Biological Assembly 1  

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

Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content

• Total Structure Weight: 241.81 kDa 
• Atom Count: 16813 
• Modelled Residue Count: 1918 
• Deposited Residue Count: 2108 
• Unique protein chains: 1

1F4J

STRUCTURE OF TETRAGONAL CRYSTALS OF HUMAN ERYTHROCYTE CATALASE

• PDB DOI: 10.2210/pdb1F4J/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 2000-06-07 Released: 2000-06-21 
• Deposition Author(s): Safo, M.K., Musayev, F.N., Wu, S.H., Abraham, D.J., Ko, T.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.244 
• R-Value Work: 0.196 
• R-Value Observed: 0.200 

Literature

Structure of tetragonal crystals of human erythrocyte catalase.

Safo, M.K., Musayev, F.N., Wu, S.H., Abraham, D.J., Ko, T.P.

(2001) Acta Crystallogr D Biol Crystallogr 57: 1-7

• PubMed: 11134921 
• DOI: 10.1107/s0907444900013767
• Primary Citation of Related Structures:  
  1F4J


• PubMed Abstract: 
  

The structure of catalase from human erythrocytes (HEC) was determined in tetragonal crystals of space group I4(1) by molecular-replacement methods, using the orthorhombic crystal structure as a search model. It was then refined in a unit cell of dimensions a = b = 203.6 and c = 144.6 A, yielding R and R(free) of 0.196 and 0.244, respectively, for all data at 2.4 A resolution. A major difference of the HEC structure in the tetragonal crystal compared with the orthorhombic structure was the omission of a 20-residue N-terminal segment corresponding to the first exon of the human catalase gene. The overall structures were otherwise identical in both crystal forms. The NADPH-binding sites were empty in all four subunits and bound water molecules were observed at the active sites. The structure of the C-terminal segment, which corresponds to the last exon, remained undetermined. The tetragonal crystals showed a pseudo-4(1)22 symmetry in molecular packing. Two similar types of lattice contact interfaces between the HEC tetramers were observed; they were related by the pseudo-dyad axes.

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Related Citations: 

• Structure of Human Erythrocyte Catalase
  Ko, T.P., Safo, M.K., Musayev, F.N., Di Salvo, M.L., Wang, C., Wu, S.H., Abraham, D.J.
  (2000) Acta Crystallogr D Biol Crystallogr 56: 241

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Organizational Affiliation: 

Institute for Structural Biology and Drug Discovery, Virginia Commonwealth University, Richmond, VA 23219, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CATALASE	A, B, C, D	527	Homo sapiens	Mutation(s): 0  Gene Names: CAT EC: 1.11.1.6
UniProt & NIH Common Fund Data Resources
Find proteins for P04040 (Homo sapiens) Explore P04040  Go to UniProtKB:  P04040
PHAROS:  P04040

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	E [auth A], F [auth B], G [auth C], H [auth D]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.244 
• R-Value Work: 0.196 
• R-Value Observed: 0.200 
• Space Group: I 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 203.6	α = 90
b = 203.6	β = 90
c = 144.6	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
CNS	refinement
bioteX	data reduction
bioteX	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-06-07 
• Released Date: 2000-06-21 
Deposition Author(s): Safo, M.K., Musayev, F.N., Wu, S.H., Abraham, D.J., Ko, T.P.

Revision History  

• Version 1.0: 2000-06-21
  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: 2017-10-04
  Changes: Refinement description