8VLX | pdb_00008vlx

HTT in complex with HAP40 and a small molecule.

PDB DOI: https://doi.org/10.2210/pdb8VLX/pdb
EM Map EMD-43347: EMDB EMDataResource

Classification: UNKNOWN FUNCTION
Organism(s): Homo sapiens
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2024-01-12 Released: 2024-03-06
Deposition Author(s): Poweleit, N., Boudet, J., Doherty, E.
Funding Organization(s): Other private

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.60 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

Validation slider image for 8VLX

This is version 1.2 of the entry. See complete history.

Literature

Discovery of a Small Molecule Ligand to the Huntingtin/HAP40 complex

Poweleit, N., Boudet, J., Doherty, E.

To be published.

Macromolecule Content

Total Structure Weight: 395.24 kDa
Atom Count: 21,239
Modeled Residue Count: 2,710
Deposited Residue Count: 3,576
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Huntingtin	A	3,187	Homo sapiens	Mutation(s): 0 Gene Names: HTT, HD, IT15
UniProt & NIH Common Fund Data Resources
Find proteins for P42858 (Homo sapiens) Explore P42858 Go to UniProtKB: P42858
PHAROS: P42858 GTEx: ENSG00000197386
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P42858
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
40-kDa huntingtin-associated protein	B	389	Homo sapiens	Mutation(s): 0 Gene Names: F8A1, F8A2, F8A3
UniProt & NIH Common Fund Data Resources
Find proteins for P23610 (Homo sapiens) Explore P23610 Go to UniProtKB: P23610
GTEx: ENSG00000277150
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P23610
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1ACS (Subject of Investigation/LOI) Query on A1ACS Download:Ideal Coordinates CCD File SDF format, chain C [auth B] MOL2 format, chain C [auth B] mmCIF format, chain C [auth B]	C [auth B]	N-[(1S,2R)-2-benzylcyclopentyl]-N'-{1-[(1S)-1-(pyridin-4-yl)ethyl]piperidin-4-yl}urea C₂₅ H₃₄ N₄ O VTYNQXSOEMAIGY-KWOQKUFVSA-N		Interactions Focus chain C [auth B] Interactions & Density Focus chain C [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.60 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC	4.2
MODEL REFINEMENT	Coot
MODEL REFINEMENT	PHENIX

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-03-06

Deposition Author(s):

Funding Organization	Location	Grant Number
Other private	United States	--

Revision History (Full details and data files)

Version 1.0: 2024-03-06
Type: Initial release
Version 1.1: 2024-03-13
Changes: Structure summary
Version 1.2: 2024-10-16
Changes: Data collection, Structure summary

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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.