5IL6 | pdb_00005il6

Crystal structure of the dehydratase domain of RzxB from Pseudomonas fluorescens

• PDB DOI: https://doi.org/10.2210/pdb5IL6/pdb

• Classification: HYDROLASE
• Organism(s): Pseudomonas protegens Pf-5
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2016-03-04 Released: 2017-03-29 
• Deposition Author(s): Jakob, R.P., Herbst, D.A., Maier, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.226 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.200 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.201 (Depositor) 

Starting Model: experimental

Literature

Crystal Structures of Dehydratase Domains from trans-AT Polyketide Biosynthetic Pathway

Jakob, R.P., Muller, R., Herbst, D.A., Maier, T.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 67.05 kDa 
• Atom Count: 4,570 
• Modeled Residue Count: 553 
• Deposited Residue Count: 632 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polyketide synthase/nonribosomal peptide synthetase hybrid RzxB	A, B	316	Pseudomonas protegens Pf-5	Mutation(s): 0  Gene Names: rzxB, PFL_2989
UniProt
Find proteins for Q4KCD8 (Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)) Explore Q4KCD8  Go to UniProtKB:  Q4KCD8

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.226 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.200 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.201 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.48	α = 90
b = 105.08	β = 111.91
c = 68.14	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-03-29 
Deposition Author(s): Jakob, R.P., Herbst, D.A., Maier, T.

Revision History  

• Version 1.0: 2017-03-29
  Type: Initial release
  
• Version 1.1: 2024-01-10
  Changes: Data collection, Database references, Refinement description