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Crystal structure of VPA0735 from vibrio parahaemolyticus. northeast structural genomics target VPR109

Analyse Crystal structure of VPA0735 from vibrio parahaemolyticus. northeast structural… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2P3Y
Type: protein
Length: 922 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Hypothetical protein VPA0735
UniProt: Q87I71
Pockets: 4 · best druggability 0.70

Structure

x-ray diffraction · 1 distinct chain · 28% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Hypothetical protein VPA0735	protein	461	28% helix, 26% strand	Q87I71

Pockets

4 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	225	0.70	0.86	51	empty
2	237	0.67	0.84	57	empty
3	68	0.30	0.74	17	empty
4	61	0.29	0.74	19	empty

Interfaces

1 interface between chains.

A–B · 3596 Å² buried · 55 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 28 modified (engineered).

Compared structures

2P3Y · Crystal structure of VPA0735 from Vibrio parahaemolyticus. NorthEast Structural Genomics… · 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 Q87I71
Elsewhere: RCSB PDB 2P3Y · PDBe 2P3Y · UniProt Q87I71

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