MolNFT v1 · #96612 · protein
Putative ribose ABC transporter, periplasmic solute-binding protein from rhodobacter sphaeroides
4JOQ · ABC ribose transporter, periplasmic solute-binding protein: “Putative ribose ABC transporter, periplasmic solute-binding protein from rhodobacter sphaeroides”. X-ray diffraction, 6 pockets (best druggability 0.71). MolNFT v1 #96612…
- PDB
- 4JOQ
- Type
- protein
- Length
- 592 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ABC ribose transporter, periplasmic solute-binding protein
- UniProt
- A4WW08
- Pockets
- 6 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 44% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ABC ribose transporter, periplasmic solute-binding protein | protein | 297 | 43% helix, 20% strand | A4WW08 |
| B | ABC ribose transporter, periplasmic solute-binding protein | protein | 295 | 45% helix, 20% strand | A4WW08 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 112 | 0.71 | 0.92 | 31 | empty |
| 2 | 131 | 0.68 | 0.89 | 30 | empty |
| 3 | 341 | 0.53 | 0.74 | 38 | empty |
| 4 | 313 | 0.53 | 0.74 | 34 | empty |
| 5 | 230 | 0.50 | 0.75 | 24 | ACT |
Interfaces
1 interface between chains.
- A–B · 1124 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 20 modified (engineered).
Compared structures
- 4JOQ · Putative ribose ABC transporter, periplasmic solute-binding protein from Rhodobacter… · 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 A4WW08
- Elsewhere: RCSB PDB 4JOQ · PDBe 4JOQ · UniProt A4WW08
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