Research workbench
A model of the eiav ca-sp hexamer (C2) from gag-deltama tubes assembled at PH6
Analyse A model of the eiav ca-sp hexamer (C2) from gag-deltama tubes assembled at PH6 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6T63
- Type
- protein
- Length
- 3,906 residues
- Chains
- 18
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gag polyprotein
- UniProt
- P69730
- Pockets
- 20 · best druggability 0.77
Structure
electron microscopy · 1 distinct chain · 59% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, F, D, H, I, E, G, J, K, L, O, M, Q, R, N, P | Gag polyprotein | protein | 217 | 59% helix, 0% strand | P69730 |
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 | 1119 | 0.77 | 0.79 | 131 | empty |
| 2 | 895 | 0.77 | 0.80 | 84 | empty |
| 3 | 977 | 0.77 | 0.79 | 93 | empty |
| 4 | 843 | 0.77 | 0.80 | 61 | empty |
| 5 | 864 | 0.76 | 0.80 | 67 | empty |
Interfaces
42 interfaces between chains.
- B–F · 1198 Ų buried · 9 hydrogen bonds · protein-protein
- K–O · 1193 Ų buried · 9 hydrogen bonds · protein-protein
- Q–R · 1098 Ų buried · 5 hydrogen bonds · protein-protein
- H–I · 1093 Ų buried · 5 hydrogen bonds · protein-protein
- A–N · 1022 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 18 disulfide (disulfide).
Compared structures
- 6T63 · A model of the EIAV CA-SP hexamer (C2) from Gag-deltaMA tubes assembled at pH6 · 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 P69730
- Elsewhere: RCSB PDB 6T63 · PDBe 6T63 · UniProt P69730
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.