MolNFT v1 · #116321 · protein
Structure of the the SLC26 transporter SLC26DG in complex with a nanobody
5DA0 · Sulphate transporter: “Structure of the the SLC26 transporter SLC26DG in complex with a nanobody”. X-ray diffraction, 7 pockets (best druggability 0.74). MolNFT v1 #116321 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5DA0
- Type
- protein
- Length
- 579 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sulphate transporter; Nanobody
- UniProt
- Q1J2S8
- Pockets
- 7 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 51% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sulphate transporter | protein | 467 | 63% helix, 8% strand | Q1J2S8 |
| B | Nanobody | protein | 112 | 0% helix, 48% strand | — |
Ligands and binding sites
- DMU · Decyl-beta-D-maltopyranoside · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 753 | 0.74 | 0.79 | 75 | DMU |
| 2 | 57 | 0.47 | 0.84 | 14 | empty |
| 3 | 82 | 0.44 | 0.80 | 17 | empty |
| 4 | 62 | 0.41 | 0.81 | 17 | empty |
| 5 | 83 | 0.39 | 0.78 | 24 | empty |
Interfaces
1 interface between chains.
- A–B · 952 Ų buried · 16 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 5DA0 · Structure of the the SLC26 transporter SLC26Dg in complex with a nanobody · 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 Q1J2S8
- Elsewhere: RCSB PDB 5DA0 · PDBe 5DA0 · UniProt Q1J2S8
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