9CAD | pdb_00009cad

Cryo-EM structure of the TRRAP lobe of the native human TIP60 complex (composite structure)

PDB DOI: https://doi.org/10.2210/pdb9CAD/pdb
EM Map EMD-45387: EMDB EMDataResource

Classification: GENE REGULATION
Organism(s): Homo sapiens
Mutation(s): No

Deposited: 2024-06-17 Released: 2025-06-18
Deposition Author(s): Louder, R.K., Park, G., Patel, A.B.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.05 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9CAD

This is version 1.0 of the entry. See complete history.

Literature

Structural divergence of H2A.Z-associated human chromatin remodelers SRCAP and TIP60

Park, G., Patel, A.B., Wu, C., Louder, R.K.

To be published.

Macromolecule Content

Total Structure Weight: 779.48 kDa
Atom Count: 29,915
Modeled Residue Count: 3,723
Deposited Residue Count: 6,989
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
E1A-binding protein p400	A	3,159	Homo sapiens	Mutation(s): 0 EC: 3.6.4
UniProt & NIH Common Fund Data Resources
Find proteins for Q96L91 (Homo sapiens) Explore Q96L91 Go to UniProtKB: Q96L91
PHAROS: Q96L91 GTEx: ENSG00000183495
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q96L91
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoform 2 of Transformation/transcription domain-associated protein	B [auth D]	3,830	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y4A5 (Homo sapiens) Explore Q9Y4A5 Go to UniProtKB: Q9Y4A5
PHAROS: Q9Y4A5 GTEx: ENSG00000196367
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9Y4A5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
IHP Query on IHP Download:Ideal Coordinates CCD File SDF format, chain C [auth D] MOL2 format, chain C [auth D] mmCIF format, chain C [auth D]	C [auth D]	INOSITOL HEXAKISPHOSPHATE C₆ H₁₈ O₂₄ P₆ IMQLKJBTEOYOSI-GPIVLXJGSA-N		Interactions Focus chain C [auth D] Interactions & Density Focus chain C [auth D]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.05 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21_5207
RECONSTRUCTION	RELION

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-06-18

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	--

Revision History (Full details and data files)

Version 1.0: 2025-06-18
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.