Research workbench
Branchiostoma floridae violet fluorescent protein
Analyse Branchiostoma floridae violet fluorescent protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7SF9
- Type
- protein
- Length
- 883 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Violet fluorescent protein
- Pockets
- 10 · best druggability 0.84
Structure
x-ray diffraction · 3 distinct chains · 12% helix, 54% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Violet fluorescent protein | protein | 228 | 13% helix, 52% strand | — |
| B, C | Violet fluorescent protein | protein | 218 | 11% helix, 53% strand | — |
| D | Violet fluorescent protein | protein | 219 | 11% helix, 57% strand | — |
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 815 | 0.84 | 0.87 | 108 | empty |
| 2 | 138 | 0.65 | 0.88 | 32 | empty |
| 3 | 86 | 0.54 | 0.85 | 21 | empty |
| 4 | 186 | 0.51 | 0.77 | 32 | empty |
| 5 | 86 | 0.43 | 0.79 | 25 | empty |
Interfaces
6 interfaces between chains.
- C–D · 1262 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 1221 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 934 Ų buried · 13 hydrogen bonds · protein-protein
- A–D · 653 Ų buried · 5 hydrogen bonds · protein-protein
- B–D · 71 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (nonstandard).
Compared structures
- 7SF9 · Branchiostoma Floridae Violet Fluorescent Protein · 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 7SF9 · PDBe 7SF9
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