Research workbench
Viral chemokine binding protein M3 from murine gammaherpesvirus 68
Analyse Viral chemokine binding protein M3 from murine gammaherpesvirus 68 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1MKF
- Type
- protein
- Length
- 742 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- M3
- UniProt
- O41925
- Pockets
- 6 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 15% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | M3 | protein | 371 | 15% helix, 40% strand | O41925 |
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1159 | 0.75 | 0.77 | 92 | empty |
| 2 | 53 | 0.60 | 0.92 | 17 | empty |
| 3 | 279 | 0.52 | 0.75 | 43 | empty |
| 4 | 56 | 0.38 | 0.80 | 16 | empty |
| 5 | 83 | 0.33 | 0.74 | 26 | empty |
Interfaces
1 interface between chains.
- A–B · 1661 Ų buried · 20 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 disulfide (disulfide).
Compared structures
- 1MKF · Viral chemokine binding protein M3 from murine gammaherpesvirus 68 · 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 O41925
- Elsewhere: RCSB PDB 1MKF · PDBe 1MKF · UniProt O41925
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