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Crystal structure of gelatinase a catalytic domain

Analyse Crystal structure of gelatinase a catalytic domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1QIB
Type: protein
Length: 161 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 72 kda type IV collagenase
EC: 3.4.24.24
UniProt: P08253
Ligands: CA, ZN
Pockets: 2 · best druggability 0.54

Structure

x-ray diffraction · 1 distinct chain · 25% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	72 kda type IV collagenase (EC 3.4.24.24)	protein	161	25% helix, 17% strand	P08253

Ligands and binding sites

CA · Calcium ion · metal · 3 copies · chains A
ZN · Zinc ion · metal · 2 copies · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	172	0.54	0.79	27	ZN
2	53	0.28	0.74	13	empty

Compared structures

1QIB · Crystal structure of gelatinase a catalytic domain · the same entry in another collection · chain A against A, TM-score 1.00
P08253 · AlphaFold monomer V2.0 prediction for 72 kda type IV collagenase (P08253) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 P08253
Elsewhere: RCSB PDB 1QIB · PDBe 1QIB · UniProt P08253

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