Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 17-mer - A3B3C2D2E2F2GHI Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 17-mer -A8B6CDE 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration, light scattering

Macromolecule Content

• Total Structure Weight: 811323.31 
• Atom Count: 38744 
• Residue Count: 6456 
• Unique protein chains: 9
• Unique nucleic acid chains: 2

6HTS

Cryo-EM structure of the human INO80 complex bound to nucleosome

• DOI: 10.2210/pdb6HTS/pdb
• Entry 6HTS supersedes 6ETX
• EMDataBank: EMD-3954

• Classification: DNA BINDING PROTEIN
• Organism(s): Homo sapiens, synthetic construct
• Expression System: Escherichia coli, Spodoptera frugiperda


• Deposited: 2018-10-04 Released: 2018-11-07 
• Deposition Author(s): Ayala, R., Willhoft, O., Aramayo, R.J., Wilkinson, M., McCormack, E.A., Ocloo, L., Wigley, D.B., Zhang, X.
• Funding Organization(s): Wellcome Trust; Cancer Research UK 

---

Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.8 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure and regulation of the human INO80-nucleosome complex.

Ayala, R., Willhoft, O., Aramayo, R.J., Wilkinson, M., McCormack, E.A., Ocloo, L., Wigley, D.B., Zhang, X.

(2018) Nature 556: 391-395

• PubMed: 29643506 
• Primary Citation of Related Structures:  
  6ETX

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
RuvB-like 1	A, C, E	456	Homo sapiens	Mutation(s): 0  Gene Names: RUVBL1 (INO80H, NMP238, TIP49, TIP49A) EC: 3.6.4.12
Find proteins for Q9Y265 (Homo sapiens) Go to Gene View: RUVBL1 Go to UniProtKB:  Q9Y265

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
RuvB-like 2	B, D, F	463	Homo sapiens	Mutation(s): 0  Gene Names: RUVBL2 (INO80J, TIP48, TIP49B) EC: 3.6.4.12
Find proteins for Q9Y230 (Homo sapiens) Go to Gene View: RUVBL2 Go to UniProtKB:  Q9Y230

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
Chromatin-remodeling ATPase INO80	G	1290	Homo sapiens	Mutation(s): 0  Gene Names: INO80 (INO80A, INOC1, KIAA1259) EC: 3.6.4.-
Find proteins for Q9ULG1 (Homo sapiens) Go to Gene View: INO80 Go to UniProtKB:  Q9ULG1

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details
Actin-related protein 5	H	607	Homo sapiens	Mutation(s): 0  Gene Names: ACTR5 (ARP5)
Find proteins for Q9H9F9 (Homo sapiens) Go to Gene View: ACTR5 Go to UniProtKB:  Q9H9F9

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details
Histone H3.1	I, M	136	Homo sapiens	Mutation(s): 0  Gene Names: HIST1H3A, HIST1H3B, HIST1H3C, HIST1H3D, HIST1H3E, HIST1H3F, HIST1H3G, HIST1H3H, HIST1H3I, HIST1H3J (H3FA, H3FL, H3FC, H3FB, H3FD, H3FI, H3FH, H3FK, H3FF, H3FJ)
Find proteins for P68431 (Homo sapiens) Go to Gene View: HIST1H3A HIST1H3B HIST1H3C HIST1H3D HIST1H3E HIST1H3F HIST1H3G HIST1H3H HIST1H3I HIST1H3J Go to UniProtKB:  P68431

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details
Histone H4	J, N	103	Homo sapiens	Mutation(s): 0  Gene Names: HIST1H4A, HIST1H4B, HIST1H4C, HIST1H4D, HIST1H4E, HIST1H4F, HIST1H4H, HIST1H4I, HIST1H4J, HIST1H4K, HIST1H4L, HIST2H4A, HIST2H4B, HIST4H4 (H4/A, H4FA, H4/I, H4FI, H4/G, H4FG, H4/B, H4FB, H4/J, H4FJ, H4/C, H4FC, H4/H, H4FH, H4/M, H4FM, H4/E, H4FE, H4/D, H4FD, H4/K, H4FK, H4/N, H4F2, H4FN, HIST2H4, H4/O, H4FO)
Find proteins for P62805 (Homo sapiens) Go to Gene View: HIST1H4A HIST1H4B HIST1H4C HIST1H4D HIST1H4E HIST1H4F HIST1H4H HIST1H4I HIST1H4J HIST1H4K HIST1H4L HIST2H4A HIST2H4B HIST4H4 Go to UniProtKB:  P62805

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details
Histone H2A type 1-B/E	K, O	130	Homo sapiens	Mutation(s): 0  Gene Names: HIST1H2AB, HIST1H2AE (H2AFM, H2AFA)
Find proteins for P04908 (Homo sapiens) Go to Gene View: HIST1H2AB HIST1H2AE Go to UniProtKB:  P04908

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details
Histone H2B type 1-J	L, P	126	Homo sapiens	Mutation(s): 0  Gene Names: HIST1H2BJ (H2BFR)
Find proteins for P06899 (Homo sapiens) Go to Gene View: HIST1H2BJ Go to UniProtKB:  P06899

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details
INO80 complex subunit B	R	356	Homo sapiens	Mutation(s): 0  Gene Names: INO80B (HMGA1L4, PAPA1, ZNHIT4)
Find proteins for Q9C086 (Homo sapiens) Go to Gene View: INO80B Go to UniProtKB:  Q9C086

Entity ID: 10
Molecule	Chains	Length	Organism
DNA (150-MER)	X	228	synthetic construct

Entity ID: 11
Molecule	Chains	Length	Organism
DNA (150-MER)	Y	228	synthetic construct

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZN	R	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
ADP	A, B, C, D, E, F	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.8 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Software Package:

Software Name	Purpose
PHENIX	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2018-10-04 
• Released Date: 2018-11-07 
• Deposition Author(s): Ayala, R., Willhoft, O., Aramayo, R.J., Wilkinson, M., McCormack, E.A., Ocloo, L., Wigley, D.B., Zhang, X.
• This entry supersedes: 6ETX

---

Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	098412/Z/12/Z
Wellcome Trust	United Kingdom	095519/Z/11/Z
Cancer Research UK	United Kingdom	C6913/A21608

Revision History 

• Version 1.0: 2018-11-07
  Type: Initial release