Research workbench
Crystal structure of MAD2-6 IgG Fab in complex with pfcsp N-terminal peptide.
Analyse Crystal structure of MAD2-6 IgG 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
- 7K76
- Type
- protein
- Length
- 876 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Heavy chain of MAD2-6 IgG Fab; Light chain of MAD2-6 IgG Fab; Pfcsp N-terminal peptide P17
- Pockets
- 7 · best druggability 0.78
Structure
x-ray diffraction · 5 distinct chains · 6% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Heavy chain of MAD2-6 IgG Fab | protein | 223 | 7% helix, 49% strand | — |
| B | Light chain of MAD2-6 IgG Fab | protein | 212 | 6% helix, 51% strand | — |
| H | Heavy chain of MAD2-6 IgG Fab | protein | 217 | 7% helix, 50% strand | — |
| L | Light chain of MAD2-6 IgG Fab | protein | 213 | 6% helix, 51% strand | — |
| P | Pfcsp N-terminal peptide P17 | protein | 11 | 0% helix, 18% strand | — |
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 94 | 0.78 | 0.99 | 29 | empty |
| 2 | 755 | 0.67 | 0.75 | 66 | empty |
| 3 | 765 | 0.65 | 0.74 | 65 | empty |
| 4 | 304 | 0.55 | 0.76 | 51 | empty |
| 5 | 54 | 0.49 | 0.86 | 20 | empty |
Interfaces
9 interfaces between chains.
- A–B · 1822 Ų buried · 16 hydrogen bonds · protein-protein
- H–L · 1682 Ų buried · 15 hydrogen bonds · protein-protein
- A–L · 362 Ų buried · 7 hydrogen bonds · protein-protein
- H–P · 301 Ų buried · 6 hydrogen bonds · protein-protein
- B–P · 276 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 7K76 · Crystal structure of MAD2-6 IgG 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 7K76 · PDBe 7K76
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.