Research workbench
Refined structure of the mature virion conformation of P22 portal protein
Analyse Refined structure of the mature virion conformation of P22 portal protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- 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.
| Volume (ų) | 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 Ų buried · 66 hydrogen bonds · protein-protein
- B–C · 6594 Ų buried · 63 hydrogen bonds · protein-protein
- H–I · 6563 Ų buried · 62 hydrogen bonds · protein-protein
- F–G · 6551 Ų buried · 63 hydrogen bonds · protein-protein
- I–J · 6549 Ų 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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