Research workbench
Crystal structure of K12V/C83I/C117V mutant of human acidic fibroblast growth factor
Analyse Crystal structure of K12V/C83I/C117V mutant of human acidic fibroblast growth… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3FJI
- Type
- protein
- Length
- 563 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Heparin-binding growth factor 1
- UniProt
- P05230
- Ligands
- SO4
- Pockets
- 5 · best druggability 0.65
Structure
x-ray diffraction · 3 distinct chains · 7% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Heparin-binding growth factor 1 | protein | 140 | 6% helix, 40% strand | P05230 |
| B, C | Heparin-binding growth factor 1 | protein | 142 | 6% helix, 38% strand | P05230 |
| D | Heparin-binding growth factor 1 | protein | 139 | 9% helix, 40% strand | P05230 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A, C, B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 605 | 0.65 | 0.75 | 56 | empty |
| 2 | 139 | 0.43 | 0.75 | 18 | empty |
| 3 | 104 | 0.35 | 0.73 | 17 | empty |
| 4 | 53 | 0.33 | 0.78 | 18 | empty |
| 5 | 59 | 0.31 | 0.76 | 19 | empty |
Interfaces
3 interfaces between chains.
- A–C · 458 Ų buried · 10 hydrogen bonds · protein-protein
- B–D · 434 Ų buried · 13 hydrogen bonds · protein-protein
- B–C · 195 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3FJI · Crystal structure of K12V/C83I/C117V mutant of Human acidic fibroblast growth factor · the same entry in another collection · chain D against D, TM-score 1.00
- P05230 · AlphaFold monomer V2.0 prediction for fibroblast growth factor 1 (P05230) · a predicted model of the same protein · chain D against A, TM-score 0.97
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 P05230
- Elsewhere: RCSB PDB 3FJI · PDBe 3FJI · UniProt P05230
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