MolNFT v1 · #57619 · protein
Crystal structure of a monomeric green fluorescent protein, azami- green (mag)
3ADF · Monomeric azami green: “Crystal structure of a monomeric green fluorescent protein, azami- green (mag)”. X-ray diffraction, 1 ligand (CRQ), 6 pockets (best druggability 0.74). MolNFT v1 #57619 on GenesisL1: 3D structure, binding…
- PDB
- 3ADF
- Type
- protein
- Length
- 419 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Monomeric azami green
- UniProt
- Q60I24
- Ligands
- CRQ
- Pockets
- 6 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 59% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Monomeric azami green | protein | 210 | 3% helix, 59% strand | Q60I24 |
| B | Monomeric azami green | protein | 209 | 5% helix, 59% strand | Q60I24 |
Ligands and binding sites
- CRQ · [2-(3-carbamoyl-1-imino-propyl)-4-(4-hydroxy-benzylidene)-5-oxo-4,5-dihydro-imidazol-1-yl]-acetic acid · ligand · 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 83 | 0.74 | 0.97 | 27 | CRQ |
| 2 | 73 | 0.72 | 0.97 | 25 | CRQ |
| 3 | 110 | 0.43 | 0.77 | 20 | empty |
| 4 | 65 | 0.37 | 0.78 | 19 | empty |
| 5 | 66 | 0.34 | 0.77 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1043 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 cofactor (chromophore).
Compared structures
- 3ADF · Crystal structure of a monomeric green fluorescent protein, Azami-Green (mAG) · 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
- Every structure of UniProt Q60I24
- Elsewhere: RCSB PDB 3ADF · PDBe 3ADF · UniProt Q60I24
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