Research workbench
Cryoem structure of the type IV pilin PILA4 from thermus thermophilus
Analyse Cryoem structure of the type IV pilin PILA4 from thermus thermophilus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6XXD
- Type
- protein
- Length
- 2,000 residues
- Chains
- 16
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pila
- UniProt
- Q72JC0
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 1 distinct chain · 44% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P | Pila | protein | 125 | 44% helix, 19% strand | Q72JC0 |
Pockets
20 pockets found on a 1 Å grid, 15 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1029 | 0.80 | 0.81 | 97 | empty |
| 2 | 472 | 0.76 | 0.84 | 70 | empty |
| 3 | 431 | 0.76 | 0.85 | 62 | empty |
| 4 | 435 | 0.75 | 0.84 | 57 | empty |
| 5 | 463 | 0.74 | 0.83 | 60 | empty |
Interfaces
73 interfaces between chains.
- L–O · 803 Ų buried · 4 hydrogen bonds · protein-protein
- J–M · 802 Ų buried · 4 hydrogen bonds · protein-protein
- I–L · 800 Ų buried · 4 hydrogen bonds · protein-protein
- B–E · 800 Ų buried · 4 hydrogen bonds · protein-protein
- D–G · 799 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide (disulfide).
Compared structures
- 6XXD · CryoEM structure of the type IV pilin PilA4 from Thermus thermophilus · the same entry in another collection · chain P against P, 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 Q72JC0
- Elsewhere: RCSB PDB 6XXD · PDBe 6XXD · UniProt Q72JC0
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