MolNFT v1 · #140638 · protein

Crystal structure of PD(ALLYL)/POLYHEDRA mutant with deletion of GLY192-ALA194

5YHB · Polyhedrin: “Crystal structure of PD(ALLYL)/POLYHEDRA mutant with deletion of GLY192-ALA194”. X-ray diffraction, 2 ligands (PLL, PD), 1 pocket (best druggability 0.55). MolNFT v1 #140638 on GenesisL1: 3D structure, binding sites and…

PDB: 5YHB
Type: protein
Length: 178 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Polyhedrin
UniProt: P11041
Ligands: PLL, PD
Pockets: 1 · best druggability 0.55

Structure

x-ray diffraction · 1 distinct chain · 20% helix, 47% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Polyhedrin	protein	178	20% helix, 47% strand	P11041

Ligands and binding sites

PLL · Palladium(II) allyl complex · ligand · chains A
PD · Palladium ion · metal · 7 copies · 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, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	172	0.55	0.80	23	empty

Compared structures

5YHB · Crystal structure of Pd(allyl)/polyhedra mutant with deletion of Gly192-Ala194 · 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 5YHB · PDBe 5YHB · UniProt P11041

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