Research workbench
Crystal structure of semet-labeled mavirus penton protein
Analyse Crystal structure of semet-labeled mavirus penton protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6G41
- Type
- protein
- Length
- 2,976 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Minor capsid protein
- UniProt
- A0A1L4BKA3
- Pockets
- 20 · best druggability 0.73
Structure
x-ray diffraction · 5 distinct chains · 14% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Minor capsid protein | protein | 297 | 15% helix, 40% strand | A0A1L4BKA3 |
| B | Minor capsid protein | protein | 295 | 14% helix, 40% strand | A0A1L4BKA3 |
| C, E, F, H, I, J | Minor capsid protein | protein | 301 | 13% helix, 40% strand | A0A1L4BKA3 |
| D | Minor capsid protein | protein | 291 | 15% helix, 41% strand | A0A1L4BKA3 |
| G | Minor capsid protein | protein | 287 | 12% helix, 41% strand | A0A1L4BKA3 |
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 | 978 | 0.73 | 0.77 | 81 | empty |
| 2 | 407 | 0.71 | 0.82 | 51 | empty |
| 3 | 439 | 0.71 | 0.82 | 55 | empty |
| 4 | 376 | 0.70 | 0.82 | 45 | empty |
| 5 | 371 | 0.69 | 0.82 | 49 | empty |
Interfaces
18 interfaces between chains.
- F–J · 2396 Ų buried · 35 hydrogen bonds · protein-protein
- H–I · 2278 Ų buried · 37 hydrogen bonds · protein-protein
- A–E · 2265 Ų buried · 29 hydrogen bonds · protein-protein
- B–C · 2242 Ų buried · 39 hydrogen bonds · protein-protein
- A–B · 2238 Ų buried · 37 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 40 modified (engineered).
Compared structures
- 6G41 · Crystal structure of SeMet-labeled mavirus penton 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 A0A1L4BKA3
- Elsewhere: RCSB PDB 6G41 · PDBe 6G41 · UniProt A0A1L4BKA3
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