MolNFT v1 · #109124 · protein
The C-terminal domain of rubisco accumulation factor 1 from arabidopsis thaliana, crystal form I
4WT4 · Rubisco accumulation factor 1, isoform 2: “The C-terminal domain of rubisco accumulation factor 1 from arabidopsis thaliana, crystal form I”. X-ray diffraction, 1 ligand (PO4), 13 pockets (best druggability 0.61). MolNFT v1 #109124…
- PDB
- 4WT4
- Type
- protein
- Length
- 591 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Rubisco accumulation factor 1, isoform 2
- UniProt
- Q9SR19
- Ligands
- PO4
- Pockets
- 13 · best druggability 0.61
Structure
x-ray diffraction · 4 distinct chains · 13% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Rubisco accumulation factor 1, isoform 2 | protein | 148 | 11% helix, 41% strand | Q9SR19 |
| B | Rubisco accumulation factor 1, isoform 2 | protein | 145 | 11% helix, 42% strand | Q9SR19 |
| C | Rubisco accumulation factor 1, isoform 2 | protein | 150 | 16% helix, 41% strand | Q9SR19 |
| D | Rubisco accumulation factor 1, isoform 2 | protein | 148 | 16% helix, 41% strand | Q9SR19 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 3 copies · chains A, B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 200 | 0.61 | 0.82 | 28 | empty |
| 2 | 135 | 0.58 | 0.83 | 22 | empty |
| 3 | 152 | 0.52 | 0.79 | 29 | empty |
| 4 | 143 | 0.50 | 0.79 | 29 | empty |
| 5 | 101 | 0.50 | 0.81 | 21 | empty |
Interfaces
3 interfaces between chains.
- A–C · 1308 Ų buried · 13 hydrogen bonds · protein-protein
- B–D · 1283 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 472 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 4WT4 · The C-terminal domain of Rubisco Accumulation Factor 1 from Arabidopsis thaliana, crystal… · the same entry in another collection · chain D against D, TM-score 1.00
- Q9SR19 · AlphaFold monomer V2.0 prediction for rubisco accumulation factor 1.2, chloroplastic… · a predicted model of the same protein · chain B 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 Q9SR19
- Elsewhere: RCSB PDB 4WT4 · PDBe 4WT4 · UniProt Q9SR19
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