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First structure of a snake venom metalloproteinase: a prototype for matrix METALLOPROTEINASES(SLASH)COLLAGENASES

Analyse First structure of a snake venom metalloproteinase: a prototype for matrix… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB
1IAG
Type
protein
Length
201 residues
Chains
1
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Adamalysin II
EC
3.4.24.46
UniProt
P34179
Ligands
ZN, CA, SO4
Pockets
1 · best druggability 0.46

Structure

x-ray diffraction · 1 distinct chain · 38% helix, 20% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
AAdamalysin II (EC 3.4.24.46)protein20138% helix, 20% strandP34179

Ligands and binding sites

  • ZN · Zinc ion · metal · chains A
  • CA · Calcium ion · metal · chains A
  • SO4 · Sulfate ion · ion · chains A

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

Pockets

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

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
1830.460.8122ZN

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

  • 1IAG · First structure of a snake venom metalloproteinase: a prototype for matrix… · the same entry in another collection · chain A against A, TM-score 1.00
  • P34179 · AlphaFold monomer V2.0 prediction for snake venom metalloproteinase adamalysin-2 (P34179) · a predicted model of the same protein · chain A against A, TM-score 0.99

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