Research workbench
Structure of the complete bacterial srp alu domain
Analyse Structure of the complete bacterial srp alu domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4WFM
- Type
- RNA
- Length
- 206 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bacillus subtilis small cytoplasmic RNA (SCRNA),RNA
- Ligands
- NCO, MG
- Pockets
- 8 · best druggability 0.64
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Bacillus subtilis small cytoplasmic RNA (SCRNA),RNA | rna | 103 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 678 | 0.64 | 0.75 | 32 | NCO |
| 2 | 579 | 0.62 | 0.75 | 34 | NCO |
| 3 | 584 | 0.61 | 0.74 | 32 | NCO |
| 4 | 506 | 0.58 | 0.74 | 27 | NCO |
| 5 | 297 | 0.51 | 0.75 | 16 | NCO |
Interfaces
1 interface between chains.
- A–B · 196 Ų buried · 8 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 4 modified (nucleotide modification).
Compared structures
- 4WFM · Structure of the complete bacterial SRP Alu domain · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 4WFM · PDBe 4WFM
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