MolNFT v1 · #130341 · protein

Binding of chloromethyl ketone substrate analogues to crystalline papain

5PAD: “Binding of chloromethyl ketone substrate analogues to crystalline papain”. X-ray diffraction, 2 ligands (PHQ, 0QE). MolNFT v1 #130341 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5PAD
Type: protein
Length: 215 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: P00784
Ligands: PHQ, 0QE

Structure

x-ray diffraction · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	—	protein	212	—	P00784
I	—	protein	3	—	—

Ligands and binding sites

PHQ · benzyl chlorocarbonate · ligand · chains A, I
0QE · Chloromethane · ion · chains A, I

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

Compared structures

5PAD · Binding of chloromethyl ketone substrate analogues to crystalline papain · the same entry in another collection · chain A against A, TM-score 1.00
P00784 · AlphaFold monomer V2.0 prediction for papain (P00784) · 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 P00784
Elsewhere: RCSB PDB 5PAD · PDBe 5PAD · UniProt P00784

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