MolNFT v1 · #167890 · protein

Cryo-EM structure of mechanosensitive channel mscs in pc-10 nanodiscs

6VYL: “Cryo-EM structure of mechanosensitive channel mscs in pc-10 nanodiscs”. Electron microscopy, 20 pockets (best druggability 0.86). MolNFT v1 #167890 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6VYL
Type: protein
Length: 1,792 residues
Chains: 7
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Mechanosensitive channel mscs
UniProt: C3SVH2
Pockets: 20 · best druggability 0.86

Structure

electron microscopy · 1 distinct chain · 46% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G	Mechanosensitive channel mscs	protein	256	46% helix, 21% strand	C3SVH2

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	1131	0.86	0.87	126	empty
2	575	0.82	0.87	64	empty
3	224	0.74	0.88	45	empty
4	259	0.74	0.87	28	empty
5	196	0.72	0.88	35	empty

Interfaces

14 interfaces between chains.

F–G · 2749 Å² buried · 24 hydrogen bonds · protein-protein
E–F · 2732 Å² buried · 22 hydrogen bonds · protein-protein
B–C · 2727 Å² buried · 24 hydrogen bonds · protein-protein
D–E · 2721 Å² buried · 24 hydrogen bonds · protein-protein
A–B · 2720 Å² buried · 24 hydrogen bonds · protein-protein

Compared structures

6VYL · Cryo-EM structure of mechanosensitive channel MscS in PC-10 nanodiscs · the same entry in another collection · chain A against A, TM-score 1.00

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 C3SVH2
Elsewhere: RCSB PDB 6VYL · PDBe 6VYL · UniProt C3SVH2

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