Research workbench
Crystal structure of the zorbamycin binding protein (zbma) from streptomyces flavoviridis with zorbamycin
Analyse Crystal structure of the zorbamycin binding protein (zbma) from streptomyces… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5CJ3
- Type
- protein
- Length
- 252 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Zbm binding protein
- UniProt
- B9UIZ4
- Ligands
- 52G, CU, CL
- Pockets
- 1 · best druggability 0.29
Structure
x-ray diffraction · 2 distinct chains · 18% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Zbm binding protein | protein | 126 | 17% helix, 45% strand | B9UIZ4 |
| B | Zbm binding protein | protein | 126 | 18% helix, 45% strand | B9UIZ4 |
Ligands and binding sites
- 52G · Zorbamycin · ligand · 2 copies · chains A, B
- CU · Copper (II) ion · metal · 2 copies
- CL · Chloride ion · ion · 2 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 | 52 | 0.29 | 0.75 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1694 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 5CJ3 · Crystal structure of the zorbamycin binding protein (ZbmA) from Streptomyces flavoviridis… · 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 B9UIZ4
- Elsewhere: RCSB PDB 5CJ3 · PDBe 5CJ3 · UniProt B9UIZ4
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