MolNFT v1 · #127215 · protein
Crystal structure of arabidopsis thaliana RNA editing factor MORF1
5MPW · Multiple organellar RNA editing factor 1, mitochondrial: “Crystal structure of arabidopsis thaliana RNA editing factor MORF1”. X-ray diffraction, 2 ligands (BR, SO4), 6 pockets (best druggability 0.64). MolNFT v1 #127215 on…
- PDB
- 5MPW
- Type
- protein
- Length
- 459 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Multiple organellar RNA editing factor 1, mitochondrial
- UniProt
- O49429
- Ligands
- BR, SO4
- Pockets
- 6 · best druggability 0.64
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, D | Multiple organellar RNA editing factor 1, mitochondrial | protein | 115 | 30% helix, 31% strand | O49429 |
| B | Multiple organellar RNA editing factor 1, mitochondrial | protein | 114 | 31% helix, 32% strand | O49429 |
Ligands and binding sites
- BR · Bromide ion · ion · 26 copies · chains A, B, D, C
- SO4 · Sulfate ion · ion · 4 copies · chains A, B, C, D
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 | 497 | 0.64 | 0.76 | 69 | BR, SO4 |
| 2 | 175 | 0.61 | 0.83 | 25 | BR |
| 3 | 158 | 0.56 | 0.81 | 24 | BR |
| 4 | 190 | 0.43 | 0.73 | 33 | SO4, BR |
| 5 | 56 | 0.37 | 0.79 | 17 | empty |
Interfaces
6 interfaces between chains.
- A–D · 870 Ų buried · 13 hydrogen bonds · protein-protein
- B–C · 803 Ų buried · 12 hydrogen bonds · protein-protein
- A–C · 751 Ų buried · 5 hydrogen bonds · protein-protein
- B–D · 738 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 468 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5MPW · Crystal structure of Arabidopsis thaliana RNA editing factor MORF1 · the same entry in another collection · chain A against A, TM-score 1.00
- O49429 · AlphaFold monomer V2.0 prediction for multiple organellar RNA editing factor 1… · a predicted model of the same protein · chain A against A, TM-score 0.91
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 O49429
- Elsewhere: RCSB PDB 5MPW · PDBe 5MPW · UniProt O49429
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