Research workbench
Type II secretin from enteropathogenic escherichia COLI - gspd
Analyse Type II secretin from enteropathogenic escherichia COLI - gspd in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5W68
- Type
- protein
- Length
- 5,250 residues
- Chains
- 15
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative type II secretion protein
- UniProt
- B7UI37
- Pockets
- 20 · best druggability 0.77
Structure
electron microscopy · 1 distinct chain · 20% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L, M, N, O | Putative type II secretion protein | protein | 350 | 20% helix, 40% strand | B7UI37 |
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 | 628 | 0.77 | 0.83 | 70 | empty |
| 2 | 912 | 0.75 | 0.78 | 80 | empty |
| 3 | 950 | 0.72 | 0.76 | 108 | empty |
| 4 | 387 | 0.70 | 0.81 | 40 | empty |
| 5 | 396 | 0.69 | 0.81 | 40 | empty |
Interfaces
30 interfaces between chains.
- F–G · 4244 Ų buried · 57 hydrogen bonds · protein-protein
- C–D · 4235 Ų buried · 57 hydrogen bonds · protein-protein
- E–F · 4234 Ų buried · 55 hydrogen bonds · protein-protein
- B–C · 4231 Ų buried · 54 hydrogen bonds · protein-protein
- N–O · 4230 Ų buried · 55 hydrogen bonds · protein-protein
Compared structures
- 5W68 · Type II secretin from Enteropathogenic Escherichia coli - GspD · 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 B7UI37
- Elsewhere: RCSB PDB 5W68 · PDBe 5W68 · UniProt B7UI37
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