GL1X · GenesisL1 explorer

Research workbench

Pokeweed antiviral protein from seeds (pap-S1) complexed with formycin

Analyse Pokeweed antiviral protein from seeds (pap-S1) complexed with formycin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB
1J1S
Type
protein
Length
261 residues
Chains
1
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Antiviral protein S
EC
3.2.2.22
UniProt
P23339
Ligands
FMP, NAG
Pockets
1 · best druggability 0.41

Structure

x-ray diffraction · 1 distinct chain · 39% helix, 24% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
AAntiviral protein S (EC 3.2.2.22)protein26139% helix, 24% strandP23339

Ligands and binding sites

  • FMP · Formycin-5'-monophosphate · ligand · chains A
  • 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
1820.410.7816FMP

Modifications

Observed in the structure: 2 disulfide, 1 glycan (disulfide, N-glycosylation).

Compared structures

  • 1J1S · Pokeweed Antiviral Protein from Seeds (PAP-S1) Complexed with Formycin · the same entry in another collection · chain A against A, TM-score 1.00
  • P23339 · AlphaFold monomer V2.0 prediction for antiviral protein S (P23339) · a predicted model of the same protein · chain A against A, TM-score 0.99

Analyse

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.