MolNFT v1 · #140521 · protein
Crystal structure of mercury soaked C-terminal domain of RV1828 from mycobacterium tuberculosis
5YDC · Uncharacterized hth-type transcriptional regulator RV1828: “Crystal structure of mercury soaked C-terminal domain of RV1828 from mycobacterium tuberculosis”. X-ray diffraction, 2 ligands (HG, SO4), 1 pocket (best druggability 0.30).…
- PDB
- 5YDC
- Type
- protein
- Length
- 242 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized hth-type transcriptional regulator RV1828
- UniProt
- P9WME7
- Ligands
- HG, SO4
- Pockets
- 1 · best druggability 0.30
Structure
x-ray diffraction · 2 distinct chains · 70% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized hth-type transcriptional regulator RV1828 | protein | 120 | 71% helix, 2% strand | P9WME7 |
| B | Uncharacterized hth-type transcriptional regulator RV1828 | protein | 122 | 70% helix, 2% strand | P9WME7 |
Ligands and binding sites
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 | 64 | 0.30 | 0.74 | 10 | empty |
Interfaces
1 interface between chains.
- A–B · 2550 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 5YDC · Crystal structure of mercury soaked C-terminal domain of Rv1828 from Mycobacterium… · the same entry in another collection · chain A against A, TM-score 1.00
- P9WME7 · AlphaFold monomer V2.0 prediction for uncharacterized hth-type transcriptional regulator… · a predicted model of the same protein · chain A against A, TM-score 0.84
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 P9WME7
- Elsewhere: RCSB PDB 5YDC · PDBe 5YDC · UniProt P9WME7
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