MolNFT v1 · #122516 · protein
Crystal structure of rabbit NOD2 ser mutant in an ADP-bound state
5IRL · Uncharacterized protein: “Crystal structure of rabbit NOD2 ser mutant in an ADP-bound state”. X-ray diffraction, 1 ligand (ADP), 6 pockets (best druggability 0.79). MolNFT v1 #122516 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5IRL
- Type
- protein
- Length
- 744 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized protein
- UniProt
- G1T469
- Ligands
- ADP
- Pockets
- 6 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 51% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized protein | protein | 744 | 51% helix, 10% strand | G1T469 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 587 | 0.79 | 0.85 | 82 | empty |
| 2 | 791 | 0.77 | 0.81 | 59 | ADP |
| 3 | 158 | 0.51 | 0.79 | 25 | empty |
| 4 | 181 | 0.48 | 0.76 | 30 | empty |
| 5 | 120 | 0.46 | 0.78 | 22 | empty |
Compared structures
- 5IRL · Crystal structure of rabbit NOD2 SER mutant in an ADP-bound state · 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 G1T469
- Elsewhere: RCSB PDB 5IRL · PDBe 5IRL · UniProt G1T469
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