MolNFT v1 · #49471 · protein

Crystal structure of S.CEREVISIAE VPS4

2QP9 · Vacuolar protein sorting-associated protein 4: “Crystal structure of S.CEREVISIAE VPS4”. X-ray diffraction, 2 ligands (CD, SO4), 2 pockets (best druggability 0.64). MolNFT v1 #49471 on GenesisL1: 3D structure, binding sites and…

PDB: 2QP9
Type: protein
Length: 288 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Vacuolar protein sorting-associated protein 4
UniProt: P52917
Ligands: CD, SO4
Pockets: 2 · best druggability 0.64

Structure

x-ray diffraction · 1 distinct chain · 53% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
X	Vacuolar protein sorting-associated protein 4	protein	288	53% helix, 14% strand	P52917

Ligands and binding sites

CD · Cadmium ion · metal · 2 copies · chains X
SO4 · Sulfate ion · ion · chains X

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	240	0.64	0.82	29	empty
2	144	0.50	0.79	27	empty

Compared structures

2QP9 · Crystal Structure of S.cerevisiae Vps4 · the same entry in another collection · chain X against X, TM-score 1.00
P52917 · AlphaFold monomer V2.0 prediction for vacuolar protein sorting- associated protein 4… · a predicted model of the same protein · chain X against A, TM-score 0.92

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 P52917
Elsewhere: RCSB PDB 2QP9 · PDBe 2QP9 · UniProt P52917

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