Research workbench
Crystal structure of swine flu virus NS1 effector domain from H1N1 influenza A/CALIFORNIA/07/2009
Analyse Crystal structure of swine flu virus NS1 effector domain from H1N1 influenza… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3M5R
- Type
- protein
- Length
- 736 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nonstructural protein 1
- UniProt
- D2Y6Z6
- Pockets
- 8 · best druggability 0.48
Structure
x-ray diffraction · 2 distinct chains · 23% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Nonstructural protein 1 | protein | 126 | 22% helix, 39% strand | D2Y6Z6 |
| D, E, F, G | Nonstructural protein 1 | protein | 121 | 23% helix, 41% strand | D2Y6Z6 |
Pockets
8 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 180 | 0.48 | 0.76 | 22 | empty |
| 2 | 73 | 0.45 | 0.82 | 14 | empty |
| 3 | 86 | 0.40 | 0.78 | 17 | empty |
| 4 | 58 | 0.40 | 0.81 | 17 | empty |
| 5 | 50 | 0.38 | 0.81 | 12 | empty |
Interfaces
6 interfaces between chains.
- A–G · 1095 Ų buried · 16 hydrogen bonds · protein-protein
- D–E · 545 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 541 Ų buried · 7 hydrogen bonds · protein-protein
- F–G · 535 Ų buried · 3 hydrogen bonds · protein-protein
- D–G · 388 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 3M5R · Crystal Structure of Swine Flu Virus NS1 Effector Domain from H1N1 Influenza… · 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 D2Y6Z6
- Elsewhere: RCSB PDB 3M5R · PDBe 3M5R · UniProt D2Y6Z6
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