3LQD | pdb_00003lqd

Crystal structure determination of Lepus europaeus 2.8 A resolution

• PDB DOI: https://doi.org/10.2210/pdb3LQD/pdb

• Classification: OXYGEN TRANSPORT
• Organism(s): Lepus europaeus
• Mutation(s): No 


• Deposited: 2010-02-09 Released: 2011-02-09 
• Deposition Author(s): Thenmozhi, M., Sathya Moothy, Pon., Balasubramanian, M., Ponnuswamy, M.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.279 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.219 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.225 (Depositor) 

Starting Model: experimental

Literature

Crystal structure determination of Lepus europaeus 2.8 A resolution

Sathya Moothy, Pon., Thenmozhi, M., 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: 65.41 kDa 
• Atom Count: 4,620 
• 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, C	141	Lepus europaeus	Mutation(s): 0
UniProt
Find proteins for F2Z285 (Lepus europaeus) Explore F2Z285  Go to UniProtKB:  F2Z285

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemoglobin subunit beta	B, D	146	Lepus europaeus	Mutation(s): 0
UniProt
Find proteins for P08535 (Lepus europaeus) Explore P08535  Go to UniProtKB:  P08535

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], L [auth D]	OXYGEN MOLECULE O2 MYMOFIZGZYHOMD-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.279 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.219 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.225 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 118.457	α = 90
b = 54.954	β = 97.7
c = 91.38	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: 2011-02-09 
Deposition Author(s): Thenmozhi, M., Sathya Moothy, Pon., Balasubramanian, M., Ponnuswamy, M.N.

Revision History  

• Version 1.0: 2011-02-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description