Research workbench
Crystal structure of MAD2-6 IgA Fab in complex with pfcsp N-terminal peptide.
Analyse Crystal structure of MAD2-6 IgA Fab in complex with pfcsp N-terminal peptide. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7K75
- Type
- protein
- Length
- 1,762 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Heavy chain of MAD2-6 IgA Fab; Light chain of MAD2-6 IgA Fab; Pfcsp N-terminal peptide P17
- Pockets
- 20 · best druggability 0.75
Structure
x-ray diffraction · 5 distinct chains · 4% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Heavy chain of MAD2-6 IgA Fab | protein | 225 | 4% helix, 50% strand | — |
| B, D, J, N | Light chain of MAD2-6 IgA Fab | protein | 213 | 6% helix, 50% strand | — |
| I | Heavy chain of MAD2-6 IgA Fab | protein | 222 | 3% helix, 48% strand | — |
| M | Heavy chain of MAD2-6 IgA Fab | protein | 222 | 3% helix, 50% strand | — |
| E, F | Pfcsp N-terminal peptide P17 | protein | 8 | 0% helix, 25% strand | — |
Pockets
20 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 92 | 0.75 | 0.96 | 28 | empty |
| 2 | 69 | 0.74 | 0.98 | 20 | empty |
| 3 | 270 | 0.63 | 0.81 | 52 | empty |
| 4 | 341 | 0.62 | 0.79 | 39 | empty |
| 5 | 346 | 0.55 | 0.75 | 54 | empty |
Interfaces
20 interfaces between chains.
- I–J · 1848 Ų buried · 23 hydrogen bonds · protein-protein
- M–N · 1847 Ų buried · 20 hydrogen bonds · protein-protein
- A–B · 1845 Ų buried · 28 hydrogen bonds · protein-protein
- D–C · 1843 Ų buried · 25 hydrogen bonds · protein-protein
- B–C · 533 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 23 disulfide (disulfide).
Compared structures
- 7K75 · Crystal structure of MAD2-6 IgA Fab in complex with PfCSP N-terminal peptide. · 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 7K75 · PDBe 7K75
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