3EOK | pdb_00003eok

Crystal structure determination of duck (Anas platyrhynchos) hemoglobin at 2.1 Angstrom resolution

• PDB DOI: https://doi.org/10.2210/pdb3EOK/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Anas platyrhynchos
• Mutation(s): No 


• Deposited: 2008-09-28 Released: 2009-10-06 
• Deposition Author(s): Sathya Moorthy, Pon., Neelagandan, K., Balasubramanian, M., Ponnuswamy, M.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.252 (Depositor), 0.243 (DCC) 
• R-Value Work: 
  0.195 (Depositor) 
• R-Value Observed: 
  0.201 (Depositor) 

Literature

Structure determination of haemoglobin from Turkey(meleagris gallopavo) at 2.8 Angstrom resolution

Sathya Moorthy, Pon., Neelagandan, K., 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.

Macromolecule Content 

• Total Structure Weight: 32.83 kDa 
• Atom Count: 2,382 
• 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	Anas platyrhynchos	Mutation(s): 0
UniProt
Find proteins for P01986 (Anas platyrhynchos) Explore P01986  Go to UniProtKB:  P01986

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemoglobin subunit beta	B	146	Anas platyrhynchos	Mutation(s): 0
UniProt
Find proteins for P02114 (Anas platyrhynchos) Explore P02114  Go to UniProtKB:  P02114

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: 2.10 Å
• R-Value Free:  0.252 (Depositor), 0.243 (DCC) 
• R-Value Work:  0.195 (Depositor) 
• R-Value Observed: 0.201 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.891	α = 90
b = 109.415	β = 90
c = 92.065	γ = 90

Software Package:

Software Name	Purpose
MAR345	data collection
AMoRE	phasing
REFMAC	refinement
AUTOMAR	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-10-06 
Deposition Author(s): Sathya Moorthy, Pon., Neelagandan, K., Balasubramanian, M., Ponnuswamy, M.N.

Revision History  

• Version 1.0: 2009-10-06
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2019-12-18
  Changes: Derived calculations
• Version 1.4: 2024-03-20
  Changes: Data collection, Database references, Derived calculations