[English] 日本語
![](img/lk-miru.gif)
- PDB-1gdl: CRYSTAL STRUCTURE OF FERRIC COMPLEXES OF THE YELLOW LUPIN LEGHEMO... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 1gdl | ||||||
---|---|---|---|---|---|---|---|
Title | CRYSTAL STRUCTURE OF FERRIC COMPLEXES OF THE YELLOW LUPIN LEGHEMOGLOBIN WITH ISOQUINOLINE AT 1.8 ANGSTROMS RESOLUTION (RUSSIAN) | ||||||
![]() | LEGHEMOGLOBIN (NITROGEN MONOXY) | ||||||
![]() | OXYGEN TRANSPORT | ||||||
Function / homology | ![]() response to nitrate / oxygen carrier activity / oxygen binding / heme binding / nucleus / metal ion binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() | ||||||
![]() | Harutyunyan, E. / Safonova, T. / Kuranova, I. | ||||||
![]() | ![]() Title: The binding of carbon monoxide and nitric oxide to leghaemoglobin in comparison with other haemoglobins. Authors: 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. #1: ![]() Title: X-Ray Structure of Ferrous Complexes of the Yellow Lupin Leghemoglobin with Co and No at 1.8 Angstroms Resolution (Russian) Authors: Obmolova, G.V. / Safonova, T.N. / Teplyakov, A.V. / Popov, A.N. / Kuranova, I.P. / Harutyunyan, E.G. / Vainshtein, B.K. #2: ![]() Title: X-Ray Structural Investigation of Leghemoglobin. Vi. Structure of Acetate-Ferrileghemoglobin at a Resolution of 2.0 Angstroms (Russian) Authors: Arutyunyan, E.G. / Kuranova, I.P. / Vainshtein, B.K. / Steigemann, W. #3: ![]() Title: X-Ray Structural Investigation of Leghemoglobin. Vi. Structure of Acetate-Ferrileghemoglobin at a Resolution of 2.0 Angstroms Authors: Arutyunyan, E.G. / Kuranova, I.P. / Vainshtein, B.K. / Steigemann, W. #4: ![]() Title: X-Ray Diffraction Study of Leghemoglobin. Iv. Determination of the Structure with 2.8 Angstroms Resolution (Russian) Authors: Vainshtein, B.K. / Arutyunyan, E.G. / Kuranova, I.P. / Borisov, V.V. / Sosfenov, N.I. / Pavlovskii, A.G. / Grebenko, A.I. / Nekrasov, Yu.V. #5: ![]() Title: X-Ray Structural Investigation of Leghemoglobin. Iv. Structure Determination at a Resolution of 2.8 Angstroms Authors: Vainshtein, B.K. / Arutyunyan, E.G. / Kuranova, I.P. / Borisov, V.V. / Sosfenov, N.I. / Pavlovskii, A.G. / Grebenko, A.I. / Nekrasov, Yu.V. #6: ![]() Title: Spatial Structure of Lupine Leghemoglobin with the 2.8 Angstroms Resolution (Russian) Authors: 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. #7: ![]() Title: Three-Dimensional Structure of Lupine Leghemoglobin with a Resolution of 2.8 Angstroms Authors: 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. #8: ![]() Title: X-Ray Structural Study of Leghemoglobin. III. Crystallographic Data on the Structure of the First Component (Russian) Authors: Arutyunyan, E.G. / Kuranova, I.P. / Grebenko, A.I. / Voronova, A.A. #9: ![]() Title: X-Ray Structural Study of Leghemoglobin. III. Crystallographic Data Regarding the Structure of the First Component Authors: Arutyunyan, E.G. / Kuranova, I.P. / Grebenko, A.I. / Voronova, A.A. #10: ![]() Title: The Haem-Accessibility in Leghaemoglobin of Lupinus Luteus as Observed by Proton Magnetic Relaxation Authors: Vuk-Pavlovic, S. / Benko, B. / Maricic, S. / Lahajnar, G. / Kuranova, I.P. / Vainshtein, B.K. #11: ![]() Title: X-Ray Study of Leghemoglobin. II. Determination of the Structure with Resolution of 5 Angstroms Authors: Vainshtein, B.K. / Arutyunyan, E.G. / Kuranova, I.P. / Borisov, V.V. / Sosfenov, N.I. / Pavlovskii, A.G. / Grebenko, A.I. / Konareva, N.V. #12: ![]() Title: X-Ray Study of Leghemoglobin. I.Purification, Crystallization, and Preparation of Derivatives Containing Heavy Atoms Authors: Vainshtein, B.K. / Arutyunyan, E.G. / Kuranova, I.P. / Borisov, V.V. / Sosfenov, N.I. / Pavlovskii, A.G. / Grebenko, A.I. / Konareva, N.V. #13: ![]() Title: Structure of Leghaemoglobin from Lupin Root Nodules at 5 Angstroms Resolution Authors: Vainshtein, B.K. / Harutyunyan, E.H. / Kuranova, I.P. / Borisov, V.V. / Sosfenov, N.I. / Pavlovsky, A.G. / Grebenko, A.I. / Konareva, N.V. #14: ![]() Title: The X-Ray Structural Study of Leghemoglobin. II. Determination of the Structure at 5 Angstroms Resolution (Russian) Authors: Vainshtein, B.K. / Arutyunyan, E.G. / Kuranova, I.P. / Borisov, V.V. / Sosfenov, N.I. / Pavlovskii, A.G. / Grebenko, A.I. / Konareva, N.V. #15: ![]() Title: The X-Ray Structural Study of Leghemoglobin. I. Purification, Crystallization, and Production of Derivatives Containing Heavy Atoms (Russian) Authors: Vainshtein, B.K. / Arutyunyan, E.G. / Kuranova, I.P. / Borisov, V.V. / Sosfenov, N.I. / Pavlovskii, A.G. / Grebenko, A.I. / Konareva, N.V. #16: ![]() Title: X-Ray Determination of Three-Dimensional Structure of Leghemoglobin from Lupinus Luteus L. At 5 Angstroms Resolution (Russian) Authors: Vainshtein, B.K. / Arutiunian, E.G. / Kuranova, I.P. / Borisov, V.V. / Sosfenov, N.I. / Pavlovskii, A.G. / Grebenko, A.I. / Konareva, N.V. #17: ![]() Title: X-Ray Diffraction Determination of the Three-Dimensional Structure of Leghemoglobin of Lupinus Luteus L. With 5 Angstroms Resolution Authors: Vainshtein, B.K. / Arutyunyan, E.G. / Kuranova, I.P. / Borisov, V.V. / Sosfenov, N.I. / Pavlovskii, A.G. / Grebenko, A.I. / Konareva, N.V. #18: ![]() Title: Cell Parameters of Crystalline Plant (Lupinus Luteus (Lupine)) Hemoglobin (Russian) Authors: Arutyunyan, E.G. / Zaitsev, V.N. / Zhiznevskaya, G.Ya. / Borodenko, L.I. #19: ![]() Title: Unit-Cell Parameters of Crystalline Plant Hemoglobin Authors: Arutyunyan, E.G. / Zaitsev, V.N. / Zhiznevskaya, G.Ya. / Borodenko, L.I. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 48.2 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 34.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 473.6 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 479.4 KB | Display | |
Data in XML | ![]() | 6 KB | Display | |
Data in CIF | ![]() | 8.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 16674.070 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
---|---|
#2: Chemical | ChemComp-HEM / |
#3: Chemical | ChemComp-NO / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.76 Å3/Da / Density % sol: 55.4 % |
---|---|
Crystal grow | *PLUS Method: unknown / Details: none |
-Data collection
Radiation | Scattering type: x-ray |
---|---|
Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 1.8 Å / Lowest resolution: 8 Å / Num. obs: 11837 / % possible obs: 59 % / Observed criterion σ(F): 3 / Rmerge(I) obs: 0.1 |
-
Processing
Software | Name: PROLSQ / Classification: refinement | ||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Resolution: 1.8→8 Å / σ(F): 1 Details: THE FIRST AND LAST RESIDUES OF THE PROTEIN CHAIN ARE POORLY REVEALED IN THE ELECTRON DENSITY SYNTHESIS.
| ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.8→8 Å
| ||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.184 | ||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||
Refine LS restraints | *PLUS
|