1ru4
From Proteopedia
(New page: 200px<br /><applet load="1ru4" size="450" color="white" frame="true" align="right" spinBox="true" caption="1ru4, resolution 1.60Å" /> '''Crystal structure of...) |
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| - | [[Image:1ru4.gif|left|200px]]<br /><applet load="1ru4" size=" | + | [[Image:1ru4.gif|left|200px]]<br /><applet load="1ru4" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1ru4, resolution 1.60Å" /> | caption="1ru4, resolution 1.60Å" /> | ||
'''Crystal structure of pectate lyase Pel9A'''<br /> | '''Crystal structure of pectate lyase Pel9A'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The "family 9 polysaccharide lyase" pectate lyase L (Pel9A) from Erwinia | + | The "family 9 polysaccharide lyase" pectate lyase L (Pel9A) from Erwinia chrysanthemi comprises a 10-coil parallel beta-helix domain with distinct structural features including an asparagine ladder and aromatic stack at novel positions within the superhelical structure. Pel9A has a single high affinity calcium-binding site strikingly similar to the "primary" calcium-binding site described previously for the family Pel1A pectate lyases, and there is strong evidence for a common second calcium ion that binds between enzyme and substrate in the "Michaelis" complex. Although the primary calcium ion binds substrate in subsite -1, it is the second calcium ion, whose binding site is formed by the coming together of enzyme and substrate, that facilitates abstraction of the C5 proton from the sacharride in subsite +1. The role of the second calcium is to withdraw electrons from the C6 carboxylate of the substrate, thereby acidifying the C5 proton facilitating its abstraction and resulting in an E1cb-like anti-beta-elimination mechanism. The active site geometries and mechanism of Pel1A and Pel9A are closely similar, but the catalytic base is a lysine in the Pel9A enzymes as opposed to an arginine in the Pel1A enzymes. |
==About this Structure== | ==About this Structure== | ||
| - | 1RU4 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Erwinia_chrysanthemi Erwinia chrysanthemi] with CA as [http://en.wikipedia.org/wiki/ligand ligand]. 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:// | + | 1RU4 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Erwinia_chrysanthemi Erwinia chrysanthemi] with <scene name='pdbligand=CA:'>CA</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. 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=1RU4 OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Hugouvieux-Cotte-Pattat, N.]] | [[Category: Hugouvieux-Cotte-Pattat, N.]] | ||
[[Category: Jenkins, J.]] | [[Category: Jenkins, J.]] | ||
| - | [[Category: Pickersgill, R | + | [[Category: Pickersgill, R W.]] |
| - | [[Category: Shevchik, V | + | [[Category: Shevchik, V E.]] |
[[Category: CA]] | [[Category: CA]] | ||
[[Category: parallel beta-helix]] | [[Category: parallel beta-helix]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:54:35 2008'' |
Revision as of 12:54, 21 February 2008
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Crystal structure of pectate lyase Pel9A
Overview
The "family 9 polysaccharide lyase" pectate lyase L (Pel9A) from Erwinia chrysanthemi comprises a 10-coil parallel beta-helix domain with distinct structural features including an asparagine ladder and aromatic stack at novel positions within the superhelical structure. Pel9A has a single high affinity calcium-binding site strikingly similar to the "primary" calcium-binding site described previously for the family Pel1A pectate lyases, and there is strong evidence for a common second calcium ion that binds between enzyme and substrate in the "Michaelis" complex. Although the primary calcium ion binds substrate in subsite -1, it is the second calcium ion, whose binding site is formed by the coming together of enzyme and substrate, that facilitates abstraction of the C5 proton from the sacharride in subsite +1. The role of the second calcium is to withdraw electrons from the C6 carboxylate of the substrate, thereby acidifying the C5 proton facilitating its abstraction and resulting in an E1cb-like anti-beta-elimination mechanism. The active site geometries and mechanism of Pel1A and Pel9A are closely similar, but the catalytic base is a lysine in the Pel9A enzymes as opposed to an arginine in the Pel1A enzymes.
About this Structure
1RU4 is a Single protein structure of sequence from Erwinia chrysanthemi with as ligand. Active as Pectate lyase, with EC number 4.2.2.2 Full crystallographic information is available from OCA.
Reference
The crystal structure of pectate lyase Pel9A from Erwinia chrysanthemi., Jenkins J, Shevchik VE, Hugouvieux-Cotte-Pattat N, Pickersgill RW, J Biol Chem. 2004 Mar 5;279(10):9139-45. Epub 2003 Dec 11. PMID:14670977
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