MolNFT v1 · #84213 · protein

Tetramerization domain of measles virus phosphoprotein

3ZDO: “Tetramerization domain of measles virus phosphoprotein”. X-ray diffraction, 3 pockets (best druggability 0.59). MolNFT v1 #84213 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3ZDO
Type: protein
Length: 505 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Phosphoprotein
UniProt: Q83623
Pockets: 3 · best druggability 0.59

Structure

x-ray diffraction · 5 distinct chains · 96% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Phosphoprotein	protein	63	95% helix, 0% strand	Q83623
B, E, H	Phosphoprotein	protein	62	97% helix, 0% strand	Q83623
C	Phosphoprotein	protein	63	97% helix, 0% strand	Q83623
D, G	Phosphoprotein	protein	64	94% helix, 0% strand	Q83623
F	Phosphoprotein	protein	65	95% helix, 0% strand	Q83623

Ligands and binding sites

MRD · (4R)-2-methylpentane-2,4-diol · additive · chains A, B

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

Pockets

3 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	187	0.59	0.81	20	MRD
2	107	0.45	0.79	16	empty
3	92	0.42	0.78	20	empty

Interfaces

20 interfaces between chains.

E–F · 1609 Å² buried · 14 hydrogen bonds · protein-protein
A–D · 1588 Å² buried · 13 hydrogen bonds · protein-protein
B–C · 1545 Å² buried · 12 hydrogen bonds · protein-protein
G–H · 1528 Å² buried · 15 hydrogen bonds · protein-protein
F–G · 1484 Å² buried · 8 hydrogen bonds · protein-protein

Compared structures

3ZDO · Tetramerization domain of Measles virus phosphoprotein · 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 Q83623
Elsewhere: RCSB PDB 3ZDO · PDBe 3ZDO · UniProt Q83623

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