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Cryo-EM structure of full-length TRPV1 at PH6B state

Analyse Cryo-EM structure of full-length TRPV1 at PH6B state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7L2K
Type: protein
Length: 1,976 residues
Chains: 4
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Transient receptor potential cation channel subfamily V member 1
UniProt: O35433
Pockets: 20 · best druggability 0.85

Structure

electron microscopy · 1 distinct chain · 61% helix, 2% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C, D, B	Transient receptor potential cation channel subfamily V member 1	protein	494	61% helix, 2% strand	O35433

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	293	0.85	0.95	35	empty
2	1048	0.82	0.82	101	empty
3	1061	0.81	0.82	96	empty
4	1034	0.81	0.82	83	empty
5	609	0.77	0.83	54	empty

Interfaces

6 interfaces between chains.

A–D · 2148 Å² buried · 5 hydrogen bonds · protein-protein
C–D · 2138 Å² buried · 7 hydrogen bonds · protein-protein
A–B · 2128 Å² buried · 4 hydrogen bonds · protein-protein
C–B · 2056 Å² buried · 5 hydrogen bonds · protein-protein
D–B · 33 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

7L2K · Cryo-EM structure of full-length TRPV1 at pH6b state · the same entry in another collection · chain A against A, TM-score 1.00
O35433 · AlphaFold monomer V2.0 prediction for transient receptor potential cation channel… · a predicted model of the same protein · chain A against A, TM-score 0.95

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt O35433
Elsewhere: RCSB PDB 7L2K · PDBe 7L2K · UniProt O35433

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