MolNFT v1 · #156499 · protein

The cryo-EM structure of human pannexin 1 with D376E/D379E mutation

6M67 · Pannexin-1: “The cryo-EM structure of human pannexin 1 with D376E/D379E mutation”. Electron microscopy, 20 pockets (best druggability 0.83). MolNFT v1 #156499 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6M67
Type: protein
Length: 1,855 residues
Chains: 7
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Pannexin-1
UniProt: Q96RD7
Pockets: 20 · best druggability 0.83

Structure

electron microscopy · 1 distinct chain · 63% helix, 5% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G	Pannexin-1	protein	265	63% helix, 5% strand	Q96RD7

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	595	0.83	0.88	95	empty
2	515	0.82	0.88	77	empty
3	1130	0.80	0.81	114	empty
4	1169	0.80	0.81	116	empty
5	896	0.80	0.82	97	empty

Interfaces

7 interfaces between chains.

F–G · 1943 Å² buried · 6 hydrogen bonds · protein-protein
A–G · 1851 Å² buried · 5 hydrogen bonds · protein-protein
C–D · 1838 Å² buried · 5 hydrogen bonds · protein-protein
E–F · 1835 Å² buried · 8 hydrogen bonds · protein-protein
A–B · 1820 Å² buried · 6 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 14 disulfide (disulfide).

Compared structures

6M67 · The Cryo-EM Structure of Human Pannexin 1 with D376E/D379E Mutation · the same entry in another collection · chain E against E, TM-score 1.00
Q96RD7 · AlphaFold monomer V2.0 prediction for pannexin-1 (Q96RD7) · a predicted model of the same protein · chain A against A, TM-score 0.89

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 Q96RD7
Elsewhere: RCSB PDB 6M67 · PDBe 6M67 · UniProt Q96RD7

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