3MJP | pdb_00003mjp

Crystal structure determination of Japanese quail (Coturnix coturnix japonica) hemoglobin at 2.76 Angstrom resolution

• PDB DOI: https://doi.org/10.2210/pdb3MJP/pdb

• Classification: OXYGEN STORAGE, OXYGEN TRANSPORT
• Organism(s): Coturnix japonica
• Mutation(s): No 


• Deposited: 2010-04-13 Released: 2010-12-08 
• Deposition Author(s): Thenmozhi, M., Sathya Moorthy, P., Balasubramanian, M., Ponnuswamy, M.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.76 Å
• R-Value Free: 
  0.287 (Depositor), 0.300 (DCC) 
• R-Value Work: 
  0.265 (Depositor), 0.260 (DCC) 
• R-Value Observed: 
  0.268 (Depositor) 

Literature

Crystal structure determination of Japanese quail (Coturnix coturnix japonica) hemoglobin at 2.76 Angstrom resolution

Thenmozhi, M., Sathya Moorthy, P., Balasubramanian, M., Ponnuswamy, M.N.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 Pseudo Symmetry: Dihedral - D2  (Explore in 3D)
Pseudo Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content 

• Total Structure Weight: 65.68 kDa 
• Atom Count: 4,661 
• Modeled Residue Count: 574 
• Deposited Residue Count: 574 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemoglobin subunit alpha-A	A, C	141	Coturnix japonica	Mutation(s): 0
UniProt
Find proteins for P24589 (Coturnix japonica) Explore P24589  Go to UniProtKB:  P24589

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemoglobin subunit beta	B, D	146	Coturnix japonica	Mutation(s): 0
UniProt
Find proteins for P30893 (Coturnix japonica) Explore P30893  Go to UniProtKB:  P30893

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	E [auth A], G [auth B], I [auth C], K [auth D]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
OXY	F [auth A], H [auth B], J [auth C]	OXYGEN MOLECULE O2 MYMOFIZGZYHOMD-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.76 Å
• R-Value Free:  0.287 (Depositor), 0.300 (DCC) 
• R-Value Work:  0.265 (Depositor), 0.260 (DCC) 
• R-Value Observed: 0.268 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.09	α = 90
b = 97.434	β = 123.1
c = 61.705	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
PHASER	phasing
REFMAC	refinement
AUTOMAR	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-12-08 
Deposition Author(s): Thenmozhi, M., Sathya Moorthy, P., Balasubramanian, M., Ponnuswamy, M.N.

Revision History  

• Version 1.0: 2010-12-08
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2018-06-20
  Changes: Data collection, Database references, Structure summary
• Version 1.3: 2024-03-20
  Changes: Data collection, Database references, Derived calculations