MolNFT v1 · #123566 · protein

Structure of proplasmepsin IV from plasmodium falciparum

5JOD: “Structure of proplasmepsin IV from plasmodium falciparum”. X-ray diffraction, 5 pockets (best druggability 0.75). MolNFT v1 #123566 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5JOD
Type: protein
Length: 750 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Proplasmepsin IV
UniProt: W7FF86
Pockets: 5 · best druggability 0.75

Structure

x-ray diffraction · 1 distinct chain · 18% helix, 41% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Proplasmepsin IV	protein	375	18% helix, 41% strand	W7FF86

Ligands and binding sites

GOL · Glycerol · additive · 9 copies · chains A, B

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

Pockets

5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	648	0.75	0.81	77	empty
2	561	0.74	0.82	61	GOL
3	438	0.65	0.78	48	GOL
4	131	0.41	0.75	26	empty
5	87	0.40	0.78	19	empty

Interfaces

1 interface between chains.

A–B · 610 Å² buried · 4 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide, 1 covalent (disulfide, additive adduct).

Compared structures

5JOD · Structure of proplasmepsin IV from Plasmodium falciparum · 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 W7FF86
Elsewhere: RCSB PDB 5JOD · PDBe 5JOD · UniProt W7FF86

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.