6IHI

Crystal structure of RasADH 3B3/I91V from Ralstonia.sp in complex with NADPH and A6O

• PDB DOI: https://doi.org/10.2210/pdb6IHI/pdb

• Classification: HYDROLASE/INHIBITOR
• Organism(s): Ralstonia sp.
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2018-09-30 Released: 2019-10-02 
• Deposition Author(s): Zhang, H.L., Chen, X., Liu, W.D., Wu, Q.Q., Zhu, D.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.78 Å
• R-Value Free: 0.214 
• R-Value Work: 0.185 
• R-Value Observed: 0.185 

Starting Model: experimental

Literature

Efficient reductive desymmetrization of bulky 1,3-cyclodiketones enabled by structure-guided directed evolution of a carbonyl reductase.

Chen, X., Zhang, H.L., Ma, M.S., Liu, W., Li, J., Feng, J., Liu, X., Osuna, S., Guo, R.T., Wu, Q., Zhu, D., Ma, Y.

(2019) Nat Catal 2: 931-941

• DOI: https://doi.org/10.1038/s41929-019-0347-y

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)

Macromolecule Content

• Total Structure Weight: 109.44 kDa 
• Atom Count: 8,124 
• Modelled Residue Count: 958 
• Deposited Residue Count: 996 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alclohol dehydrogenase	A, B, C, D	249	Ralstonia sp.	Mutation(s): 4
UniProt
Find proteins for C0IR58 (Ralstonia sp. DSMZ 6428) Explore C0IR58  Go to UniProtKB:  C0IR58

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAP	E [auth A], G [auth B], H [auth C]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N
A6O	F [auth A], I [auth C]	(2R,3S)-2-ethyl-2-[(2E)-2-(6-methoxy-3,4-dihydro-2H-naphthalen-1-ylidene)ethyl]-3-oxidanyl-cyclopentan-1-one C20 H26 O3 ZXYHLOFRRMDJAQ-OUBQQWGRSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.78 Å
• R-Value Free: 0.214 
• R-Value Work: 0.185 
• R-Value Observed: 0.185 
• Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.075	α = 90
b = 69.075	β = 90
c = 388.987	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-10-02 
Deposition Author(s): Zhang, H.L., Chen, X., Liu, W.D., Wu, Q.Q., Zhu, D.M.

Revision History  

• Version 1.0: 2019-10-02
  Type: Initial release
  
• Version 1.1: 2019-10-16
  Changes: Data collection, Database references, Source and taxonomy, Structure summary
• Version 1.2: 2023-11-22
  Changes: Data collection, Database references, Refinement description