Research workbench
Crystal structure of anticalin N7A in complex with oncofetal fibronectin fragment FN7B8
Analyse Crystal structure of anticalin N7A in complex with oncofetal fibronectin… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4GH7
- Type
- protein
- Length
- 901 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Neutrophil gelatinase-associated lipocalin; Fibronectin
- UniProt
- P80188, P02751
- Pockets
- 9 · best druggability 0.81
Structure
x-ray diffraction · 3 distinct chains · 4% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Neutrophil gelatinase-associated lipocalin | protein | 174 | 15% helix, 43% strand | P80188 |
| B | Fibronectin | protein | 275 | 0% helix, 52% strand | P02751 |
| D | Fibronectin | protein | 278 | 1% helix, 51% strand | P02751 |
Pockets
9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 932 | 0.81 | 0.82 | 74 | empty |
| 2 | 751 | 0.79 | 0.83 | 65 | empty |
| 3 | 1115 | 0.78 | 0.80 | 97 | empty |
| 4 | 286 | 0.59 | 0.78 | 36 | empty |
| 5 | 175 | 0.50 | 0.77 | 26 | empty |
Interfaces
4 interfaces between chains.
- A–B · 1161 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 1086 Ų buried · 18 hydrogen bonds · protein-protein
- B–D · 625 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 336 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 4GH7 · Crystal structure of Anticalin N7A in complex with oncofetal fibronectin fragment Fn7B8 · the same entry in another collection · chain A against A, TM-score 1.00
- P02751 · AlphaFold monomer V2.0 prediction for fibronectin (P02751) · a predicted model of the same protein · chain B against A, TM-score 0.67
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 P80188
- Every structure of UniProt P02751
- Elsewhere: RCSB PDB 4GH7 · PDBe 4GH7 · UniProt P80188 · UniProt P02751
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