MolNFT v1 · #187025 · protein
Cryo-EM structure of the needle filament-tip complex of the salmonella type III secretion injectisome
7RYE · Protein prgi: “Cryo-EM structure of the needle filament-tip complex of the salmonella type III secretion injectisome”. Electron microscopy, 20 pockets (best druggability 0.79). MolNFT v1 #187025 on GenesisL1: 3D structure, binding…
- PDB
- 7RYE
- Type
- protein
- Length
- 2,535 residues
- Chains
- 24
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein prgi; Cell invasion protein sipd
- UniProt
- P41784, A0A0C5PQX9
- Pockets
- 20 · best druggability 0.79
Structure
electron microscopy · 3 distinct chains · 69% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, J, K, L, M, N, P, Q, S | Protein prgi | protein | 78 | 77% helix, 0% strand | P41784 |
| E, G, H, I, T, U, W | Protein prgi | protein | 77 | 79% helix, 0% strand | P41784 |
| F, O, R, V, X | Cell invasion protein sipd | protein | 212 | 62% helix, 8% strand | A0A0C5PQX9 |
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 | 1028 | 0.79 | 0.81 | 117 | empty |
| 2 | 770 | 0.75 | 0.80 | 76 | empty |
| 3 | 771 | 0.74 | 0.79 | 76 | empty |
| 4 | 628 | 0.74 | 0.81 | 66 | empty |
| 5 | 66 | 0.72 | 0.96 | 17 | empty |
Interfaces
71 interfaces between chains.
- O–R · 1075 Ų buried · 6 hydrogen bonds · protein-protein
- H–X · 1043 Ų buried · 8 hydrogen bonds · protein-protein
- V–X · 1043 Ų buried · 5 hydrogen bonds · protein-protein
- O–X · 1028 Ų buried · 8 hydrogen bonds · protein-protein
- R–T · 1009 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 7RYE · Cryo-EM structure of the needle filament-tip complex of the Salmonella type III secretion… · the same entry in another collection · chain K against K, 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
- Every structure of UniProt A0A0C5PQX9
- Elsewhere: RCSB PDB 7RYE · PDBe 7RYE · UniProt P41784 · UniProt A0A0C5PQX9
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