6H7S | pdb_00006h7s

Sulfolobus solfataricus 2-keto-3-deoxygluconate aldolase T157V/A198L variant in complex with L-2-keto-3deoxy-gluconate

• PDB DOI: https://doi.org/10.2210/pdb6H7S/pdb

• Classification: LYASE
• Organism(s): Saccharolobus solfataricus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2018-07-31 Released: 2019-08-14 
• Deposition Author(s): Crennell, S.J., Danson, M.J., Royer, S.
• Funding Organization(s): Biotechnology and Biological Sciences Research Council

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 
  0.244 (Depositor), 0.239 (DCC) 
• R-Value Work: 
  0.177 (Depositor), 0.179 (DCC) 
• R-Value Observed: 
  0.181 (Depositor) 

Starting Model: experimental

Literature

Sulfolobus solfataricus 2-keto-3-deoxygluconate aldolase T157V/A198L variant

Crennell, S.J., Danson, M.J., Royer, S.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly Evidence: equilibrium centrifugation

Macromolecule Content 

• Total Structure Weight: 66.48 kDa 
• Atom Count: 4,692 
• Modeled Residue Count: 586 
• Deposited Residue Count: 586 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
2-dehydro-3-deoxy-phosphogluconate/2-dehydro-3-deoxy-6-phosphogalactonate aldolase	A, B	293	Saccharolobus solfataricus	Mutation(s): 2  EC: 4.1.2.55
UniProt
Find proteins for O54288 (Saccharolobus solfataricus) Explore O54288  Go to UniProtKB:  O54288

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FW2	C [auth A], D [auth B]	L-2-keto-3deoxy-gluconate C6 H10 O6 WPAMZTWLKIDIOP-WUJLRWPWSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free:  0.244 (Depositor), 0.239 (DCC) 
• R-Value Work:  0.177 (Depositor), 0.179 (DCC) 
• R-Value Observed: 0.181 (Depositor) 

Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 105.061	α = 90
b = 105.061	β = 90
c = 246.416	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
BALBES	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-08-14 
Deposition Author(s): Crennell, S.J., Danson, M.J., Royer, S.

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Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council	United Kingdom	--

Revision History  

• Version 1.0: 2019-08-14
  Type: Initial release
  
• Version 1.1: 2024-01-17
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2025-10-01
  Changes: Advisory, Derived calculations, Structure summary