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RUSSELL'S viper venom serine proteinase, rvv-V (closed-form)

Analyse RUSSELL'S viper venom serine proteinase, rvv-V (closed-form) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB
3S9A
Type
protein
Length
234 residues
Chains
1
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Vipera russelli proteinase rvv-V gamma
EC
3.4.21.95
UniProt
P18965
Ligands
NAG
Pockets
1 · best druggability 0.45

Structure

x-ray diffraction · 1 distinct chain · 9% helix, 34% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
AVipera russelli proteinase rvv-V gamma (EC 3.4.21.95)protein2349% helix, 34% strandP18965

Ligands and binding sites

  • NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 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
11050.450.7929empty

Modifications

Observed in the structure: 6 disulfide, 1 glycan (disulfide, N-glycosylation).

Compared structures

  • 3S9A · Russell's viper venom serine proteinase, RVV-V (closed-form) · the same entry in another collection · chain A against A, TM-score 1.00
  • P18965 · AlphaFold monomer V2.0 prediction for factor V activator rvv-V gamma (P18965) · a predicted model of the same protein · chain A against A, TM-score 0.99

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