MolNFT v1 · #172307 · protein

Ynai in an open-like conformation

6ZYE · YNAI,LOW conductance mechanosensitive channel ynai: “Ynai in an open-like conformation”. Electron microscopy, 20 pockets (best druggability 0.74). MolNFT v1 #172307 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6ZYE
Type: protein
Length: 1,554 residues
Chains: 7
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: YNAI,LOW conductance mechanosensitive channel ynai
UniProt: P0AEB5
Pockets: 20 · best druggability 0.74

Structure

electron microscopy · 1 distinct chain · 42% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
E, C, A, B, D, F, G	YNAI,LOW conductance mechanosensitive channel ynai	protein	222	42% helix, 25% strand	P0AEB5

Pockets

20 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	87	0.74	0.96	19	empty
2	86	0.74	0.96	20	empty
3	75	0.72	0.96	19	empty
4	81	0.72	0.95	20	empty
5	68	0.72	0.97	19	empty

Interfaces

14 interfaces between chains.

C–G · 2351 Å² buried · 29 hydrogen bonds · protein-protein
A–B · 2336 Å² buried · 27 hydrogen bonds · protein-protein
E–D · 2333 Å² buried · 28 hydrogen bonds · protein-protein
B–D · 2307 Å² buried · 26 hydrogen bonds · protein-protein
F–G · 2291 Å² buried · 25 hydrogen bonds · protein-protein

Compared structures

6ZYE · YnaI in an open-like conformation · the same entry in another collection · chain C against C, TM-score 1.00
P0AEB5 · AlphaFold monomer V2.0 prediction for low conductance mechanosensitive channel ynai… · a predicted model of the same protein · chain E against A, TM-score 0.79

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 P0AEB5
Elsewhere: RCSB PDB 6ZYE · PDBe 6ZYE · UniProt P0AEB5

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