Research workbench
Crystal structure of MEOS2-A69T fluorescent protein
Analyse Crystal structure of MEOS2-A69T fluorescent protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5DTL
- Type
- protein
- Length
- 2,628 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Green to red photoconvertible GFP-like protein eosfp
- UniProt
- Q5S6Z9
- Ligands
- 5SQ
- Pockets
- 20 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 4% helix, 57% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | Green to red photoconvertible GFP-like protein eosfp | protein | 219 | 4% helix, 57% strand | Q5S6Z9 |
Ligands and binding sites
- 5SQ · 2-[2-[(1S)-1-azanyl-2-(1H-imidazol-4-yl)ethyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid · ligand · 12 copies · chains A, B, C, D, E, F, G, H, I, J, K, L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1156 | 0.79 | 0.81 | 99 | empty |
| 2 | 676 | 0.77 | 0.83 | 74 | empty |
| 3 | 90 | 0.77 | 0.98 | 28 | 5SQ |
| 4 | 88 | 0.76 | 0.98 | 28 | 5SQ |
| 5 | 85 | 0.76 | 0.98 | 26 | 5SQ |
Interfaces
22 interfaces between chains.
- E–J · 1342 Ų buried · 14 hydrogen bonds · protein-protein
- G–K · 1279 Ų buried · 14 hydrogen bonds · protein-protein
- A–D · 1273 Ų buried · 22 hydrogen bonds · protein-protein
- C–L · 1251 Ų buried · 8 hydrogen bonds · protein-protein
- H–I · 1218 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 24 covalent (covalent ligand).
Compared structures
- 5DTL · Crystal structure of mEos2-A69T 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
- Every structure of UniProt Q5S6Z9
- Elsewhere: RCSB PDB 5DTL · PDBe 5DTL · UniProt Q5S6Z9
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