Research workbench
Fluorogen activating protein AM2.2 in complex with TO1-2P
Analyse Fluorogen activating protein AM2.2 in complex with TO1-2P in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5J74
- Type
- protein
- Length
- 464 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Scfv AM2.2
- Ligands
- 6GN, PO4
- Pockets
- 6 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Scfv AM2.2 | protein | 231 | 6% helix, 51% strand | — |
| B | Scfv AM2.2 | protein | 233 | 7% helix, 52% strand | — |
Ligands and binding sites
- 6GN · 1-(17-amino-5,8-dioxo-12,15-dioxa-4,9-diazaheptadecan-1-yl)-4-{[3-(3-sulfopropyl)-1,3-benzothiazol-3-ium-2-yl]methyl}quinolin-1-ium · ligand · 2 copies · chains A, B
- PO4 · Phosphate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 708 | 0.71 | 0.78 | 77 | empty |
| 2 | 261 | 0.57 | 0.77 | 29 | 6GN |
| 3 | 232 | 0.54 | 0.77 | 29 | 6GN |
| 4 | 80 | 0.31 | 0.73 | 16 | empty |
| 5 | 68 | 0.29 | 0.73 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 459 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5J74 · Fluorogen activating protein AM2.2 in complex with TO1-2p · 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 5J74 · PDBe 5J74
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.