Research workbench
Crystal structure of the complete core of archaeal srp and implications for inter-domain communication
Analyse Crystal structure of the complete core of archaeal srp and implications for… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1QZW
- Type
- protein + RNA
- Length
- 1,916 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 7S RNA; Signal recognition 54 kda protein
- UniProt
- Q97ZE7
- Pockets
- 20 · best druggability 0.88
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, D, F, H | 7S RNA | rna | 47 | — | — |
| A, C, E, G | Signal recognition 54 kda protein | protein | 432 | 42% helix, 6% strand | Q97ZE7 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1106 | 0.88 | 0.88 | 164 | empty |
| 2 | 1147 | 0.88 | 0.88 | 154 | empty |
| 3 | 956 | 0.87 | 0.88 | 151 | empty |
| 4 | 920 | 0.83 | 0.84 | 102 | empty |
| 5 | 1108 | 0.82 | 0.83 | 115 | empty |
Interfaces
10 interfaces between chains.
- C–E · 797 Ų buried · 4 hydrogen bonds · protein-protein
- A–G · 779 Ų buried · 4 hydrogen bonds · protein-protein
- D–C · 585 Ų buried · 26 hydrogen bonds · protein-nucleic
- B–A · 584 Ų buried · 26 hydrogen bonds · protein-nucleic
- H–G · 584 Ų buried · 26 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 8 modified (nucleotide modification).
Compared structures
- 1QZW · Crystal structure of the complete core of archaeal SRP and implications for inter-domain… · the same entry in another collection · chain G against G, TM-score 1.00
- Q97ZE7 · AlphaFold monomer V2.0 prediction for signal recognition particle 54 kda protein (Q97ZE7) · a predicted model of the same protein · chain A against A, TM-score 0.84
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 Q97ZE7
- Elsewhere: RCSB PDB 1QZW · PDBe 1QZW · UniProt Q97ZE7
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