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Human vinculin head domain (VH1, 1-258) in complex with human alpha-ACTININ'S vinculin-binding site (residues 731- 760)

Analyse Human vinculin head domain (VH1, 1-258) in complex with human alpha-ACTININ'S… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1YDI
Type: protein
Length: 280 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Vinculin isoform vcl; Alpha-actinin 4
UniProt: O43707
Pockets: 1 · best druggability 0.50

Structure

x-ray diffraction · 2 distinct chains · 83% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Vinculin isoform vcl	protein	256	82% helix, 1% strand	—
B	Alpha-actinin 4	protein	24	88% helix, 0% strand	O43707

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	179	0.50	0.77	20	empty

Interfaces

1 interface between chains.

A–B · 1285 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

1YDI · Human Vinculin Head Domain (VH1, 1-258) in Complex with Human Alpha-Actinin's… · the same entry in another collection · chain A against A, TM-score 1.00
O43707 · AlphaFold monomer V2.0 prediction for alpha-actinin-4 (O43707) · a predicted model of the same protein · chain B against A, TM-score 0.84

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 O43707
Elsewhere: RCSB PDB 1YDI · PDBe 1YDI · UniProt O43707

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