7OR0 | pdb_00007or0

Cryo-EM structure of the human TRPA1 ion channel in complex with the antagonist 3-60, conformation 2

PDB DOI: https://doi.org/10.2210/pdb7OR0/pdb
EM Map EMD-13036: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Homo sapiens
Expression System: Homo sapiens
Mutation(s): Yes
Membrane Protein: Yes OPM PDBTM

Deposited: 2021-06-04 Released: 2022-06-22
Deposition Author(s): Grieben, M., Pike, A.C.W., Saward, B.G., Wang, D., Mukhopadhyay, S.M.M., Moreira, T., Chalk, R., MacLean, E.M., Marsden, B.D., Burgess-Brown, N.A., Bountra, C., Schofield, C.J., Carpenter, E.P.
Funding Organization(s): Wellcome Trust, European Commission

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.64 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 7OR0

This is version 1.1 of the entry. See complete history.

Literature

Cryo-EM structure of the human TRPA1 ion channel in complex with the antagonist 3-60

Grieben, M., Saward, B.G., Pike, A.C.W., Schofield, C.J., Carpenter, E.P.

To be published.

Macromolecule Content

Total Structure Weight: 527.32 kDa
Atom Count: 19,869
Modeled Residue Count: 2,384
Deposited Residue Count: 4,504
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transient receptor potential cation channel subfamily A member 1	A, B, C, D	1,126	Homo sapiens	Mutation(s): 2 Gene Names: TRPA1, ANKTM1 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for O75762 (Homo sapiens) Explore O75762 Go to UniProtKB: O75762
PHAROS: O75762 GTEx: ENSG00000104321
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O75762
Glycosylation
Glycosylation Sites: 2	Glycosylation Focus chain A Focus chain B Focus chain C Focus chain D	Go to GlyGen: O75762-1
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	E, F, G, H	2		N-Glycosylation	Interactions Focus chain E Focus chain F Focus chain G Focus chain H Interactions & Density Focus chain E Focus chain F Focus chain G Focus chain H
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PC1 Query on PC1 Download:Ideal Coordinates CCD File SDF format, chain X [auth C] SDF format, chain W [auth C] SDF format, chain Q [auth B] SDF format, chain P [auth B] SDF format, chain K [auth A] SDF format, chain J [auth A] SDF format, chain EA [auth D] SDF format, chain DA [auth D] MOL2 format, chain X [auth C] MOL2 format, chain W [auth C] MOL2 format, chain Q [auth B] MOL2 format, chain P [auth B] MOL2 format, chain K [auth A] MOL2 format, chain J [auth A] MOL2 format, chain EA [auth D] MOL2 format, chain DA [auth D] mmCIF format, chain X [auth C] mmCIF format, chain W [auth C] mmCIF format, chain Q [auth B] mmCIF format, chain P [auth B] mmCIF format, chain K [auth A] mmCIF format, chain J [auth A] mmCIF format, chain EA [auth D] mmCIF format, chain DA [auth D]	DA [auth D] EA [auth D] J [auth A] K [auth A] P [auth B] DA [auth D], EA [auth D], J [auth A], K [auth A], P [auth B], Q [auth B], W [auth C], X [auth C]	1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE C₄₄ H₈₈ N O₈ P NRJAVPSFFCBXDT-HUESYALOSA-N		Interactions Focus chain DA [auth D] Focus chain EA [auth D] Focus chain J [auth A] Focus chain K [auth A] Focus chain P [auth B] Focus chain Q [auth B] Focus chain W [auth C] Focus chain X [auth C] Interactions & Density Focus chain DA [auth D] Focus chain EA [auth D] Focus chain J [auth A] Focus chain K [auth A] Focus chain P [auth B] Focus chain Q [auth B] Focus chain W [auth C] Focus chain X [auth C]
IHP Query on IHP Download:Ideal Coordinates CCD File SDF format, chain T [auth B] SDF format, chain N [auth A] SDF format, chain BA [auth D] SDF format, chain AA [auth C] MOL2 format, chain T [auth B] MOL2 format, chain N [auth A] MOL2 format, chain BA [auth D] MOL2 format, chain AA [auth C] mmCIF format, chain T [auth B] mmCIF format, chain N [auth A] mmCIF format, chain BA [auth D] mmCIF format, chain AA [auth C]	AA [auth C], BA [auth D], N [auth A], T [auth B]	INOSITOL HEXAKISPHOSPHATE C₆ H₁₈ O₂₄ P₆ IMQLKJBTEOYOSI-GPIVLXJGSA-N		Interactions Focus chain AA [auth C] Focus chain BA [auth D] Focus chain N [auth A] Focus chain T [auth B] Interactions & Density Focus chain AA [auth C] Focus chain BA [auth D] Focus chain N [auth A] Focus chain T [auth B]
0IG (Subject of Investigation/LOI) Query on 0IG Download:Ideal Coordinates CCD File SDF format, chain V [auth C] SDF format, chain O [auth B] SDF format, chain I [auth A] SDF format, chain CA [auth D] MOL2 format, chain V [auth C] MOL2 format, chain O [auth B] MOL2 format, chain I [auth A] MOL2 format, chain CA [auth D] mmCIF format, chain V [auth C] mmCIF format, chain O [auth B] mmCIF format, chain I [auth A] mmCIF format, chain CA [auth D]	CA [auth D], I [auth A], O [auth B], V [auth C]	~{N}-[4-[4-[(azanylidene-$l^{4}-azanylidene)amino]phenyl]-1,3-thiazol-2-yl]-2-[1,3-dimethyl-2,6-bis(oxidanylidene)purin-7-yl]ethanamide C₁₈ H₁₆ N₉ O₃ S BCMLFCZGHWVERY-UHFFFAOYSA-O		Interactions Focus chain CA [auth D] Focus chain I [auth A] Focus chain O [auth B] Focus chain V [auth C] Interactions & Density Focus chain CA [auth D] Focus chain I [auth A] Focus chain O [auth B] Focus chain V [auth C]
NAG Query on NAG Download:Ideal Coordinates CCD File SDF format, chain Z [auth C] SDF format, chain S [auth B] SDF format, chain M [auth A] SDF format, chain GA [auth D] MOL2 format, chain Z [auth C] MOL2 format, chain S [auth B] MOL2 format, chain M [auth A] MOL2 format, chain GA [auth D] mmCIF format, chain Z [auth C] mmCIF format, chain S [auth B] mmCIF format, chain M [auth A] mmCIF format, chain GA [auth D]	GA [auth D], M [auth A], S [auth B], Z [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain GA [auth D] Focus chain M [auth A] Focus chain S [auth B] Focus chain Z [auth C] Interactions & Density Focus chain GA [auth D] Focus chain M [auth A] Focus chain S [auth B] Focus chain Z [auth C]
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain Y [auth C] SDF format, chain U [auth B] SDF format, chain R [auth B] SDF format, chain L [auth A] SDF format, chain FA [auth D] MOL2 format, chain Y [auth C] MOL2 format, chain U [auth B] MOL2 format, chain R [auth B] MOL2 format, chain L [auth A] MOL2 format, chain FA [auth D] mmCIF format, chain Y [auth C] mmCIF format, chain U [auth B] mmCIF format, chain R [auth B] mmCIF format, chain L [auth A] mmCIF format, chain FA [auth D]	FA [auth D], L [auth A], R [auth B], U [auth B], Y [auth C]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain FA [auth D] Focus chain L [auth A] Focus chain R [auth B] Focus chain U [auth B] Focus chain Y [auth C] Interactions & Density Focus chain FA [auth D] Focus chain L [auth A] Focus chain R [auth B] Focus chain U [auth B] Focus chain Y [auth C]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.64 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2022-06-22

Deposition Author(s):

Mukhopadhyay, S.M.M.

Burgess-Brown, N.A.

Schofield, C.J.

Carpenter, E.P.

Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	106169/Z/14/Z
European Commission	United Kingdom	115766

Revision History (Full details and data files)

Version 1.0: 2022-06-22
Type: Initial release
Version 1.1: 2024-11-20
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.