Research workbench
Crystal structure of the PadR-family transcriptional regulator Rv3488 of Mycobacterium tuberculosis H37Rv
Analyse Crystal structure of the PadR-family transcriptional regulator Rv3488 of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5ZHC
- Type
- protein
- Length
- 204 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.97
- Source
- Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
- Molecule
- Transcriptional regulator
- UniProt
- I6X7F9
- Ligands
- CL
- Pockets
- 2 · best druggability 0.41
Structure
x-ray diffraction · resolution 1.97 · 1 distinct chain · 65% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Transcriptional regulator | protein | 102 | 65% helix, 17% strand | I6X7F9 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 101 | 0.41 | 0.77 | 20 | empty |
| 2 | 59 | 0.32 | 0.76 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 1708 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 5ZHC · Crystal structure of the padr-family transcriptional regulator RV3488 of mycobacterium… · the same entry in another collection · chain A against A, TM-score 1.00
- I6X7F9 · AlphaFold monomer V2.0 prediction for transcriptional regulator RV3488 (I6X7F9) · a predicted model of the same protein · chain B against A, TM-score 0.87
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 I6X7F9
- Elsewhere: RCSB PDB 5ZHC · PDBe 5ZHC · UniProt I6X7F9
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