3PK2 | pdb_00003pk2

Artificial Transfer Hydrogenases for the Enantioselective Reduction of Cyclic Imines

• PDB DOI: https://doi.org/10.2210/pdb3PK2/pdb

• Classification: BIOTIN-BINDING PROTEIN
• Organism(s): Streptomyces avidinii
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2010-11-11 Released: 2011-04-13 
• Deposition Author(s): Schirmer, T., Heinisch, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.204 (Depositor), 0.225 (DCC) 
• R-Value Work: 
  0.184 (Depositor), 0.198 (DCC) 
• R-Value Observed: 
  0.185 (Depositor) 

Starting Model: experimental

Literature

Artificial transfer hydrogenases for the enantioselective reduction of cyclic imines.

Durrenberger, M., Heinisch, T., Wilson, Y.M., Rossel, T., Nogueira, E., Knorr, L., Mutschler, A., Kersten, K., Zimbron, M.J., Pierron, J., Schirmer, T., Ward, T.R.

(2011) Angew Chem Int Ed Engl 50: 3026-3029

• PubMed: 21404391 
• DOI: https://doi.org/10.1002/anie.201007820
• Primary Citation Related Structures: 
  3PK2

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Organizational Affiliation: 
• Institut für Anorganische Chemie, Universität Basel, Basel, Switzerland.

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: 17.75 kDa 
• Atom Count: 1,033 
• Modeled Residue Count: 122 
• Deposited Residue Count: 159 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Streptavidin	A	159	Streptomyces avidinii	Mutation(s): 1
UniProt
Find proteins for P22629 (Streptomyces avidinii) Explore P22629  Go to UniProtKB:  P22629

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
4IR	B [auth A]	{N-(4-{[2-(amino-kappaN)ethyl]sulfamoyl-kappaN}phenyl)-5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanamide}(chloro)[(1,2,3,4,5-eta)-1,2,3,4,5-pentamethylcyclopentadienyl]iridium(III) C28 H45 Cl Ir N5 O4 S2 OPJZDGOSRZOXTM-DYKJULMGSA-M
IR3	C [auth A], D [auth A]	IRIDIUM (III) ION Ir MILUBEOXRNEUHS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.204 (Depositor), 0.225 (DCC) 
• R-Value Work:  0.184 (Depositor), 0.198 (DCC) 
• R-Value Observed: 0.185 (Depositor) 

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.616	α = 90
b = 57.616	β = 90
c = 184.031	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-04-13 
Deposition Author(s): Schirmer, T., Heinisch, T.

Revision History  

• Version 1.0: 2011-04-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description