MolNFT v1 · #159360 · protein
Crystal structure of the zn-bound domain-swapped dimer Q108K:T51D:A28C:L36C:F57H mutant of human cellular retinol binding protein II
6ON5 · Retinol-binding protein 2: “Crystal structure of the zn-bound domain-swapped dimer Q108K:T51D:A28C:L36C:F57H mutant of human cellular…”. X-ray diffraction, 1 ligand (ZN), 3 pockets (best druggability 0.76). MolNFT v1 #159360 on…
- PDB
- 6ON5
- Type
- protein
- Length
- 266 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Retinol-binding protein 2
- UniProt
- P50120
- Ligands
- ZN
- Pockets
- 3 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 11% helix, 60% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Retinol-binding protein 2 | protein | 133 | 11% helix, 60% strand | P50120 |
Ligands and binding sites
- ZN · Zinc ion · metal · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 312 | 0.76 | 0.87 | 49 | empty |
| 2 | 132 | 0.70 | 0.90 | 26 | empty |
| 3 | 127 | 0.55 | 0.82 | 22 | ZN |
Interfaces
1 interface between chains.
- A–B · 3974 Ų buried · 83 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6ON5 · Crystal Structure of the Zn-bound Domain-Swapped Dimer Q108K:T51D:A28C:L36C:F57H Mutant… · the same entry in another collection · chain A against A, TM-score 1.00
- P50120 · AlphaFold monomer V2.0 prediction for retinol-binding protein 2 (P50120) · a predicted model of the same protein · chain A against A, TM-score 0.57
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 P50120
- Elsewhere: RCSB PDB 6ON5 · PDBe 6ON5 · UniProt P50120
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.