MolNFT v1 · #146899 · protein
Structure of the salmonella spi-1 type III secretion injectisome needle filament
6DWB · Protein prgi: “Structure of the salmonella spi-1 type III secretion injectisome needle filament”. Electron microscopy, 20 pockets (best druggability 0.59). MolNFT v1 #146899 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 6DWB
- Type
- protein
- Length
- 2,340 residues
- Chains
- 30
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein prgi
- UniProt
- P41784
- Pockets
- 20 · best druggability 0.59
Structure
electron microscopy · 1 distinct chain · 81% helix, 0% 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, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d | Protein prgi | protein | 78 | 81% helix, 0% strand | P41784 |
Pockets
20 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 409 | 0.59 | 0.76 | 64 | empty |
| 2 | 330 | 0.56 | 0.75 | 40 | empty |
| 3 | 322 | 0.55 | 0.75 | 44 | empty |
| 4 | 305 | 0.54 | 0.75 | 41 | empty |
| 5 | 317 | 0.53 | 0.75 | 44 | empty |
Interfaces
97 interfaces between chains.
- K–Q · 902 Ų buried · 10 hydrogen bonds · protein-protein
- S–Y · 900 Ų buried · 14 hydrogen bonds · protein-protein
- L–R · 896 Ų buried · 10 hydrogen bonds · protein-protein
- G–M · 896 Ų buried · 14 hydrogen bonds · protein-protein
- D–J · 896 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 6DWB · Structure of the Salmonella SPI-1 type III secretion injectisome needle filament · the same entry in another collection · chain E against E, 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 P41784
- Elsewhere: RCSB PDB 6DWB · PDBe 6DWB · UniProt P41784
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