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Apo full-length rat TRPV2 in nanodiscs, state 2

Analyse Apo full-length rat TRPV2 in nanodiscs, state 2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6U86
Type: protein
Length: 2,472 residues
Chains: 4
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Transient receptor potential cation channel subfamily V member 2
UniProt: Q9WUD2
Pockets: 20 · best druggability 0.78

Structure

electron microscopy · 1 distinct chain · 55% helix, 5% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D	Transient receptor potential cation channel subfamily V member 2	protein	618	55% helix, 5% strand	Q9WUD2

Pockets

20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	283	0.78	0.90	31	empty
2	268	0.77	0.89	29	empty
3	270	0.77	0.89	31	empty
4	272	0.77	0.89	27	empty
5	378	0.75	0.85	42	empty

Interfaces

6 interfaces between chains.

A–D · 3045 Å² buried · 17 hydrogen bonds · protein-protein
A–B · 3042 Å² buried · 16 hydrogen bonds · protein-protein
B–C · 3042 Å² buried · 17 hydrogen bonds · protein-protein
C–D · 3039 Å² buried · 16 hydrogen bonds · protein-protein
B–D · 29 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

6U86 · Apo full-length rat TRPV2 in nanodiscs, state 2 · the same entry in another collection · chain A against A, TM-score 1.00
Q9WUD2 · AlphaFold monomer V2.0 prediction for transient receptor potential cation channel… · a predicted model of the same protein · chain A against A, TM-score 0.94

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 Q9WUD2
Elsewhere: RCSB PDB 6U86 · PDBe 6U86 · UniProt Q9WUD2

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