MolNFT v1 · #23544 · protein
Crystal structure of the phr domain of cryptochrome 1 from arabidopsis thaliana
1U3C · Cryptochrome 1 apoprotein: “Crystal structure of the phr domain of cryptochrome 1 from arabidopsis thaliana”. X-ray diffraction, 4 ligands (FAD, NDS, MG), 6 pockets (best druggability 0.81). MolNFT v1 #23544 on GenesisL1: 3D…
- PDB
- 1U3C
- Type
- protein
- Length
- 485 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cryptochrome 1 apoprotein
- UniProt
- Q43125
- Ligands
- FAD, NDS, MG, CL
- Pockets
- 6 · best druggability 0.81
Structure
x-ray diffraction · 1 distinct chain · 53% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cryptochrome 1 apoprotein | protein | 485 | 53% helix, 6% strand | Q43125 |
Ligands and binding sites
- FAD · Flavin-adenine dinucleotide · ligand · chains A
- NDS · Ethyl dimethyl ammonio propane sulfonate · ligand · chains A
- MG · Magnesium ion · metal · 3 copies · chains A
- CL · Chloride ion · ion · chains A
- HEZ · Hexane-1,6-diol · additive · chains A
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 | 669 | 0.81 | 0.86 | 49 | MG, FAD, HEZ |
| 2 | 121 | 0.79 | 0.97 | 29 | empty |
| 3 | 183 | 0.47 | 0.75 | 32 | NDS |
| 4 | 69 | 0.36 | 0.77 | 14 | empty |
| 5 | 56 | 0.29 | 0.75 | 15 | empty |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 1U3C · Crystal Structure of the PHR domain of Cryptochrome 1 from Arabidopsis thaliana · the same entry in another collection · chain A against A, TM-score 1.00
- Q43125 · AlphaFold monomer V2.0 prediction for cryptochrome-1 (Q43125) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q43125
- Elsewhere: RCSB PDB 1U3C · PDBe 1U3C · UniProt Q43125
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.