MolNFT v2 · #157152 · protein

cryo-EM structure of C-terminal truncated human Pannexin1

6LTN · Pannexin-1: “cryo-EM structure of C-terminal truncated human Pannexin1”. Electron microscopy at 3.1, 20 pockets (best druggability 0.77). MolNFT v2 #157152 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6LTN
Type: protein
Length: 1,708 residues
Chains: 7
Method: electron microscopy
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 3.1
Source: Homo sapiens
Molecule: Pannexin-1
UniProt: Q96RD7
Pockets: 20 · best druggability 0.77

Structure

electron microscopy · resolution 3.1 · 1 distinct chain · 62% helix, 4% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
E, A, B, C, D, F, G	Pannexin-1	protein	244	62% helix, 4% 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	1037	0.77	0.79	126	empty
2	62	0.69	0.96	21	empty
3	56	0.69	0.96	27	empty
4	55	0.69	0.96	22	empty
5	475	0.69	0.79	56	empty

Interfaces

7 interfaces between chains.

B–G · 1752 Å² buried · 8 hydrogen bonds · protein-protein
E–C · 1716 Å² buried · 8 hydrogen bonds · protein-protein
B–D · 1710 Å² buried · 8 hydrogen bonds · protein-protein
A–F · 1692 Å² buried · 9 hydrogen bonds · protein-protein
C–F · 1653 Å² buried · 9 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 7 disulfide (disulfide).

Compared structures

6LTN · Cryo-EM structure of C-terminal truncated human PANNEXIN1 · 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 E against A, TM-score 0.96

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 6LTN · PDBe 6LTN · UniProt Q96RD7

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