MolNFT v1 · #123413 · protein

Refined structure of the mature virion conformation of P22 portal protein

5JJ3: “Refined structure of the mature virion conformation of P22 portal protein”. X-ray diffraction, 20 pockets (best druggability 0.86). MolNFT v1 #123413 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5JJ3
Type: protein
Length: 8,076 residues
Chains: 12
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Portal protein
UniProt: P26744
Pockets: 20 · best druggability 0.86

Structure

x-ray diffraction · 1 distinct chain · 47% helix, 9% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J, K, L	Portal protein	protein	673	47% helix, 9% strand	P26744

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	1008	0.86	0.87	92	empty
2	904	0.86	0.88	85	empty
3	1137	0.85	0.86	95	empty
4	735	0.85	0.88	64	empty
5	1164	0.85	0.86	93	empty

Interfaces

24 interfaces between chains.

J–K · 6672 Å² buried · 66 hydrogen bonds · protein-protein
B–C · 6594 Å² buried · 63 hydrogen bonds · protein-protein
H–I · 6563 Å² buried · 62 hydrogen bonds · protein-protein
F–G · 6551 Å² buried · 63 hydrogen bonds · protein-protein
I–J · 6549 Å² buried · 56 hydrogen bonds · protein-protein

Compared structures

5JJ3 · Refined Structure of the Mature Virion Conformation of P22 Portal Protein · 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 P26744
Elsewhere: RCSB PDB 5JJ3 · PDBe 5JJ3 · UniProt P26744

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