Research workbench
Domain 1 of starch adherence system protein 20 (SAS20) from ruminococcus bromii with maltotriose
Analyse Domain 1 of starch adherence system protein 20 (SAS20) from ruminococcus bromii… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7RFT
- Type
- protein
- Length
- 468 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dockerin domain-containing protein
- UniProt
- A0A2N0URA4
- Ligands
- GLC, ZN, CL
- Pockets
- 9 · best druggability 0.62
Structure
x-ray diffraction · 1 distinct chain · 25% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Dockerin domain-containing protein | protein | 234 | 25% helix, 28% strand | A0A2N0URA4 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 6 copies · chains A, B
- ZN · Zinc ion · metal · 2 copies · chains A, B
- CL · Chloride ion · ion · 2 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 119 | 0.62 | 0.87 | 27 | empty |
| 2 | 275 | 0.59 | 0.78 | 28 | GLC, EDO |
| 3 | 215 | 0.56 | 0.79 | 27 | GLC, EDO |
| 4 | 85 | 0.46 | 0.81 | 22 | empty |
| 5 | 81 | 0.44 | 0.80 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1178 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 7RFT · Domain 1 of Starch adherence system protein 20 (Sas20) from Ruminococcus bromii with… · 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 A0A2N0URA4
- Elsewhere: RCSB PDB 7RFT · PDBe 7RFT · UniProt A0A2N0URA4
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