1kn1: Difference between revisions

Revision as of 14:36, 21 February 2008

Crystal structure of allophycocyanin

OverviewOverview

The crystal structure of allophycocyanin from red algae Porphyra yezoensis (APC-PY) at 2.2-A resolution has been determined by the molecular replacement method. The crystal belongs to space group R32 with cell parameters a = b = 105.3 A, c = 189.4 A, alpha = beta = 90 degrees, gamma = 120 degrees. After several cycles of refinement using program X-PLOR and model building based on the electron density map, the crystallographic R-factor converged to 19.3% (R-free factor is 26.9%) in the range of 10.0 to 2.2 A. The r.m.s. deviations of bond length and angles are 0.015 A and 2.9 degrees, respectively. In the crystal, two APC-PY trimers associate face to face into a hexamer. The assembly of two trimers within the hexamer is similar to that of C-phycocyanin (C-PC) and R-phycoerythrin (R-PE) hexamers, but the assembly tightness of the two trimers to the hexamer is not so high as that in C-PC and R-PE hexamers. The chromophore-protein interactions and possible pathway of energy transfer were discussed. Phycocyanobilin 1alpha84 of APC-PY forms 5 hydrogen bonds with 3 residues in subunit 2beta of another monomer. In R-PE and C-PC, chromophore 1alpha84 only forms 1 hydrogen bond with 2beta77 residue in subunit 2beta. This result may support and explain great spectrum difference exists between APC trimer and monomer.

About this StructureAbout this Structure

1KN1 is a Protein complex structure of sequences from Porphyra yezoensis with and as ligands. Full crystallographic information is available from OCA.

ReferenceReference

Crystal structure of allophycocyanin from red algae Porphyra yezoensis at 2.2-A resolution., Liu JY, Jiang T, Zhang JP, Liang DC, J Biol Chem. 1999 Jun 11;274(24):16945-52. PMID:10358042

Page seeded by OCA on Thu Feb 21 13:35:51 2008

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OCA

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-[[Image:1kn1.gif|left|200px]]<br /><applet load="1kn1" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1kn1.gif|left|200px]]<br /><applet load="1kn1" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="1kn1, resolution 2.2&Aring;" />
 '''Crystal structure of allophycocyanin'''<br />
 ==Overview==
-The crystal structure of allophycocyanin from red algae Porphyra yezoensis, (APC-PY) at 2.2-A resolution has been determined by the molecular, replacement method. The crystal belongs to space group R32 with cell, parameters a = b = 105.3 A, c = 189.4 A, alpha = beta = 90 degrees, gamma, = 120 degrees. After several cycles of refinement using program X-PLOR and, model building based on the electron density map, the crystallographic, R-factor converged to 19.3% (R-free factor is 26.9%) in the range of 10.0, to 2.2 A. The r.m.s. deviations of bond length and angles are 0.015 A and, 2.9 degrees, respectively. In the crystal, two APC-PY trimers associate, face to face into a hexamer. The assembly of two trimers within the, hexamer is similar to that of C-phycocyanin (C-PC) and R-phycoerythrin, (R-PE) hexamers, but the assembly tightness of the two trimers to the, hexamer is not so high as that in C-PC and R-PE hexamers. The, chromophore-protein interactions and possible pathway of energy transfer, were discussed. Phycocyanobilin 1alpha84 of APC-PY forms 5 hydrogen bonds, with 3 residues in subunit 2beta of another monomer. In R-PE and C-PC, chromophore 1alpha84 only forms 1 hydrogen bond with 2beta77 residue in, subunit 2beta. This result may support and explain great spectrum, difference exists between APC trimer and monomer.
+The crystal structure of allophycocyanin from red algae Porphyra yezoensis (APC-PY) at 2.2-A resolution has been determined by the molecular replacement method. The crystal belongs to space group R32 with cell parameters a = b = 105.3 A, c = 189.4 A, alpha = beta = 90 degrees, gamma = 120 degrees. After several cycles of refinement using program X-PLOR and model building based on the electron density map, the crystallographic R-factor converged to 19.3% (R-free factor is 26.9%) in the range of 10.0 to 2.2 A. The r.m.s. deviations of bond length and angles are 0.015 A and 2.9 degrees, respectively. In the crystal, two APC-PY trimers associate face to face into a hexamer. The assembly of two trimers within the hexamer is similar to that of C-phycocyanin (C-PC) and R-phycoerythrin (R-PE) hexamers, but the assembly tightness of the two trimers to the hexamer is not so high as that in C-PC and R-PE hexamers. The chromophore-protein interactions and possible pathway of energy transfer were discussed. Phycocyanobilin 1alpha84 of APC-PY forms 5 hydrogen bonds with 3 residues in subunit 2beta of another monomer. In R-PE and C-PC, chromophore 1alpha84 only forms 1 hydrogen bond with 2beta77 residue in subunit 2beta. This result may support and explain great spectrum difference exists between APC trimer and monomer.
 ==About this Structure==
-KN1 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Porphyra_yezoensis Porphyra yezoensis] with BLA and CYC as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1KN1 OCA].
+KN1 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Porphyra_yezoensis Porphyra yezoensis] with <scene name='pdbligand=BLA:'>BLA</scene> and <scene name='pdbligand=CYC:'>CYC</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KN1 OCA].
 ==Reference==
@@ Line 13: / Line 13: @@
 [[Category: Porphyra yezoensis]]
 [[Category: Protein complex]]
-[[Category: Chang, W.R.]]
+[[Category: Chang, W R.]]
 [[Category: Jiang, T.]]
-[[Category: Liang, D.C.]]
+[[Category: Liang, D C.]]
-[[Category: Liu, J.Y.]]
+[[Category: Liu, J Y.]]
-[[Category: Zhang, J.P.]]
+[[Category: Zhang, J P.]]
 [[Category: BLA]]
 [[Category: CYC]]
 [[Category: helix-turn-helix]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 19:22:37 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:35:51 2008''