Research workbench
Crystal structure of an arabinose binding protein with designed serotonin binding site in open, ligand-free state
Analyse Crystal structure of an arabinose binding protein with designed serotonin… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2WRZ
- Type
- protein
- Length
- 593 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- L-arabinose-binding periplasmic protein
- UniProt
- P02924
- Pockets
- 5 · best druggability 0.65
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | L-arabinose-binding periplasmic protein | protein | 299 | 47% helix, 22% strand | P02924 |
| B | L-arabinose-binding periplasmic protein | protein | 294 | 44% helix, 23% strand | P02924 |
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 444 | 0.65 | 0.78 | 55 | empty |
| 2 | 394 | 0.63 | 0.78 | 40 | empty |
| 3 | 177 | 0.58 | 0.81 | 25 | empty |
| 4 | 75 | 0.33 | 0.75 | 15 | empty |
| 5 | 52 | 0.28 | 0.74 | 10 | empty |
Interfaces
1 interface between chains.
- A–B · 470 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 2WRZ · Crystal structure of an arabinose binding protein with designed serotonin binding site in… · the same entry in another collection · chain A against A, TM-score 1.00
- P02924 · AlphaFold monomer V2.0 prediction for L-arabinose-binding periplasmic protein (P02924) · a predicted model of the same protein · chain A against A, TM-score 0.77
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 P02924
- Elsewhere: RCSB PDB 2WRZ · PDBe 2WRZ · UniProt P02924
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