5LW3 | pdb_00005lw3

Azotobacter vinelandii Mannuronan C-5 epimerase AlgE6 A-module

• PDB DOI: https://doi.org/10.2210/pdb5LW3/pdb

• Classification: ISOMERASE
• Organism(s): Azotobacter vinelandii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-09-15 Released: 2017-10-25 
• Deposition Author(s): Rothweiler, U.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.19 Å
• R-Value Free: 
  0.160 (Depositor), 0.160 (DCC) 
• R-Value Work: 
  0.144 (Depositor), 0.150 (DCC) 
• R-Value Observed: 
  0.145 (Depositor) 

Starting Model: experimental

Literature

Azotobacter vinelandii Mannuronan C-5 epimerase AlgE6 A-module

Rothweiler, U.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 41.15 kDa 
• Atom Count: 3,400 
• Modeled Residue Count: 381 
• Deposited Residue Count: 387 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Poly(beta-D-mannuronate) C5 epimerase 6	A	387	Azotobacter vinelandii	Mutation(s): 0  Gene Names: algE6 EC: 5.1.3 (PDB Primary Data), 5.1.3.37 (UniProt)
UniProt
Find proteins for Q9ZFH0 (Azotobacter vinelandii) Explore Q9ZFH0  Go to UniProtKB:  Q9ZFH0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
B3P	C [auth A]	2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C11 H26 N2 O6 HHKZCCWKTZRCCL-UHFFFAOYSA-N
CA	D [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	B [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.19 Å
• R-Value Free:  0.160 (Depositor), 0.160 (DCC) 
• R-Value Work:  0.144 (Depositor), 0.150 (DCC) 
• R-Value Observed: 0.145 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.884	α = 90
b = 63.672	β = 97.16
c = 73.075	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-10-25 
Deposition Author(s): Rothweiler, U.

Revision History  

• Version 1.0: 2017-10-25
  Type: Initial release
  
• Version 2.0: 2024-01-17
  Changes: Atomic model, Data collection, Database references, Refinement description