MolNFT v1 · #34080 · protein
Structure of yjcg protein, a putative 2'-5' RNA ligase from bacillus subtilis
2D4G · Hypothetical protein BSU11850: “Structure of yjcg protein, a putative 2'-5' RNA ligase from bacillus subtilis”. X-ray diffraction, 6 pockets (best druggability 0.72). MolNFT v1 #34080 on GenesisL1: 3D structure, binding sites and…
- PDB
- 2D4G
- Type
- protein
- Length
- 336 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein BSU11850
- UniProt
- O31629
- Pockets
- 6 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 34% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Hypothetical protein BSU11850 | protein | 168 | 34% helix, 29% strand | O31629 |
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 91 | 0.72 | 0.95 | 30 | empty |
| 2 | 255 | 0.54 | 0.76 | 35 | empty |
| 3 | 136 | 0.50 | 0.80 | 19 | empty |
| 4 | 192 | 0.50 | 0.76 | 35 | empty |
| 5 | 140 | 0.48 | 0.78 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1032 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 2D4G · Structure of YjcG protein, a putative 2'-5' RNA ligase from Bacillus subtilis · the same entry in another collection · chain A against A, TM-score 1.00
- O31629 · AlphaFold monomer V2.0 prediction for putative phosphoesterase yjcg (O31629) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 O31629
- Elsewhere: RCSB PDB 2D4G · PDBe 2D4G · UniProt O31629
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