1KA0 | pdb_00001ka0

The PAPase Hal2p complexed with a sodium ion and the reaction product AMP

• PDB DOI: https://doi.org/10.2210/pdb1KA0/pdb

• Classification: HYDROLASE
• Organism(s): Saccharomyces cerevisiae
• Expression System: Saccharomyces cerevisiae
• Mutation(s): No 


• Deposited: 2001-10-31 Released: 2001-11-07 
• Deposition Author(s): Patel, S., Albert, A., Blundell, T.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.195 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.147 (Depositor), 0.152 (DCC) 
• R-Value Observed: 
  0.150 (Depositor) 

Starting Model: experimental

Literature

Hal2p: Ion selectivity and implications on inhibition mechanism

Patel, S., Albert, A., Blundell, T.L.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 39.57 kDa 
• Atom Count: 3,027 
• Modeled Residue Count: 353 
• Deposited Residue Count: 357 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Halotolerance protein HAL2	A	357	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names: HAL2 EC: 3.1.3.7
UniProt
Find proteins for P32179 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P32179  Go to UniProtKB:  P32179

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AMP	C [auth A]	ADENOSINE MONOPHOSPHATE C10 H14 N5 O7 P UDMBCSSLTHHNCD-KQYNXXCUSA-N
NA	B [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.195 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.147 (Depositor), 0.152 (DCC) 
• R-Value Observed: 0.150 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.6	α = 90
b = 45.11	β = 111.36
c = 71.6	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
X-GEN	data reduction
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2001-11-07 
Deposition Author(s): Patel, S., Albert, A., Blundell, T.L.

Revision History  

• Version 1.0: 2001-11-07
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-16
  Changes: Data collection, Database references, Derived calculations, Refinement description