MolNFT v1 · #140695 · protein
Mouse cereblon thalidomide binding domain complexed with racemic thalidomide
5YIZ: “Mouse cereblon thalidomide binding domain complexed with racemic thalidomide”. X-ray diffraction, 3 ligands (EF2, ZN, SO4). MolNFT v1 #140695 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5YIZ
- Type
- protein
- Length
- 1,505 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q8C7D2
- Ligands
- EF2, ZN, SO4
Structure
x-ray diffraction · 6 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | — | protein | 97 | — | Q8C7D2 |
| G | — | protein | 97 | — | Q8C7D2 |
| J, n | — | protein | 91 | — | Q8C7D2 |
| M, Y, e, k | — | protein | 94 | — | Q8C7D2 |
| P, S, V, b, h, q | — | protein | 93 | — | Q8C7D2 |
| t | — | protein | 98 | — | Q8C7D2 |
Ligands and binding sites
- EF2 · S-Thalidomide · ligand · 16 copies · chains A, D, G, Y, J, M, P, S, V, b, e, h, k, t, n, q
- ZN · Zinc ion · metal · 16 copies · chains A, D, G, J, M, P, S, V, Y, b, e, h, k, n, q, t
- SO4 · Sulfate ion · ion · 30 copies · chains A, D, G, J, M, P, S, V, Y, b, h, e, k, t, n, q
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5YIZ · Mouse Cereblon thalidomide binding domain complexed with racemic thalidomide · 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 Q8C7D2
- Elsewhere: RCSB PDB 5YIZ · PDBe 5YIZ · UniProt Q8C7D2
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