Research workbench
Crystal structure of cryptochrome 3 from arabidopsis thaliana
Analyse Crystal structure of cryptochrome 3 from arabidopsis thaliana in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2IJG
- Type
- protein
- Length
- 492 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cryptochrome dash, CHLOROPLAST/MITOCHONDRIAL
- UniProt
- Q84KJ5
- Ligands
- FAD, MHF
- Pockets
- 5 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 49% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| X | Cryptochrome dash, CHLOROPLAST/MITOCHONDRIAL | protein | 492 | 49% helix, 8% strand | Q84KJ5 |
Ligands and binding sites
- FAD · Flavin-adenine dinucleotide · ligand · chains X
- MHF · 5,10-methenyl-6,7,8-trihydrofolic acid · ligand · chains X
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 498 | 0.84 | 0.91 | 45 | FAD |
| 2 | 313 | 0.79 | 0.90 | 39 | MHF |
| 3 | 59 | 0.38 | 0.79 | 17 | empty |
| 4 | 74 | 0.35 | 0.77 | 12 | empty |
| 5 | 50 | 0.34 | 0.78 | 19 | empty |
Compared structures
- 2IJG · Crystal Structure of cryptochrome 3 from Arabidopsis thaliana · the same entry in another collection · chain X against X, TM-score 1.00
- Q84KJ5 · AlphaFold monomer V2.0 prediction for cryptochrome dash, CHLOROPLASTIC/MITOCHONDRIAL… · a predicted model of the same protein · chain X 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 Q84KJ5
- Elsewhere: RCSB PDB 2IJG · PDBe 2IJG · UniProt Q84KJ5
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