Research workbench
Crystal structure of TSPAN15 large extracellular loop (TSPAN15 lel)
Analyse Crystal structure of TSPAN15 large extracellular loop (TSPAN15 lel) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7RDB
- Type
- protein
- Length
- 2,919 residues
- Chains
- 24
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tetraspanin-15
- UniProt
- O95858
- Pockets
- 20 · best druggability 0.80
Structure
x-ray diffraction · 4 distinct chains · 47% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, A, C, E, F, G, H, I, K, L, M, N, P, Q, R, S, X | Tetraspanin-15 | protein | 122 | 48% helix, 3% strand | O95858 |
| D, T, W | Tetraspanin-15 | protein | 121 | 50% helix, 3% strand | O95858 |
| J, O, U | Tetraspanin-15 | protein | 121 | 45% helix, 3% strand | O95858 |
| V | Tetraspanin-15 | protein | 119 | 47% helix, 3% strand | O95858 |
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 | 624 | 0.80 | 0.85 | 72 | empty |
| 2 | 554 | 0.78 | 0.84 | 62 | empty |
| 3 | 351 | 0.75 | 0.87 | 41 | empty |
| 4 | 1146 | 0.75 | 0.78 | 85 | empty |
| 5 | 337 | 0.72 | 0.84 | 41 | empty |
Interfaces
47 interfaces between chains.
- E–J · 701 Ų buried · 16 hydrogen bonds · protein-protein
- A–I · 690 Ų buried · 20 hydrogen bonds · protein-protein
- D–T · 688 Ų buried · 15 hydrogen bonds · protein-protein
- B–C · 682 Ų buried · 17 hydrogen bonds · protein-protein
- G–L · 671 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 96 disulfide (disulfide).
Compared structures
- 7RDB · Crystal structure of Tspan15 large extracellular loop (Tspan15 LEL) · 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 O95858
- Elsewhere: RCSB PDB 7RDB · PDBe 7RDB · UniProt O95858
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