MolNFT v1 · #12882 · protein + RNA
Crystal structure of T3C mutant S15 ribosomal protein in complex with 16S rRNA
1KUQ · 16S ribosomal RNA fragment: “Crystal structure of T3C mutant S15 ribosomal protein in complex with 16S rRNA”. X-ray diffraction, 1 ligand (SO4), 3 pockets (best druggability 0.66). MolNFT v1 #12882 on GenesisL1: 3D structure…
- PDB
- 1KUQ
- Type
- protein + RNA
- Length
- 141 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 16S ribosomal RNA fragment; 30S ribosomal protein S15
- UniProt
- P80378
- Ligands
- SO4
- Pockets
- 3 · best druggability 0.66
Structure
x-ray diffraction · 2 distinct chains · 70% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | 16S ribosomal RNA fragment | rna | 57 | — | — |
| A | 30S ribosomal protein S15 | protein | 84 | 70% helix, 0% strand | P80378 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 755 | 0.66 | 0.75 | 38 | empty |
| 2 | 94 | 0.36 | 0.75 | 9 | empty |
| 3 | 55 | 0.28 | 0.75 | 16 | empty |
Interfaces
1 interface between chains.
- B–A · 1250 Ų buried · 32 hydrogen bonds · protein-nucleic
Compared structures
- 1KUQ · Crystal structure of T3C mutant S15 ribosomal protein in complex with 16S rRNA · the same entry in another collection · chain B against B, TM-score 1.00
- P80378 · AlphaFold monomer V2.0 prediction for 30S ribosomal protein S15 (P80378) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 P80378
- Elsewhere: RCSB PDB 1KUQ · PDBe 1KUQ · UniProt P80378
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