3MJU | pdb_00003mju

Crystal structure determination of pigeon (columba livia) haemoglobin at 3.5 angstrom resolution

• PDB DOI: https://doi.org/10.2210/pdb3MJU/pdb

• Classification: Oxygen Storage, Oxygen Transport
• Organism(s): Columba livia
• Mutation(s): No 


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

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free: 
  0.312 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.236 (Depositor), 0.240 (DCC) 
• R-Value Observed: 
  0.243 (Depositor) 

Starting Model: experimental

Literature

Crystal structure determination of pigeon (columba livia) haemoglobin at 3.5 angstrom resolution

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

Macromolecule Content 

• Total Structure Weight: 32.57 kDa 
• Atom Count: 2,306 
• Modeled Residue Count: 287 
• Deposited Residue Count: 287 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemoglobin subunit alpha-A	A	141	Columba livia	Mutation(s): 0
UniProt
Find proteins for P21871 (Columba livia) Explore P21871  Go to UniProtKB:  P21871

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemoglobin subunit beta	B	146	Columba livia	Mutation(s): 0
UniProt
Find proteins for P11342 (Columba livia) Explore P11342  Go to UniProtKB:  P11342

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free:  0.312 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.236 (Depositor), 0.240 (DCC) 
• R-Value Observed: 0.243 (Depositor) 

Space Group: P 4₂ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.061	α = 90
b = 82.061	β = 90
c = 106.095	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): Sathya Moorthy, P., Balasubramanian, M., Thenmozhi, 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: 2019-12-18
  Changes: Derived calculations
• Version 1.4: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description