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Structure of the pentapeptide repeat protein efsqnr, a DNA gyrase inhibitor. free amines modified by cyclic pentylation with glutaraldehyde.
Analyse Structure of the pentapeptide repeat protein efsqnr, a DNA gyrase inhibitor.… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2W7Z
- Type
- protein
- Length
- 415 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pentapeptide repeat family protein
- UniProt
- Q837D8
- Ligands
- CL
- Pockets
- 1 · best druggability 0.34
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pentapeptide repeat family protein | protein | 207 | 6% helix, 41% strand | Q837D8 |
| B | Pentapeptide repeat family protein | protein | 208 | 6% helix, 41% strand | Q837D8 |
Ligands and binding sites
- CL · Chloride ion · ion · 4 copies · chains A, B
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 | 68 | 0.34 | 0.76 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 795 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 13 modified (nonstandard).
Compared structures
- 2W7Z · Structure of the pentapeptide repeat protein EfsQnr, a DNA gyrase inhibitor. Free amines… · the same entry in another collection · chain A against A, TM-score 1.00
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 Q837D8
- Elsewhere: RCSB PDB 2W7Z · PDBe 2W7Z · UniProt Q837D8
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