MolNFT v1 · #159068 · protein

Herpes simplex virus type 1 (HSV-1) PUL6 portal protein, dodecameric complex

6OD7: “Herpes simplex virus type 1 (HSV-1) PUL6 portal protein, dodecameric complex”. Electron microscopy, 20 pockets (best druggability 0.89). MolNFT v1 #159068 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6OD7
Type: protein
Length: 4,596 residues
Chains: 12
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Portal protein
UniProt: H9E912
Pockets: 20 · best druggability 0.89

Structure

electron microscopy · 1 distinct chain · 58% helix, 7% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J, K, L	Portal protein	protein	383	58% helix, 7% strand	H9E912

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1037	0.89	0.90	162	empty
2	1101	0.88	0.89	156	empty
3	1156	0.88	0.89	159	empty
4	992	0.88	0.89	133	empty
5	1022	0.88	0.89	140	empty

Interfaces

12 interfaces between chains.

A–B · 2820 Å² buried · 14 hydrogen bonds · protein-protein
G–H · 2813 Å² buried · 14 hydrogen bonds · protein-protein
B–C · 2812 Å² buried · 14 hydrogen bonds · protein-protein
A–L · 2807 Å² buried · 13 hydrogen bonds · protein-protein
J–K · 2806 Å² buried · 14 hydrogen bonds · protein-protein

Compared structures

6OD7 · Herpes simplex virus type 1 (HSV-1) pUL6 portal protein, dodecameric complex · 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 H9E912
Elsewhere: RCSB PDB 6OD7 · PDBe 6OD7 · UniProt H9E912

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