1r76: Difference between revisions
New page: left|200px<br /><applet load="1r76" size="450" color="white" frame="true" align="right" spinBox="true" caption="1r76, resolution 2.65Å" /> '''Structure of a pecta... |
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[[Image:1r76.jpg|left|200px]]<br /><applet load="1r76" size=" | [[Image:1r76.jpg|left|200px]]<br /><applet load="1r76" size="350" color="white" frame="true" align="right" spinBox="true" | ||
caption="1r76, resolution 2.65Å" /> | caption="1r76, resolution 2.65Å" /> | ||
'''Structure of a pectate lyase from Azospirillum irakense'''<br /> | '''Structure of a pectate lyase from Azospirillum irakense'''<br /> | ||
==Overview== | ==Overview== | ||
The three-dimensional structure of Azospirillum irakense pectate lyase | The three-dimensional structure of Azospirillum irakense pectate lyase (PelA) has been determined at a resolution of 2.65 A. The crystals are hexagonal, belonging to space group P6(5)22, with unit-cell parameters a = b = 85.37, c = 231.32 angstroms. Phase information was derived from a multiple-wavelength anomalous dispersion (MAD) experiment using a Hg derivative. Refinement of the model converged to Rcryst = 20.08% and Rfree = 25.87%. The overall structure of PelA does not adopt the characteristic parallel beta-helix fold displayed by pectate lyases from polysaccharide lyase (PL) families PL1, PL3 and PL9. Instead, it displays a predominantly alpha-helical structure with irregular coils and short beta-strands, similar to the recently reported structure of the catalytic module of the Cellvibrio japonicus pectate lyase Pel10Acm. The topologies of the two structures have been compared. They show two 'domains' with the interface between them being a wide-open central groove in which the active site is located. The active sites of the crystal structures are also compared and their similarities and differences are discussed. | ||
==About this Structure== | ==About this Structure== | ||
1R76 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Azospirillum_irakense Azospirillum irakense] with HG, CL, IPA and GOL as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] Full crystallographic information is available from [http:// | 1R76 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Azospirillum_irakense Azospirillum irakense] with <scene name='pdbligand=HG:'>HG</scene>, <scene name='pdbligand=CL:'>CL</scene>, <scene name='pdbligand=IPA:'>IPA</scene> and <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R76 OCA]. | ||
==Reference== | ==Reference== | ||
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[[Category: Pectate lyase]] | [[Category: Pectate lyase]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
[[Category: Armas, H | [[Category: Armas, H Novoa de.]] | ||
[[Category: Broek, A | [[Category: Broek, A Vande.]] | ||
[[Category: Desair, J.]] | [[Category: Desair, J.]] | ||
[[Category: Rabijns, A.]] | [[Category: Rabijns, A.]] | ||
[[Category: Ranter, C | [[Category: Ranter, C De.]] | ||
[[Category: Vanderleyden, J.]] | [[Category: Vanderleyden, J.]] | ||
[[Category: Verboven, C.]] | [[Category: Verboven, C.]] | ||
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[[Category: a-helical structure]] | [[Category: a-helical structure]] | ||
''Page seeded by [http:// | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:47:49 2008'' | ||
Revision as of 15:47, 21 February 2008
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Structure of a pectate lyase from Azospirillum irakense
OverviewOverview
The three-dimensional structure of Azospirillum irakense pectate lyase (PelA) has been determined at a resolution of 2.65 A. The crystals are hexagonal, belonging to space group P6(5)22, with unit-cell parameters a = b = 85.37, c = 231.32 angstroms. Phase information was derived from a multiple-wavelength anomalous dispersion (MAD) experiment using a Hg derivative. Refinement of the model converged to Rcryst = 20.08% and Rfree = 25.87%. The overall structure of PelA does not adopt the characteristic parallel beta-helix fold displayed by pectate lyases from polysaccharide lyase (PL) families PL1, PL3 and PL9. Instead, it displays a predominantly alpha-helical structure with irregular coils and short beta-strands, similar to the recently reported structure of the catalytic module of the Cellvibrio japonicus pectate lyase Pel10Acm. The topologies of the two structures have been compared. They show two 'domains' with the interface between them being a wide-open central groove in which the active site is located. The active sites of the crystal structures are also compared and their similarities and differences are discussed.
About this StructureAbout this Structure
1R76 is a Single protein structure of sequence from Azospirillum irakense with , , and as ligands. Active as Pectate lyase, with EC number 4.2.2.2 Full crystallographic information is available from OCA.
ReferenceReference
Azospirillum irakense pectate lyase displays a toroidal fold., Novoa De Armas H, Verboven C, De Ranter C, Desair J, Vande Broek A, Vanderleyden J, Rabijns A, Acta Crystallogr D Biol Crystallogr. 2004 Jun;60(Pt 6):999-1007. Epub 2004, May 21. PMID:15159558
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