Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 33.83 kDa 
• Atom Count: 2474 
• Modelled Residue Count: 291 
• Deposited Residue Count: 291 
• Unique protein chains: 1

1CCG

CONSTRUCTION OF A BIS-AQUO HEME ENZYME AND REPLACEMENT WITH EXOGENOUS LIGAND

• PDB DOI: 10.2210/pdb1CCG/pdb

• Classification: OXIDOREDUCTASE(H2O2(A))
• Organism(s): Saccharomyces cerevisiae
• Mutation(s): No 


• Deposited: 1994-05-04 Released: 1994-07-31 
• Deposition Author(s): Mcree, D.E., Jensen, G.M., Fitzgerald, M.M., Siegel, H.A., Goodin, D.B.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Work: 0.190 
• R-Value Observed: 0.190 

Literature

Construction of a bisaquo heme enzyme and binding by exogenous ligands.

McRee, D.E., Jensen, G.M., Fitzgerald, M.M., Siegel, H.A., Goodin, D.B.

(1994) Proc Natl Acad Sci U S A 91: 12847-12851

• PubMed: 7809133 
• DOI: 10.1073/pnas.91.26.12847
• Primary Citation of Related Structures:  
  1CCE, 1CCG


• PubMed Abstract: 
  

The crystal structure of the His-175-->Gly (H175G) mutant of cytochrome-c peroxidase (EC 1.11.1.5), missing its only heme ligand, reveals that the histidine is replaced by solvent to give a bisaquo heme protein. This protein retains some residual activity, which can be stimulated or inhibited by addition of exogenous ligands. Structural analysis confirms the binding of imidazole to the heme at the position of the wild-type histidine ligand. This imidazole complex reacts readily with hydrogen peroxide to produce a radical species with novel properties. However, reactivation in this complex is incomplete (approximately 5%), which, in view of the very similar structures of the wild-type and the H175G/imidazole forms, implies a critical role for tethering of the axial ligand in catalysis. This study demonstrates the feasibility of constructing heme enzymes with no covalent link to the protein and with unnatural ligand replacements. Such enzymes may prove useful in studies of electron transfer mechanisms and in the engineering of novel heme-based catalysts.

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Related Citations: 

• The Asp-His-Fe Triad of Cytochrome C Peroxidase Controls the Reduction Potential, Electronic Structure and Coupling of the Tryptophan Free-Radical to the Heme
  Goodin, D.B., Mcree, D.E.
  (1993) Biochemistry 32: 3313

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Organizational Affiliation: 

Department of Molecular Biology, Scripps Research Institute, La Jolla, CA 92037.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CYTOCHROME C PEROXIDASE	A	291	Saccharomyces cerevisiae	Mutation(s): 0  EC: 1.11.1.5
UniProt
Find proteins for P00431 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P00431  Go to UniProtKB:  P00431

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	B [auth A]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
IMD	C [auth A]	IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Work: 0.190 
• R-Value Observed: 0.190 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 105.2	α = 90
b = 74.3	β = 90
c = 45.4	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1994-05-04 
• Released Date: 1994-07-31 
Deposition Author(s): Mcree, D.E., Jensen, G.M., Fitzgerald, M.M., Siegel, H.A., Goodin, D.B.

Revision History  

• Version 1.0: 1994-07-31
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-11-29
  Changes: Derived calculations, Other