MolNFT v1 · #175938 · protein

Structural insights into membrane remodeling by SNX1

7D6D · Sorting nexin-1: “Structural insights into membrane remodeling by SNX1”. Electron microscopy, 20 pockets (best druggability 0.90). MolNFT v1 #175938 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7D6D
Type: protein
Length: 6,080 residues
Chains: 16
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Sorting nexin-1
UniProt: Q6NZD2
Pockets: 20 · best druggability 0.90

Structure

electron microscopy · 1 distinct chain · 71% helix, 3% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	Sorting nexin-1	protein	380	71% helix, 3% strand	Q6NZD2

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	1080	0.90	0.91	128	empty
2	1200	0.90	0.92	144	empty
3	1112	0.90	0.91	136	empty
4	1089	0.90	0.91	132	empty
5	1004	0.90	0.91	118	empty

Interfaces

21 interfaces between chains.

M–N · 1760 Å² buried · 4 hydrogen bonds · protein-protein
K–L · 1760 Å² buried · 4 hydrogen bonds · protein-protein
E–F · 1759 Å² buried · 4 hydrogen bonds · protein-protein
A–B · 1757 Å² buried · 4 hydrogen bonds · protein-protein
G–H · 1756 Å² buried · 4 hydrogen bonds · protein-protein

Compared structures

7D6D · Structural insights into membrane remodeling by SNX1 · 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 Q6NZD2
Elsewhere: RCSB PDB 7D6D · PDBe 7D6D · UniProt Q6NZD2

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