MolNFT v1 · #156500 · protein

The cryo-EM structure of human pannexin 1 in the presence of cbx

6M68 · Pannexin-1: “The cryo-EM structure of human pannexin 1 in the presence of cbx”. Electron microscopy, 20 pockets (best druggability 0.85). MolNFT v1 #156500 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6M68
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 0.85

Structure

electron microscopy · 1 distinct chain · 60% helix, 3% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G	Pannexin-1	protein	265	60% helix, 3% strand	Q96RD7

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	778	0.85	0.88	114	empty
2	1112	0.84	0.85	125	empty
3	622	0.84	0.88	90	empty
4	585	0.82	0.87	85	empty
5	916	0.81	0.83	123	empty

Interfaces

7 interfaces between chains.

F–G · 1716 Å² buried · 6 hydrogen bonds · protein-protein
A–G · 1647 Å² buried · 6 hydrogen bonds · protein-protein
E–F · 1630 Å² buried · 8 hydrogen bonds · protein-protein
A–B · 1630 Å² buried · 6 hydrogen bonds · protein-protein
C–D · 1629 Å² buried · 8 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 14 disulfide (disulfide).

Compared structures

6M68 · The Cryo-EM Structure of Human Pannexin 1 in the Presence of CBX · the same entry in another collection · chain G against G, 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 6M68 · PDBe 6M68 · UniProt Q96RD7

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