MolNFT v1 · #173843 · protein
Crystal structure of the sugar acid binding protein dctpam from advenella mimigardefordensis strain DPN7T in complex with D-foconate
7BCO · Putative trap transporter solute receptor dctp: “Crystal structure of the sugar acid binding protein dctpam from advenella mimigardefordensis strain DPN7T in…”. X-ray diffraction, 1 ligand (TF8), 8 pockets (best druggability 0.70).…
- PDB
- 7BCO
- Type
- protein
- Length
- 620 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative trap transporter solute receptor dctp
- UniProt
- R4JTF7
- Ligands
- TF8
- Pockets
- 8 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 53% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Putative trap transporter solute receptor dctp | protein | 310 | 53% helix, 20% strand | R4JTF7 |
Ligands and binding sites
- TF8 · (2R,3S,4S,5S)-2,3,4,5-tetrahydroxyhexanoic acid · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 60 | 0.70 | 0.97 | 21 | TF8 |
| 2 | 57 | 0.70 | 0.97 | 21 | TF8 |
| 3 | 264 | 0.59 | 0.79 | 27 | empty |
| 4 | 115 | 0.50 | 0.80 | 36 | empty |
| 5 | 216 | 0.47 | 0.74 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 508 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 7BCO · Crystal structure of the sugar acid binding protein DctPAm from Advenella… · 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 R4JTF7
- Elsewhere: RCSB PDB 7BCO · PDBe 7BCO · UniProt R4JTF7
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