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MolNFT v1 · #8040 · protein

HYDROLASE(ENDORIBONUCLEASE)RIBONUCLEASE BI(G specific endonuclease) (E.C.3.1.27.-) complexed with guanosine-3'-phosphate (3'-gmp)

1GOY: “HYDROLASE(ENDORIBONUCLEASE)RIBONUCLEASE BI(G specific endonuclease) (E.C.3.1.27.-) complexed with…”. X-ray diffraction, 2 ligands (3GP, SO4), 2 pockets (best druggability 0.45). MolNFT v1 #8040 on GenesisL1: 3D structure, binding…

PDB
1GOY
Type
protein
Length
216 residues
Chains
2
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Ribonuclease
EC
3.1.27.3
UniProt
P00649
Ligands
3GP, SO4
Pockets
2 · best druggability 0.45

Structure

x-ray diffraction · 1 distinct chain · 19% helix, 23% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
A, BRibonuclease (EC 3.1.27.3)protein10819% helix, 23% strandP00649

Ligands and binding sites

  • 3GP · Guanosine-3'-monophosphate · ligand · chains A
  • SO4 · Sulfate ion · ion · 3 copies · chains A, B

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

Pockets

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

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
1960.450.7919SO4
2970.380.7627SO4

Interfaces

1 interface between chains.

  • A–B · 369 Ų buried · 7 hydrogen bonds · protein-protein

Compared structures

  • 1GOY · HYDROLASE(ENDORIBONUCLEASE)RIBONUCLEASE BI(G specific endonuclease) (E.C.3.1.27.-)… · the same entry in another collection · chain A against A, TM-score 1.00
  • P00649 · AlphaFold monomer V2.0 prediction for ribonuclease (P00649) · a predicted model of the same protein · chain A against A, TM-score 0.99

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