Research workbench
Crystal structure of cerato-platanin 5 from M. perniciosa (MPCP5)
Analyse Crystal structure of cerato-platanin 5 from M. perniciosa (MPCP5) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3SUM
- Type
- protein
- Length
- 540 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cerato-platanin-like protein
- Pockets
- 3 · best druggability 0.73
Structure
x-ray diffraction · 3 distinct chains · 21% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cerato-platanin-like protein | protein | 135 | 23% helix, 30% strand | — |
| B, C | Cerato-platanin-like protein | protein | 136 | 22% helix, 32% strand | — |
| D | Cerato-platanin-like protein | protein | 133 | 19% helix, 29% strand | — |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 852 | 0.73 | 0.78 | 100 | empty |
| 2 | 309 | 0.58 | 0.77 | 36 | empty |
| 3 | 74 | 0.36 | 0.77 | 16 | empty |
Interfaces
6 interfaces between chains.
- A–B · 545 Ų buried · 6 hydrogen bonds · protein-protein
- B–D · 320 Ų buried · 3 hydrogen bonds · protein-protein
- C–D · 219 Ų buried · 1 hydrogen bond · protein-protein
- A–D · 154 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 131 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 11 disulfide (disulfide).
Compared structures
- 3SUM · Crystal structure of cerato-platanin 5 from M. perniciosa (MpCP5) · 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
- Elsewhere: RCSB PDB 3SUM · PDBe 3SUM
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