Research workbench
Contracted sheath of a pseudomonas aeruginosa type six secretion system consisting of TSSB1 and TSSC1
Analyse Contracted sheath of a pseudomonas aeruginosa type six secretion system… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5N8N
- Type
- protein
- Length
- 8,895 residues
- Chains
- 30
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Type VI secretion protein, family; Evpb family type VI secretion protein
- UniProt
- A0A072ZG09, A0A0E1AL03
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 2 distinct chains · 39% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G, I, K, M, O, Q, S, U, W, Y, a, c | Type VI secretion protein, family | protein | 132 | 33% helix, 22% strand | A0A072ZG09 |
| B, D, F, H, J, L, N, P, R, T, V, X, Z, b, d | Evpb family type VI secretion protein | protein | 461 | 41% helix, 16% strand | A0A0E1AL03 |
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 | 1086 | 0.84 | 0.85 | 86 | empty |
| 2 | 489 | 0.83 | 0.89 | 63 | empty |
| 3 | 689 | 0.79 | 0.84 | 68 | empty |
| 4 | 1119 | 0.76 | 0.79 | 88 | empty |
| 5 | 1146 | 0.76 | 0.79 | 92 | empty |
Interfaces
74 interfaces between chains.
- U–V · 3422 Ų buried · 40 hydrogen bonds · protein-protein
- a–b · 3420 Ų buried · 40 hydrogen bonds · protein-protein
- A–B · 3420 Ų buried · 40 hydrogen bonds · protein-protein
- M–N · 3418 Ų buried · 40 hydrogen bonds · protein-protein
- c–d · 3418 Ų buried · 40 hydrogen bonds · protein-protein
Compared structures
- 5N8N · Contracted sheath of a Pseudomonas aeruginosa type six secretion system consisting of… · the same entry in another collection · chain B against B, 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 A0A072ZG09
- Every structure of UniProt A0A0E1AL03
- Elsewhere: RCSB PDB 5N8N · PDBe 5N8N · UniProt A0A072ZG09 · UniProt A0A0E1AL03
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