Research workbench
Crystal structure of DRP35, a 35KDA drug responsive protein from staphylococcus aureus
Analyse Crystal structure of DRP35, a 35KDA drug responsive protein from staphylococcus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2DG0
- Type
- protein
- Length
- 3,847 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DRP35
- EC
- 3.1.1.25
- UniProt
- Q9S0S3
- Pockets
- 20 · best druggability 0.86
Structure
x-ray diffraction · 5 distinct chains · 6% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DRP35 (EC 3.1.1.25) | protein | 322 | 6% helix, 48% strand | Q9S0S3 |
| B, C, D, G | DRP35 (EC 3.1.1.25) | protein | 320 | 6% helix, 48% strand | Q9S0S3 |
| E, J | DRP35 (EC 3.1.1.25) | protein | 321 | 6% helix, 48% strand | Q9S0S3 |
| F, H, K, L | DRP35 (EC 3.1.1.25) | protein | 321 | 6% helix, 48% strand | Q9S0S3 |
| I | DRP35 (EC 3.1.1.25) | protein | 319 | 5% helix, 49% strand | Q9S0S3 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 416 | 0.86 | 0.95 | 48 | empty |
| 2 | 406 | 0.86 | 0.94 | 50 | empty |
| 3 | 690 | 0.79 | 0.84 | 68 | empty |
| 4 | 134 | 0.79 | 0.96 | 31 | empty |
| 5 | 128 | 0.78 | 0.97 | 30 | empty |
Interfaces
22 interfaces between chains.
- J–L · 1150 Ų buried · 13 hydrogen bonds · protein-protein
- E–H · 1146 Ų buried · 12 hydrogen bonds · protein-protein
- I–J · 1138 Ų buried · 12 hydrogen bonds · protein-protein
- G–H · 1134 Ų buried · 13 hydrogen bonds · protein-protein
- A–K · 1134 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 60 modified (engineered).
Compared structures
- 2DG0 · Crystal structure of Drp35, a 35kDa drug responsive protein from Staphylococcus aureus · the same entry in another collection · chain L against L, 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 Q9S0S3
- Elsewhere: RCSB PDB 2DG0 · PDBe 2DG0 · UniProt Q9S0S3
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