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PDBsum entry 1v75
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protein ligands Protein-protein interface(s) links
Oxygen storage/transport PDB id
1v75

 

 

 

 

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Contents
Protein chains
141 a.a. *
142 a.a. *
Ligands
HEM ×2
Waters ×412
* Residue conservation analysis
PDB id:
1v75
Name: Oxygen storage/transport
Title: Crystal structure of hemoglobin d from the aldabra giant tortoise (geochelone gigantea) at 2.0 a resolution
Structure: Hemoglobin d alpha chain. Chain: a. Synonym: hemoglobin alpha-d chain. Hemoglobin a and d beta chain. Chain: b. Synonym: hemoglobin beta chain
Source: Dipsochelys dussumieri. Aldabra giant tortoise. Organism_taxid: 167804. Tissue: red blood cell. Tissue: red blood cell
Biol. unit: Tetramer (from PDB file)
Resolution:
2.02Å     R-factor:   0.188     R-free:   0.233
Authors: T.Kuwada,T.Hasegawa,I.Satoh,K.Ishikawa,F.Shishikura
Key ref: T.Kuwada et al. (2003). Crystallization and preliminary X-ray diffraction study of hemoglobin D from the Aldabra giant tortoise, Geochelone gigantea. Protein Pept Lett, 10, 422-425. PubMed id: 14529497
Date:
12-Dec-03     Release date:   30-Dec-03    
PROCHECK
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 Headers
 References

Protein chain
Pfam   ArchSchema ?
P83134  (HBAD_ALDGI) -  Hemoglobin D subunit alpha from Aldabrachelys gigantea
Seq:
Struc: 		141 a.a.
141 a.a.
Protein chain
Pfam   ArchSchema ?
P83133  (HBB_ALDGI) -  Hemoglobin A/D subunit beta from Aldabrachelys gigantea
Seq:
Struc: 		146 a.a.
142 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 

 
Protein Pept Lett 10:422-425 (2003)
PubMed id: 14529497  
 
 
Crystallization and preliminary X-ray diffraction study of hemoglobin D from the Aldabra giant tortoise, Geochelone gigantea.
T.Kuwada, T.Hasegawa, I.Satoh, K.Ishikawa, F.Shishikura.
 
  ABSTRACT  
 
Hemoglobin D (Hb D) from the Aldabra giant tortoise, Geochelone gigantea, was crystallized by the hanging drop vapor diffusion technique with a precipitant solution containing 10% polyethylene glycol 3350 and 50 mM HEPES-Na, pH 7.5. The Hb D crystals of G. gigantea, which diffract to at least a 2.0 A resolution, belong to the monoclinic space group C2 with unit cell dimensions of a = 112.1 A, b = 62.4 A, c = 54.0 A, and beta = 110.3 degrees. One alphabeta dimer molecule of Hb D existed in an asymmetric unit, with a calculated value of Vm of 2.77 A(3)Da(-1).
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
21445850 T.Hasegawa, F.Shishikura, and T.Kuwada (2011).
Side-necked turtle (Pleurodira, Chelonia, reptilia) hemoglobin: cDNA-derived primary structures and X-ray crystal structures of Hb A.
  IUBMB Life, 63, 188-196.
PDB codes: 3at5 3at6
18085430 G.Lutfullah, H.S.Khalil, F.Amin, and N.Azhar (2008).
Low oxygen affinity in reptilian hemoglobin D: prediction of residue interactions in Geochelone carbonaria HbD by homology modeling.
  Protein J, 27, 141-150.  
16782791 P.J.Kundrotas, and E.Alexov (2006).
Electrostatic properties of protein-protein complexes.
  Biophys J, 91, 1724-1736.  
16143550 F.Shishikura, H.A.Takeuchi, and T.Nagai (2005).
Axolotl hemoglobin: cDNA-derived amino acid sequences of two alpha globins and a beta globin from an adult Ambystoma mexicanum.
  Comp Biochem Physiol B Biochem Mol Biol, 142, 258-268.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB codes are shown on the right.

 

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