1JY7

THE STRUCTURE OF HUMAN METHEMOGLOBIN. THE VARIATION OF A THEME


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.204 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structures of human oxy- and deoxyhaemoglobin at different levels of humidity: variability in the T state.

Biswal, B.K.Vijayan, M.

(2002) Acta Crystallogr.,Sect.D 58: 1155-1161

  • Primary Citation of Related Structures:  
  • Also Cited By: 2ZLX, 2ZLW, 2ZLV, 2ZLU, 2ZLT

  • PubMed Abstract: 
  • High-salt crystals of human oxy- and deoxyhaemoglobin have been studied at different levels of environmental humidity and solvent content. The structure of the oxy form remains relatively unchanged at all levels. The deoxy form, however, undergoes a ...

    High-salt crystals of human oxy- and deoxyhaemoglobin have been studied at different levels of environmental humidity and solvent content. The structure of the oxy form remains relatively unchanged at all levels. The deoxy form, however, undergoes a water-mediated transformation when the relative humidity around the crystals is reduced below 93%. The space group is maintained during the transformation, but the unit-cell volume nearly doubles, with two tetrameric molecules in the asymmetric unit of the low-humidity form compared with one in the native crystals. Interestingly, the haem geometry in the low-humidity form is closer to that in the oxy form than to that in the native deoxy form. The quaternary structure of one of the tetramers moves slightly towards that in the oxy form, while that in the other is more different from the oxy form than that in the high-salt native deoxy form. Thus, it would appear that, as in the case of the liganded form, the deoxy form of haemoglobin can also access an ensemble of related T states.


    Related Citations: 
    • Structure of human oxyhaemoglobin at 2.1 A resolution
      Shaanan, B.
      (1983) J.Mol.Biol. 171: 31
    • A third quaternary structure of human hemoglobin A at 1.7-A resolution
      Silva, M.M.,Rogers, P.H.,Arnone, A.
      (1992) J.Biol.Chem. 267: 17248
    • The Crystal Structure of Human Deoxyhemoglobin at 1.74 Angstroms Resolution
      Fermi, G.,Perutz, M.F.,Shaanan, B.,Fourme, R.
      (1984) J.Mol.Biol. 175: 159
    • Structure of human methaemoglobin: The variation of a theme
      Biswal, B.K.,Vijayan, M.
      (2001) Curr.Sci. 81: 1100


    Organizational Affiliation

    Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012, India.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Hemoglobin alpha chain
A, C, P, R, U, W
141Homo sapiensMutation(s): 0 
Gene Names: HBA1, HBA2
Find proteins for P69905 (Homo sapiens)
Go to Gene View: HBA1 HBA2
Go to UniProtKB:  P69905
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Hemoglobin beta chain
B, D, Q, S, V, X
146Homo sapiensMutation(s): 0 
Gene Names: HBB
Find proteins for P68871 (Homo sapiens)
Go to Gene View: HBB
Go to UniProtKB:  P68871
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HEM
Query on HEM

Download SDF File 
Download CCD File 
A, B, C, D, P, Q, R, S, U, V, W, X
PROTOPORPHYRIN IX CONTAINING FE
HEME
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.204 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 231.500α = 90.00
b = 57.900β = 101.20
c = 143.400γ = 90.00
Software Package:
Software NamePurpose
AMoREphasing
DENZOdata reduction
CNSrefinement
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-03-11
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance