Research workbench

Low conductance mechanosensitive channel ynai

Analyse Low conductance mechanosensitive channel ynai in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7N4T
Type: protein
Length: 1,603 residues
Chains: 7
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Low conductance mechanosensitive channel ynai
UniProt: P0AEB5
Ligands: PEE
Pockets: 20 · best druggability 0.75

Structure

electron microscopy · 1 distinct chain · 45% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G	Low conductance mechanosensitive channel ynai	protein	229	45% helix, 18% strand	P0AEB5

Ligands and binding sites

PEE · 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine · ligand · 7 copies · chains A, B, G, C, D, E, F

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

20 pockets found on a 1 Å grid, 15 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1134	0.75	0.77	46	empty
2	940	0.74	0.77	115	empty
3	81	0.73	0.96	18	empty
4	75	0.72	0.96	17	empty
5	74	0.71	0.96	19	empty

Interfaces

14 interfaces between chains.

F–G · 3207 Å² buried · 31 hydrogen bonds · protein-protein
A–G · 3201 Å² buried · 30 hydrogen bonds · protein-protein
D–E · 3151 Å² buried · 30 hydrogen bonds · protein-protein
E–F · 3123 Å² buried · 33 hydrogen bonds · protein-protein
A–B · 3116 Å² buried · 25 hydrogen bonds · protein-protein

Compared structures

7N4T · Low conductance mechanosensitive channel YnaI · the same entry in another collection · chain G against G, TM-score 1.00
P0AEB5 · AlphaFold monomer V2.0 prediction for low conductance mechanosensitive channel ynai… · a predicted model of the same protein · chain A against A, TM-score 0.90

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 7N4T · PDBe 7N4T · UniProt P0AEB5

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