baf), Transcription, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Tallant, D. R. Owen, B. S. Gerstenberger, O. Fedorov, P. Savitsky, G. Nunez-Alonso, J. A. Newman, P. Filippakopoulos, N. Burgess-Brown F. Von Delft, C. H. Arrowsmith, A. M. Edwards, C. Bountra, S. Muller, S. Knapp
Crystal Structure Of The Bromodomain Of Human Brg1 (Smarca4 In Complex With Pfi-3 Chemical Probe
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - TRANSCRIPTION ACTIVATOR BRG1
    Chains: A, B
    EC Number: 3.6.4.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PNIC28-BSA4
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1418-1536
    Gene: SMARCA4, BAF190A, BRG1, SNF2B, SNF2L4
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ATP-DEPENDENT HELICASE SMARCA4,BRG1-ASSOCIATED FACTOR 190A, BAF190A,MITOTIC GROWTH AND TRANSCRIPTION ACTIVATOR,PROTEIN BRG-1, PROTEIN BRAHMA HOMOLOG 1,SNF2-BETA,SWI/SNF-RELATED MATRIX-ASSOCIATED ACTIN-DEPENDENT REGULATOR OF CHROMATIN SUBFAMILY A MEMBER 4

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric Unit (3, 10)
No.NameCountTypeFull Name
15BW2Ligand/Ion(2E)-1-(2-HYDROXYPHENYL)-3-[(1R,4R)-5-(PYRIDIN-2-YL)-2,5-DIAZABICYCLO[2.2.1]HEPT-2-YL]PROP-2-EN-1-ONE
2EDO6Ligand/Ion1,2-ETHANEDIOL
3ZN2Ligand/IonZINC ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
15BW1Ligand/Ion(2E)-1-(2-HYDROXYPHENYL)-3-[(1R,4R)-5-(PYRIDIN-2-YL)-2,5-DIAZABICYCLO[2.2.1]HEPT-2-YL]PROP-2-EN-1-ONE
2EDO3Ligand/Ion1,2-ETHANEDIOL
3ZN-1Ligand/IonZINC ION
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
15BW1Ligand/Ion(2E)-1-(2-HYDROXYPHENYL)-3-[(1R,4R)-5-(PYRIDIN-2-YL)-2,5-DIAZABICYCLO[2.2.1]HEPT-2-YL]PROP-2-EN-1-ONE
2EDO3Ligand/Ion1,2-ETHANEDIOL
3ZN-1Ligand/IonZINC ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:1517 , HOH A:1740 , HOH B:1712 , HOH B:1719 , HOH B:1723 , HOH B:1747binding site for residue ZN A 1601
02AC2SOFTWAREGLU A:1512 , ARG A:1513 , ASN A:1516 , LYS A:1518binding site for residue EDO A 1602
03AC3SOFTWAREASP A:1506 , LYS A:1509binding site for residue EDO A 1603
04AC4SOFTWAREGLN A:1487 , EDO B:1604binding site for residue EDO A 1604
05AC5SOFTWAREVAL A:1484 , PHE A:1485 , LEU A:1488 , PRO A:1489 , TYR A:1497 , VAL A:1505 , ALA A:1536 , ASN A:1540 , ILE A:1546binding site for residue 5BW A 1605
06AC6SOFTWAREHOH A:1709 , HOH A:1714 , HOH A:1735 , HOH A:1750 , HIS B:1517 , HOH B:1741binding site for residue ZN B 1601
07AC7SOFTWAREASN A:1523 , GLN B:1487 , LYS B:1508 , EDO B:1603 , HOH B:1736 , HOH B:1744binding site for residue EDO B 1602
08AC8SOFTWAREGLN B:1487 , EDO B:1602binding site for residue EDO B 1603
09AC9SOFTWAREEDO A:1604 , ASN B:1523 , HOH B:1703binding site for residue EDO B 1604
10AD1SOFTWAREVAL B:1484 , PHE B:1485 , LEU B:1488 , PRO B:1489 , TYR B:1497 , VAL B:1505 , ALA B:1536 , ASN B:1540 , ILE B:1546binding site for residue 5BW B 1605

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5DKD)

(-) Exons   (0, 0)

(no "Exon" information available for 5DKD)

(-) 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:110
                                                                                                                                               
               SCOP domains -------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhh.........hhhhh.......hhhhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                5dkd A 1457 NLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 1566
                                  1466      1476      1486      1496      1506      1516      1526      1536      1546      1556      1566


Chain B from PDB  Type:PROTEIN  Length:110
                                                                                                                                               
               SCOP domains -------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh.........hhhhh.......hhhhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                5dkd B 1457 NLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 1566
                                  1466      1476      1486      1496      1506      1516      1526      1536      1546      1556      1566
   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 5DKD)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (59, 59)

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  5dkd
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        SMCA4_HUMAN | P51532: 2grc 2h60 3uvd 5ea1

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