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DC26 mutant of vaccinia virus protein VP39 in complex with S-adenosylhomocysteine and M7G(5')PPPG

Analyse DC26 mutant of vaccinia virus protein VP39 in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1P39
Type: protein
Length: 291 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 2
Source: Vaccinia virus
Molecule: VP39
EC: 2.7.7.19
UniProt: P07617
Ligands: SAH, MGT
Pockets: 4 · best druggability 0.50

Structure

x-ray diffraction · resolution 2 · 1 distinct chain · 41% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	VP39 (EC 2.7.7.19)	protein	291	41% helix, 17% strand	P07617

Ligands and binding sites

SAH · S-adenosyl-L-homocysteine · ligand · chains A
MGT · 7N-methyl-8-hydroguanosine-5'-triphosphate · ligand · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	179	0.50	0.77	37	MGT
2	77	0.35	0.76	18	empty
3	76	0.34	0.75	13	empty
4	63	0.29	0.74	18	SAH

Compared structures

1P39 · DC26 mutant of vaccinia virus protein VP39 in complex with S- adenosylhomocysteine and… · 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 P07617
Elsewhere: RCSB PDB 1P39 · PDBe 1P39 · UniProt P07617

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