MolNFT v1 · #14798 · protein
Viral chemokine binding protein M3 from murine GAMMAHERPESVIRUS68 in complex with the P8A variant of cc-chemokine mcp-1
1ML0 · M3 protein: “Viral chemokine binding protein M3 from murine GAMMAHERPESVIRUS68 in complex with the P8A variant of…”. X-ray diffraction, 4 pockets (best druggability 0.59). MolNFT v1 #14798 on GenesisL1: 3D structure, binding sites…
- PDB
- 1ML0
- Type
- protein
- Length
- 435 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- M3 protein; Small inducible cytokine
- UniProt
- O41925, P13500
- Pockets
- 4 · best druggability 0.59
Structure
x-ray diffraction · 2 distinct chains · 14% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | M3 protein | protein | 371 | 13% helix, 40% strand | O41925 |
| D | Small inducible cytokine | protein | 64 | 22% helix, 27% strand | P13500 |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 72 | 0.59 | 0.89 | 21 | empty |
| 2 | 97 | 0.39 | 0.76 | 19 | empty |
| 3 | 69 | 0.38 | 0.78 | 18 | empty |
| 4 | 52 | 0.30 | 0.76 | 14 | empty |
Interfaces
1 interface between chains.
- A–D · 523 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 disulfide (disulfide).
Compared structures
- 1ML0 · Viral chemokine binding protein M3 from murine GAMMAHERPESVIRUS68 in complex with the P8A… · the same entry in another collection · chain A against A, TM-score 1.00
- P13500 · AlphaFold monomer V2.0 prediction for C-C motif chemokine 2 (P13500) · a predicted model of the same protein · chain D against A, TM-score 0.90
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
- Every structure of UniProt P13500
- Elsewhere: RCSB PDB 1ML0 · PDBe 1ML0 · UniProt O41925 · UniProt P13500
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