MolNFT v1 · #11251 · protein
Crystal structure of stall-1 of TNF family ligand
1JH5 · Tumor necrosis factor ligand superfamily member 13B: “Crystal structure of stall-1 of TNF family ligand”. X-ray diffraction, 17 pockets (best druggability 0.78). MolNFT v1 #11251 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 1JH5
- Type
- protein
- Length
- 1,440 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tumor necrosis factor ligand superfamily member 13B
- UniProt
- Q9Y275
- Pockets
- 17 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 0% helix, 54% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J | Tumor necrosis factor ligand superfamily member 13B | protein | 144 | 0% helix, 54% strand | Q9Y275 |
Pockets
17 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 75 | 0.78 | 0.99 | 17 | empty |
| 2 | 153 | 0.78 | 0.95 | 26 | empty |
| 3 | 72 | 0.77 | 0.99 | 16 | empty |
| 4 | 153 | 0.77 | 0.94 | 24 | empty |
| 5 | 70 | 0.76 | 0.99 | 13 | empty |
Interfaces
17 interfaces between chains.
- E–F · 967 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 966 Ų buried · 23 hydrogen bonds · protein-protein
- D–F · 966 Ų buried · 23 hydrogen bonds · protein-protein
- D–E · 966 Ų buried · 23 hydrogen bonds · protein-protein
- A–C · 965 Ų buried · 23 hydrogen bonds · protein-protein
Compared structures
- 1JH5 · Crystal Structure of sTALL-1 of TNF family ligand · the same entry in another collection · chain J against J, TM-score 1.00
- Q9Y275 · AlphaFold monomer V2.0 prediction for tumor necrosis factor ligand superfamily member 13B… · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q9Y275
- Elsewhere: RCSB PDB 1JH5 · PDBe 1JH5 · UniProt Q9Y275
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