6GEN

Chromatin remodeller-nucleosome complex at 4.5 A resolution.


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.6 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure and dynamics of the yeast SWR1-nucleosome complex.

Willhoft, O.Ghoneim, M.Lin, C.L.Chua, E.Y.D.Wilkinson, M.Chaban, Y.Ayala, R.McCormack, E.A.Ocloo, L.Rueda, D.S.Wigley, D.B.

(2018) Science 362: --


Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Vacuolar protein sorting-associated protein 72
Z
131N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Histone H3
A, B
136Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: HHT1, HHT2 (SIN2)
Find proteins for P61830 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P61830
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Histone H4
C, D
103Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: HHF1, HHF2
Find proteins for P02309 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P02309
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Histone H2A.1
E, F
132Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: HTA1 (H2A1, SPT11)
Find proteins for P04911 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P04911
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Histone H2B.1
G, H
131Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: HTB1 (H2B1, SPT12)
Find proteins for P02293 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P02293
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
Helicase SWR1
M
1514Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: SWR1
EC: 3.6.4.12
Find proteins for Q05471 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q05471
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Actin-like protein ARP6
R
438Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: ARP6
Find proteins for Q12509 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q12509
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
Vacuolar protein sorting-associated protein 71
S
280Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: VPS71 (SWC6)
Find proteins for Q03433 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q03433
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
RuvB-like protein 1
T, V, X
463Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RVB1 (TIH1, TIP49A)
EC: 3.6.4.12
Find proteins for Q03940 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q03940
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
RuvB-like protein 2
U, W, Y
471Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RVB2 (TIH2, TIP49B)
EC: 3.6.4.12
Find proteins for Q12464 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q12464
Entity ID: 6
MoleculeChainsLengthOrganism
DNA (173-MER)I173synthetic construct
Entity ID: 7
MoleculeChainsLengthOrganism
DNA (173-MER)J173synthetic construct
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
S
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
ADP
Query on ADP

Download SDF File 
Download CCD File 
M, R, T, U, V, W, X, Y
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
M, R, U, V, W, Y
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
BEF
Query on BEF

Download SDF File 
Download CCD File 
M, R
BERYLLIUM TRIFLUORIDE ION
Be F3
OGIAHMCCNXDTIE-UHFFFAOYSA-K
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
UNK
Query on UNK
Z
L-PEPTIDE LINKINGC4 H9 N O2

--

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.6 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom095519/Z/11/Z
Wellcome TrustUnited Kingdom209327/Z/17/Z
Cancer Research UKUnited KingdomC6913/A21608
Medical Research Council (United Kingdom)United KingdomMR/N009258/1
Medical Research Council (United Kingdom)United KingdomMR/R009023/1

Revision History 

  • Version 1.0: 2018-10-17
    Type: Initial release
  • Version 1.1: 2018-10-24
    Type: Data collection, Database references