Research workbench
Structure of the heterodimer of the conserved GTPase domains of the signal recognition particle (ffh) and its receptor (ftsy)
Analyse Structure of the heterodimer of the conserved GTPase domains of the signal… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1RJ9
- Type
- protein
- Length
- 559 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Signal recognition protein; Signal recognition particle protein
- UniProt
- P83749, O07347
- Ligands
- GCP, MG
- Pockets
- 8 · best druggability 0.83
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Signal recognition protein | protein | 277 | 45% helix, 13% strand | P83749 |
| B | Signal recognition particle protein | protein | 282 | 45% helix, 15% strand | O07347 |
Ligands and binding sites
- GCP · Phosphomethylphosphonic acid guanylate ester · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 475 | 0.83 | 0.90 | 66 | MG, GCP |
| 2 | 99 | 0.51 | 0.82 | 19 | empty |
| 3 | 152 | 0.44 | 0.75 | 21 | empty |
| 4 | 53 | 0.43 | 0.83 | 12 | empty |
| 5 | 95 | 0.34 | 0.74 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 1560 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 1RJ9 · Structure of the heterodimer of the conserved GTPase domains of the Signal Recognition… · the same entry in another collection · chain A against A, TM-score 1.00
- P83749 · AlphaFold monomer V2.0 prediction for signal recognition particle receptor ftsy (P83749) · a predicted model of the same protein · chain A against A, TM-score 0.94
- O07347 · AlphaFold monomer V2.0 prediction for signal recognition particle protein (O07347) · a predicted model of the same protein · chain B against A, TM-score 0.90
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 P83749
- Every structure of UniProt O07347
- Elsewhere: RCSB PDB 1RJ9 · PDBe 1RJ9 · UniProt P83749 · UniProt O07347
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