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Structure of DBL6 epsilon domain from VAR2CSA

Analyse Structure of DBL6 epsilon domain from VAR2CSA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2WAU
Type: protein
Length: 548 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Erythrocyte membrane protein 1 (PFEMP1)
UniProt: Q8I639
Pockets: 5 · best druggability 0.79

Structure

x-ray diffraction · 2 distinct chains · 57% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Erythrocyte membrane protein 1 (PFEMP1)	protein	277	57% helix, 1% strand	Q8I639
B	Erythrocyte membrane protein 1 (PFEMP1)	protein	271	58% helix, 1% strand	Q8I639

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	978	0.79	0.81	100	empty
2	475	0.67	0.78	31	empty
3	472	0.66	0.78	41	empty
4	200	0.53	0.78	23	empty
5	65	0.34	0.77	12	empty

Interfaces

1 interface between chains.

A–B · 922 Å² buried · 15 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 9 disulfide (disulfide).

Compared structures

2WAU · Structure of DBL6 epsilon domain from VAR2CSA · 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 Q8I639
Elsewhere: RCSB PDB 2WAU · PDBe 2WAU · UniProt Q8I639

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