Research workbench

Calpain domain VI

Analyse Calpain domain VI in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1NX2
Type: protein
Length: 173 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Calcium-dependent protease, small subunit
UniProt: P04574
Ligands: CA
Pockets: 3 · best druggability 0.37

Structure

x-ray diffraction · 1 distinct chain · 62% helix, 3% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Calcium-dependent protease, small subunit	protein	173	62% helix, 3% strand	P04574

Ligands and binding sites

CA · Calcium ion · metal · 4 copies · chains A

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

Pockets

3 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	97	0.37	0.75	15	empty
2	55	0.29	0.74	11	empty
3	64	0.29	0.73	12	empty

Compared structures

1NX2 · Calpain Domain VI · the same entry in another collection · chain A against A, TM-score 1.00
P04574 · AlphaFold monomer V2.0 prediction for calpain small subunit 1 (P04574) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P04574
Elsewhere: RCSB PDB 1NX2 · PDBe 1NX2 · UniProt P04574

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