4OWY | pdb_00004owy

Crystal Structure of Ahp1 from Saccharomyces cerevisiae. Investigating the electron transfers.

• PDB DOI: https://doi.org/10.2210/pdb4OWY/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Saccharomyces cerevisiae BY4741
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-02-04 Released: 2015-02-04 
• Deposition Author(s): Schultz, L., Genu, V., Breyer, C.A., dos Santos, V.F., Guimaraes, B.G., Netto, L.E.S., de Oliveira, M.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.242 (Depositor), 0.246 (DCC) 
• R-Value Work: 
  0.180 (Depositor), 0.188 (DCC) 
• R-Value Observed: 
  0.184 (Depositor) 

Literature

Crystal Structure of Ahp1 from Saccharomyces cerevisiae. Investigating the electron transfers.

Schultz, L., Genu, V., Breyer, C.A., dos Santos, V.F., Guimaraes, B.G., de Oliveira, M.A., Netto, L.E.S.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 85.95 kDa 
• Atom Count: 5,285 
• Modeled Residue Count: 686 
• Deposited Residue Count: 784 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peroxiredoxin type-2	A, B, C, D	196	Saccharomyces cerevisiae BY4741	Mutation(s): 0  Gene Names: AHP1 EC: 1.11.1.15 (PDB Primary Data), 1.11.1.24 (UniProt)
UniProt
Find proteins for P38013 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P38013  Go to UniProtKB:  P38013

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEG	E [auth A], F [auth B], G [auth B], I [auth B]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
TBU	M [auth D]	TERTIARY-BUTYL ALCOHOL C4 H10 O DKGAVHZHDRPRBM-UHFFFAOYSA-N
ACY	H [auth B], J [auth C], K [auth D], L [auth D]	ACETIC ACID C2 H4 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.242 (Depositor), 0.246 (DCC) 
• R-Value Work:  0.180 (Depositor), 0.188 (DCC) 
• R-Value Observed: 0.184 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.127	α = 90
b = 127.799	β = 103.24
c = 66.421	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-02-04 
Deposition Author(s): Schultz, L., Genu, V., Breyer, C.A., dos Santos, V.F., Guimaraes, B.G., Netto, L.E.S., de Oliveira, M.A.

Revision History  

• Version 1.0: 2015-02-04
  Type: Initial release
  
• Version 1.1: 2023-12-27
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description, Source and taxonomy
• Version 1.2: 2024-10-23
  Changes: Structure summary