1BYL | pdb_00001byl

BLEOMYCIN RESISTANCE PROTEIN FROM STREPTOALLOTEICHUS HINDUSTANUS

• PDB DOI: https://doi.org/10.2210/pdb1BYL/pdb

• Classification: ANTIBIOTIC
• Organism(s): Streptoalloteichus hindustanus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1998-10-17 Released: 1999-10-21 
• Deposition Author(s): Dumas, P., Bergdoll, M., Cagnon, C., Masson, J.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Work: 
  0.176 (Depositor) 
• R-Value Observed: 
  0.176 (Depositor) 

Literature

Crystal structure and site-directed mutagenesis of a bleomycin resistance protein and their significance for drug sequestering.

Dumas, P., Bergdoll, M., Cagnon, C., Masson, J.M.

(1994) EMBO J 13: 2483-2492

• PubMed: 7516875 
• DOI: https://doi.org/10.1002/j.1460-2075.1994.tb06535.x
• Primary Citation Related Structures: 
  1BYL


• PubMed Abstract: 
  

  The antibiotic bleomycin, a strong DNA cutting agent, is naturally produced by actinomycetes which have developed a resistance mechanism against such a lethal compound. The crystal structure, at 2.3 A resolution, of a bleomycin resistance protein of 14 kDa reveals a structure in two halves with the same alpha/beta fold despite no sequence similarity. The crystal packing shows compact dimers with a hydrophobic interface and involved in mutual chain exchange. Two independent solution studies (analytical centrifugation and light scattering) showed that this dimeric form is not a packing artefact but is indeed the functional one. Furthermore, light scattering also showed that one dimer binds two antibiotic molecules as expected. A crevice located at the dimer interface, as well as the results of a site-directed mutagenesis study, led to a model wherein two bleomycin molecules are completely sequestered by one dimer. This provides a novel insight into antibiotic resistance due to drug sequestering, and probably also into drug transport and excretion.

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Organizational Affiliation: 
• Laboratoire de Biologie Structurale, CNRS, Strasbourg, France.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA,PQS (software)

Macromolecule Content 

• Total Structure Weight: 13.95 kDa 
• Atom Count: 1,021 
• Modeled Residue Count: 122 
• Deposited Residue Count: 125 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (BLEOMYCIN RESISTANCE PROTEIN)	A	125	Streptoalloteichus hindustanus	Mutation(s): 0  Gene Names: SH BLE
UniProt
Find proteins for P17493 (Streptoalloteichus hindustanus) Explore P17493  Go to UniProtKB:  P17493

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Work:  0.176 (Depositor) 
• R-Value Observed: 0.176 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.4	α = 90
b = 48.4	β = 90
c = 111.5	γ = 90

Software Package:

Software Name	Purpose
LOCHVAT(SEE	model building
CCP4	model building
PHASER	phasing
X-PLOR	refinement
X-GEN	data reduction
X-GEN	data scaling
LOCHVAT	phasing
CCP4	phasing
PHARE)	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-10-21 
Deposition Author(s): Dumas, P., Bergdoll, M., Cagnon, C., Masson, J.M.

Revision History  

• Version 1.0: 1999-10-21
  Type: Initial release
  
• Version 1.1: 2007-10-16
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2017-10-04
  Changes: Refinement description
• Version 1.4: 2024-02-07
  Changes: Data collection, Database references