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Crystal structure of Vps75

Analyse Crystal structure of Vps75 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3C9D
Type: protein
Length: 413 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 2
Source: Saccharomyces cerevisiae
Molecule: Vacuolar protein sorting-associated protein 75
UniProt: P53853
Pockets: 2 · best druggability 0.58

Structure

x-ray diffraction · resolution 2 · 2 distinct chains · 52% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Vacuolar protein sorting-associated protein 75	protein	208	51% helix, 15% strand	P53853
B	Vacuolar protein sorting-associated protein 75	protein	205	52% helix, 15% strand	P53853

Pockets

2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	310	0.58	0.77	36	empty
2	142	0.50	0.79	29	empty

Interfaces

1 interface between chains.

A–B · 1432 Å² buried · 7 hydrogen bonds · protein-protein

Compared structures

3C9D · Crystal structure of VPS75 · the same entry in another collection · chain A against A, TM-score 1.00
P53853 · AlphaFold monomer V2.0 prediction for vacuolar protein sorting- associated protein 75… · a predicted model of the same protein · chain B against A, TM-score 0.94

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 P53853
Elsewhere: RCSB PDB 3C9D · PDBe 3C9D · UniProt P53853

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