Research workbench
Crystal structure of N-terminal domain of ribosomal protein L9 (NTL9) K12M
Analyse Crystal structure of N-terminal domain of ribosomal protein L9 (NTL9) K12M in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2HBA
- Type
- protein
- Length
- 104 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 50S ribosomal protein L9
- UniProt
- P02417
- Ligands
- ZN, CL
- Pockets
- 1 · best druggability 0.40
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | 50S ribosomal protein L9 | protein | 52 | 37% helix, 23% strand | P02417 |
Ligands and binding sites
- ZN · Zinc ion · metal · 8 copies · chains A, B
- CL · Chloride ion · ion · 10 copies · chains A, B
- IMD · Imidazole · additive
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 82 | 0.40 | 0.78 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 602 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 2HBA · Crystal Structure of N-terminal Domain of Ribosomal Protein L9 (NTL9) K12M · the same entry in another collection · chain A against A, TM-score 1.00
- P02417 · AlphaFold monomer V2.0 prediction for 50S ribosomal protein L9 (P02417) · a predicted model of the same protein · chain A against A, TM-score 0.85
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 P02417
- Elsewhere: RCSB PDB 2HBA · PDBe 2HBA · UniProt P02417
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.