4C44 | pdb_00004c44

Crystal Structure of Truncated Plant Hemoglobin from Arabidopsis thaliana

• PDB DOI: https://doi.org/10.2210/pdb4C44/pdb

• Classification: OXYGEN BINDING
• Organism(s): Arabidopsis thaliana
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-08-30 Released: 2014-09-17 
• Deposition Author(s): Mukhi, N., Dhindwal, S., Kumar, P., Kaur, J., Kundu, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 
  0.252 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.203 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.205 (Depositor) 

Starting Model: experimental

Literature

X-Ray Crystallographic Structural Characteristics of Truncated Hemoglobin from Arabidopsis Thaliana

Mukhi, N., Dhindwal, S., Kumar, P., Kaur, J., Kundu, 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)

Macromolecule Content 

• Total Structure Weight: 20.86 kDa 
• Atom Count: 1,308 
• Modeled Residue Count: 150 
• Deposited Residue Count: 175 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
2-ON-2 HEMOGLOBIN	A	175	Arabidopsis thaliana	Mutation(s): 0
UniProt
Find proteins for Q67XG0 (Arabidopsis thaliana) Explore Q67XG0  Go to UniProtKB:  Q67XG0

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
NA	C [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free:  0.252 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.203 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.205 (Depositor) 

Space Group: P 4₃ 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.085	α = 90
b = 122.085	β = 90
c = 122.085	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-09-17 
Deposition Author(s): Mukhi, N., Dhindwal, S., Kumar, P., Kaur, J., Kundu, S.

Revision History  

• Version 1.0: 2014-09-17
  Type: Initial release
  
• Version 1.1: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description