1GDL

CRYSTAL STRUCTURE OF FERRIC COMPLEXES OF THE YELLOW LUPIN LEGHEMOGLOBIN WITH ISOQUINOLINE AT 1.8 ANGSTROMS RESOLUTION (RUSSIAN)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Observed: 0.175 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The binding of carbon monoxide and nitric oxide to leghaemoglobin in comparison with other haemoglobins.

Harutyunyan, E.H.Safonova, T.N.Kuranova, I.P.Popov, A.N.Teplyakov, A.V.Obmolova, G.V.Valnshtein, B.K.Dodson, G.G.Wilson, J.C.

(1996) J Mol Biol 264: 152-161

  • DOI: 10.1006/jmbi.1996.0630
  • Primary Citation of Related Structures:  
    1GDL, 1GDI

  • PubMed Abstract: 
  • Haemoglobins have the ability to discriminate between oxygen and other diatomic molecules. To further understanding of this process the X-ray crystal structures of carbonmonoxy and nitrosyl-leghaemoglobin have been determined at 1.8 A resolution. The ligand geometry is discussed in detail and the controversial issue of bent versus linear carbon monoxide binding is addressed ...

    Haemoglobins have the ability to discriminate between oxygen and other diatomic molecules. To further understanding of this process the X-ray crystal structures of carbonmonoxy and nitrosyl-leghaemoglobin have been determined at 1.8 A resolution. The ligand geometry is discussed in detail and the controversial issue of bent versus linear carbon monoxide binding is addressed. The bond angle of 160 degrees for CO-leghaemoglobin is in conflict with recent spectroscopy results on myoglobin but is consistent with angles obtained for myoglobin X-ray crystal structures. In contrast to the numerous carbon monoxide studies, very little stereochemical information is available for the nitric oxide adduct of haemoglobin. This is provided by the X-ray structure of NO-leghaemoglobin, which conforms to expected geometry with an Fe-NO angle of 147 degrees and a lengthened iron-proximal histidine bond. Thus crystallographic evidence is given for the predicted weakening of this bond on the binding of nitric oxide.


    Related Citations: 
    • X-Ray Structure of Ferrous Complexes of the Yellow Lupin Leghemoglobin with Co and No at 1.8 Angstroms Resolution (Russian)
      Obmolova, G.V., Safonova, T.N., Teplyakov, A.V., Popov, A.N., Kuranova, I.P., Harutyunyan, E.G., Vainshtein, B.K.
      (1988) Bioorg Khim 14: 1509
    • X-Ray Structural Investigation of Leghemoglobin. Vi. Structure of Acetate-Ferrileghemoglobin at a Resolution of 2.0 Angstroms (Russian)
      Arutyunyan, E.G., Kuranova, I.P., Vainshtein, B.K., Steigemann, W.
      (1980) Кристаллография 25: 80
    • X-Ray Structural Investigation of Leghemoglobin. Vi. Structure of Acetate-Ferrileghemoglobin at a Resolution of 2.0 Angstroms
      Arutyunyan, E.G., Kuranova, I.P., Vainshtein, B.K., Steigemann, W.
      (1980) Sov Phys Crystallogr (engl Transl ) 25: 43
    • X-Ray Diffraction Study of Leghemoglobin. Iv. Determination of the Structure with 2.8 Angstroms Resolution (Russian)
      Vainshtein, B.K., Arutyunyan, E.G., Kuranova, I.P., Borisov, V.V., Sosfenov, N.I., Pavlovskii, A.G., Grebenko, A.I., Nekrasov, Yu.V.
      (1978) Кристаллография 23: 517
    • X-Ray Structural Investigation of Leghemoglobin. Iv. Structure Determination at a Resolution of 2.8 Angstroms
      Vainshtein, B.K., Arutyunyan, E.G., Kuranova, I.P., Borisov, V.V., Sosfenov, N.I., Pavlovskii, A.G., Grebenko, A.I., Nekrasov, Yu.V.
      (1978) Sov Phys Crystallogr (engl Transl ) 23: 287
    • Spatial Structure of Lupine Leghemoglobin with the 2.8 Angstroms Resolution (Russian)
      Vainshtein, B.K., Arutiunian, E.G., Kuranova, I.P., Borisov, V.V., Sosfenov, N.I., Pavlovskii, A.G., Grebenko, A.I., Konareva, N.V., Nekrasov, Iu.V.
      (1977) Dokl Akad Nauk SSSR 233: 238
    • Three-Dimensional Structure of Lupine Leghemoglobin with a Resolution of 2.8 Angstroms
      Vainshtein, B.K., Arutyunyan, E.G., Kuranova, I.P., Borisov, V.V., Sosfenov, N.I., Pavlovskii, A.G., Grebenko, A.I., Konareva, N.V., Nekrasov, Yu.V.
      (1977) Dokl Biochem 233: 67
    • X-Ray Structural Study of Leghemoglobin. III. Crystallographic Data on the Structure of the First Component (Russian)
      Arutyunyan, E.G., Kuranova, I.P., Grebenko, A.I., Voronova, A.A.
      (1977) Кристаллография 22: 634
    • X-Ray Structural Study of Leghemoglobin. III. Crystallographic Data Regarding the Structure of the First Component
      Arutyunyan, E.G., Kuranova, I.P., Grebenko, A.I., Voronova, A.A.
      (1977) Sov Phys Crystallogr (engl Transl ) 22: 362
    • The Haem-Accessibility in Leghaemoglobin of Lupinus Luteus as Observed by Proton Magnetic Relaxation
      Vuk-Pavlovic, S., Benko, B., Maricic, S., Lahajnar, G., Kuranova, I.P., Vainshtein, B.K.
      (1976) Int J Pept Protein Res 8: 427
    • X-Ray Study of Leghemoglobin. II. Determination of the Structure with Resolution of 5 Angstroms
      Vainshtein, B.K., Arutyunyan, E.G., Kuranova, I.P., Borisov, V.V., Sosfenov, N.I., Pavlovskii, A.G., Grebenko, A.I., Konareva, N.V.
      (1975) Sov Phys Crystallogr (engl Transl ) 19: 602
    • X-Ray Study of Leghemoglobin. I.Purification, Crystallization, and Preparation of Derivatives Containing Heavy Atoms
      Vainshtein, B.K., Arutyunyan, E.G., Kuranova, I.P., Borisov, V.V., Sosfenov, N.I., Pavlovskii, A.G., Grebenko, A.I., Konareva, N.V.
      (1975) Sov Phys Crystallogr (engl Transl ) 19: 598
    • Structure of Leghaemoglobin from Lupin Root Nodules at 5 Angstroms Resolution
      Vainshtein, B.K., Harutyunyan, E.H., Kuranova, I.P., Borisov, V.V., Sosfenov, N.I., Pavlovsky, A.G., Grebenko, A.I., Konareva, N.V.
      (1975) Nature 254: 163
    • The X-Ray Structural Study of Leghemoglobin. II. Determination of the Structure at 5 Angstroms Resolution (Russian)
      Vainshtein, B.K., Arutyunyan, E.G., Kuranova, I.P., Borisov, V.V., Sosfenov, N.I., Pavlovskii, A.G., Grebenko, A.I., Konareva, N.V.
      (1974) Кристаллография 19: 971
    • The X-Ray Structural Study of Leghemoglobin. I. Purification, Crystallization, and Production of Derivatives Containing Heavy Atoms (Russian)
      Vainshtein, B.K., Arutyunyan, E.G., Kuranova, I.P., Borisov, V.V., Sosfenov, N.I., Pavlovskii, A.G., Grebenko, A.I., Konareva, N.V.
      (1974) Кристаллография 19: 964
    • X-Ray Determination of Three-Dimensional Structure of Leghemoglobin from Lupinus Luteus L. At 5 Angstroms Resolution (Russian)
      Vainshtein, B.K., Arutiunian, E.G., Kuranova, I.P., Borisov, V.V., Sosfenov, N.I., Pavlovskii, A.G., Grebenko, A.I., Konareva, N.V.
      (1974) Dokl Akad Nauk SSSR 216: 690
    • X-Ray Diffraction Determination of the Three-Dimensional Structure of Leghemoglobin of Lupinus Luteus L. With 5 Angstroms Resolution
      Vainshtein, B.K., Arutyunyan, E.G., Kuranova, I.P., Borisov, V.V., Sosfenov, N.I., Pavlovskii, A.G., Grebenko, A.I., Konareva, N.V.
      (1974) Dokl Biochem 216: 226
    • Cell Parameters of Crystalline Plant (Lupinus Luteus (Lupine)) Hemoglobin (Russian)
      Arutyunyan, E.G., Zaitsev, V.N., Zhiznevskaya, G.Ya., Borodenko, L.I.
      (1971) Кристаллография 16: 237
    • Unit-Cell Parameters of Crystalline Plant Hemoglobin
      Arutyunyan, E.G., Zaitsev, V.N., Zhiznevskaya, G.Ya., Borodenko, L.I.
      (1971) Sov Phys Crystallogr (engl Transl ) 16: 193

    Organizational Affiliation

    Institute of Crystallography, Russian Academy of Sciences, Moscow, Russia.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
LEGHEMOGLOBIN (NITROGEN MONOXY)A153Lupinus luteusMutation(s): 0 
Find proteins for P02240 (Lupinus luteus)
Explore P02240 
Go to UniProtKB:  P02240
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HEM
Query on HEM

Download Ideal Coordinates CCD File 
B [auth A]PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
NO
Query on NO

Download Ideal Coordinates CCD File 
C [auth A]NITRIC OXIDE
N O
ODUCDPQEXGNKDN-UHFFFAOYAM
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Observed: 0.175 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 93.47α = 90
b = 51.98β = 98.8
c = 38.32γ = 90
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1995-02-27
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-11-29
    Changes: Derived calculations, Other