2CNU

Atomic resolution structure of SAICAR-synthase from Saccharomyces cerevisiae complexed with aspartic acid

• PDB DOI: https://doi.org/10.2210/pdb2CNU/pdb

• Classification: LIGASE
• Organism(s): Saccharomyces cerevisiae
• Mutation(s): No 


• Deposited: 2006-05-24 Released: 2006-06-07 
• Deposition Author(s): Urusova, D.V., Antonyuk, S.V., Grebenko, A.I., Levdikov, V.M., Barynin, V.V., Popov, A.N., Lamzin, V.S., Melik-Adamyan, W.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.05 Å
• R-Value Free: 0.159 
• R-Value Work: 0.132 
• R-Value Observed: 0.134 

Literature

Saicar Synthase: Substrate Recognition, Conformational Flexibility and Catalysis.

Urusova, D.V., Antonyuk, S.V., Grebenko, A.I., Levdikov, V.M., Barynin, V.V., Popov, A.N., Lamzin, V.S., Melik-Adamyan, W.R.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 35.62 kDa 
• Atom Count: 3,573 
• Modelled Residue Count: 303 
• Deposited Residue Count: 306 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PHOSPHORIBOSYLAMINOIMIDAZOLE-SUCCINOCARBOXAMIDE SYNTHASE	A	306	Saccharomyces cerevisiae	Mutation(s): 0  EC: 6.3.2.6
UniProt
Find proteins for P27616 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P27616  Go to UniProtKB:  P27616

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ASP	B [auth A], C [auth A], D [auth A]	ASPARTIC ACID C4 H7 N O4 CKLJMWTZIZZHCS-REOHCLBHSA-N
SO4	E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.05 Å
• R-Value Free: 0.159 
• R-Value Work: 0.132 
• R-Value Observed: 0.134 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.023	α = 90
b = 62.497	β = 90
c = 78.273	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-06-07 
Deposition Author(s): Urusova, D.V., Antonyuk, S.V., Grebenko, A.I., Levdikov, V.M., Barynin, V.V., Popov, A.N., Lamzin, V.S., Melik-Adamyan, W.R.

Revision History  

• Version 1.0: 2006-06-07
  Type: Initial release
  
• Version 1.1: 2013-09-04
  Changes: Atomic model, Derived calculations, Non-polymer description, Other, Structure summary, Version format compliance
• Version 1.2: 2019-07-24
  Changes: Data collection, Derived calculations
• Version 1.3: 2023-12-13
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description