1JIF

Crystal structure of bleomycin-binding protein from bleomycin-producing Streptomyces verticillus complexed with copper(II)-bleomycin

Structural Biology Knowledgebase: 1JIF SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Observed: 0.158

Literature

Macromolecules
Sequence Display for 1JIF

Classification: PROTEIN BINDING

Total Structure Weight: 29518.58

Macromolecule Entities
Molecule Chains Length Organism Details
bleomycin-binding protein A, B 122 Streptomyces verticillus Gene Name(s): ble
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

B BLEOMYCIN A2
N1-[3-(DIMETHYLSULFONIO)-PROPYL]BLEOMYCINAMIDE (Synonym)
C55 H85 N17 O21 S3
ZGCQRJQBETWECF-UAPAGMARSA-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)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
BLM N/A in BindingDB
N/A in BindingMoad
Kd: 630 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Observed: 0.158
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 35.73 α = 90.00
b = 83.47 β = 106.20
c = 43.06 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-07-02
  • Released Date: 2002-02-06
  • Deposition author(s): Sugiyama, M., Kumagai, T., Hayashida, M., Maruyama, M., Matoba, Y.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4