MolNFT v1 · #140937 · protein

Crystal structure of oxidized cypovirus polyhedra R13A/E73C/Y83C mutant

5YRC · Polyhedrin: “Crystal structure of oxidized cypovirus polyhedra R13A/E73C/Y83C mutant”. X-ray diffraction, 2 pockets (best druggability 0.55). MolNFT v1 #140937 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5YRC
Type: protein
Length: 244 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Polyhedrin
UniProt: P11041
Pockets: 2 · best druggability 0.55

Structure

x-ray diffraction · 1 distinct chain · 25% helix, 29% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Polyhedrin	protein	244	25% helix, 29% strand	P11041

Ligands and binding sites

EDO · 1,2-ethanediol · additive · 5 copies · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	162	0.55	0.80	21	EDO
2	130	0.40	0.75	26	empty

Compared structures

5YRC · Crystal Structure of Oxidized Cypovirus Polyhedra R13A/E73C/Y83C Mutant · the same entry in another collection · chain A against A, TM-score 1.00

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 P11041
Elsewhere: RCSB PDB 5YRC · PDBe 5YRC · UniProt P11041

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