Research workbench
Ribosomal silencing factor during starvation or stationary phase (rsfs) from mycobacterium tuberculosis
Analyse Ribosomal silencing factor during starvation or stationary phase (rsfs) from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4WCW
- Type
- protein
- Length
- 462 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribosomal silencing factor rsfs
- UniProt
- O86327
- Ligands
- MG
- Pockets
- 5 · best druggability 0.77
Structure
x-ray diffraction · 3 distinct chains · 36% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribosomal silencing factor rsfs | protein | 116 | 35% helix, 28% strand | O86327 |
| B | Ribosomal silencing factor rsfs | protein | 112 | 37% helix, 29% strand | O86327 |
| C, D | Ribosomal silencing factor rsfs | protein | 117 | 35% helix, 27% strand | O86327 |
Ligands and binding sites
- MG · Magnesium ion · metal · 6 copies · chains A, B, C, D
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 2 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 533 | 0.77 | 0.84 | 52 | MPD |
| 2 | 843 | 0.75 | 0.78 | 49 | empty |
| 3 | 1130 | 0.75 | 0.77 | 57 | empty |
| 4 | 166 | 0.54 | 0.80 | 24 | MG |
| 5 | 52 | 0.26 | 0.74 | 18 | empty |
Interfaces
4 interfaces between chains.
- A–B · 785 Ų buried · 28 hydrogen bonds · protein-protein
- C–D · 736 Ų buried · 26 hydrogen bonds · protein-protein
- A–C · 564 Ų buried · 10 hydrogen bonds · protein-protein
- A–D · 396 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 4WCW · Ribosomal silencing factor during starvation or stationary phase (RsfS) from… · 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
- Every structure of UniProt O86327
- Elsewhere: RCSB PDB 4WCW · PDBe 4WCW · UniProt O86327
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