5CJ3

Crystal structure of the zorbamycin binding protein (ZbmA) from Streptomyces flavoviridis with zorbamycin

Structural Biology Knowledgebase: 5CJ3 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.213
  • R-Value Work: 0.176

Literature

Macromolecules
Sequence Display for 5CJ3

Classification: Antibiotic binding protein / antibiotic

Total Structure Weight: 32784.04

Macromolecule Entities
Molecule Chains Length Organism Details
Zbm binding protein A, B 135 Streptomyces flavoviridis Gene Name(s): zbmA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
52G
Query on 52G

A, B Zorbamycin
3S, (Synonym)
C55 H85 N19 O21 S2
UJKRUPHWCPAJIL-CPLCKGKLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CU
Query on CU

A, B COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.213
  • R-Value Work: 0.176
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 40.74 α = 90.00
b = 78.99 β = 90.00
c = 79.54 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2015-07-13
  • Released Date: 2015-07-22
  • Deposition author(s): Chang, C., Bigelow, L., Clancy, S., Babnigg, G., Joachimiak, A., Midwest Center for Structural Genomics (MCSG), Rudolf, J.D., Ma, M., Chang, C.-Y., Lohman, J.R., Yang, D., Shen, B., Enzyme Discovery for Natural Product Biosynthesis, Enzyme Discovery for Natural Product Biosynthesis (NatPro)

Revision History

  • 2015-11-25
    Type: Citation | Details: Citation
  • 2015-11-11
    Type: Citation | Details: Citation