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Crystal structure of plasmodium vivax AMA1 in complex with a 39 aa PVRON2 peptide

Analyse Crystal structure of plasmodium vivax AMA1 in complex with a 39 aa PVRON2… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5NQG
Type: protein
Length: 415 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Apical merozoite antigen 1; RON2
UniProt: O61130, A5K3N8
Pockets: 4 · best druggability 0.48

Structure

x-ray diffraction · 2 distinct chains · 19% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Apical merozoite antigen 1	protein	382	19% helix, 28% strand	O61130
B	RON2	protein	33	18% helix, 27% strand	A5K3N8

Pockets

4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	125	0.48	0.79	26	empty
2	95	0.40	0.76	23	empty
3	91	0.38	0.76	18	empty
4	87	0.32	0.73	18	empty

Interfaces

1 interface between chains.

A–B · 1451 Å² buried · 17 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 9 disulfide (disulfide).

Compared structures

5NQG · Crystal structure of Plasmodium vivax AMA1 in complex with a 39 aa PvRON2 peptide · 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 O61130
Every structure of UniProt A5K3N8
Elsewhere: RCSB PDB 5NQG · PDBe 5NQG · UniProt O61130 · UniProt A5K3N8

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