2q7h
From Proteopedia
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| - | [[Image:2q7h.gif|left|200px]] | + | [[Image:2q7h.gif|left|200px]] |
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| - | '''Pyrrolysyl-tRNA synthetase bound to adenylated pyrrolysine and pyrophosphate''' | + | {{Structure |
| + | |PDB= 2q7h |SIZE=350|CAPTION= <scene name='initialview01'>2q7h</scene>, resolution 2.10Å | ||
| + | |SITE= <scene name='pdbsite=AC1:Edo+Binding+Site+For+Residue+A+902'>AC1</scene>, <scene name='pdbsite=AC2:Edo+Binding+Site+For+Residue+A+903'>AC2</scene>, <scene name='pdbsite=AC3:Edo+Binding+Site+For+Residue+A+904'>AC3</scene>, <scene name='pdbsite=AC4:Edo+Binding+Site+For+Residue+A+905'>AC4</scene>, <scene name='pdbsite=AC5:Edo+Binding+Site+For+Residue+A+906'>AC5</scene>, <scene name='pdbsite=AC6:Edo+Binding+Site+For+Residue+A+907'>AC6</scene>, <scene name='pdbsite=AC7:Edo+Binding+Site+For+Residue+A+908'>AC7</scene>, <scene name='pdbsite=AC8:Edo+Binding+Site+For+Residue+A+909'>AC8</scene>, <scene name='pdbsite=AC9:Edo+Binding+Site+For+Residue+A+910'>AC9</scene>, <scene name='pdbsite=BC1:Edo+Binding+Site+For+Residue+A+911'>BC1</scene>, <scene name='pdbsite=BC2:Yly+Binding+Site+For+Residue+A+900'>BC2</scene> and <scene name='pdbsite=BC3:Pop+Binding+Site+For+Residue+A+901'>BC3</scene> | ||
| + | |LIGAND= <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=YLY:(2R)-2-AMINO-6-({[(2S,3R)-3-METHYLPYRROLIDIN-2-YL]CARBONYL}AMINO)HEXANOYL+[(2S,3R,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+HYDROGEN+(R)-PHOSPHATE'>YLY</scene> and <scene name='pdbligand=POP:PYROPHOSPHATE 2-'>POP</scene> | ||
| + | |ACTIVITY= | ||
| + | |GENE= pylS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2209 Methanosarcina mazei]) | ||
| + | }} | ||
| + | |||
| + | '''Pyrrolysyl-tRNA synthetase bound to adenylated pyrrolysine and pyrophosphate''' | ||
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==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 2Q7H is a [ | + | 2Q7H is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Methanosarcina_mazei Methanosarcina mazei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Q7H OCA]. |
==Reference== | ==Reference== | ||
| - | Structure of pyrrolysyl-tRNA synthetase, an archaeal enzyme for genetic code innovation., Kavran JM, Gundllapalli S, O'Donoghue P, Englert M, Soll D, Steitz TA, Proc Natl Acad Sci U S A. 2007 Jul 3;104(27):11268-73. Epub 2007 Jun 25. PMID:[http:// | + | Structure of pyrrolysyl-tRNA synthetase, an archaeal enzyme for genetic code innovation., Kavran JM, Gundllapalli S, O'Donoghue P, Englert M, Soll D, Steitz TA, Proc Natl Acad Sci U S A. 2007 Jul 3;104(27):11268-73. Epub 2007 Jun 25. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17592110 17592110] |
[[Category: Methanosarcina mazei]] | [[Category: Methanosarcina mazei]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
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[[Category: pyrrolysyl-trna synthetase]] | [[Category: pyrrolysyl-trna synthetase]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:22:40 2008'' |
Revision as of 16:22, 20 March 2008
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| , resolution 2.10Å | |||||||
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| Sites: | , , , , , , , , , , and | ||||||
| Ligands: | , and | ||||||
| Gene: | pylS (Methanosarcina mazei) | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Pyrrolysyl-tRNA synthetase bound to adenylated pyrrolysine and pyrophosphate
Overview
Pyrrolysine (Pyl), the 22nd natural amino acid and genetically encoded by UAG, becomes attached to its cognate tRNA by pyrrolysyl-tRNA synthetase (PylRS). We have determined three crystal structures of the Methanosarcina mazei PylRS complexed with either AMP-PNP, Pyl-AMP plus pyrophosphate, or the Pyl analogue N-epsilon-[(cylopentyloxy)carbonyl]-L-lysine plus ATP. The structures reveal that PylRS utilizes a deep hydrophobic pocket for recognition of the Pyl side chain. A comparison of these structures with previously determined class II tRNA synthetase complexes illustrates that different substrate specificities derive from changes in a small number of residues that form the substrate side-chain-binding pocket. The knowledge of these structures allowed the placement of PylRS in the aminoacyl-tRNA synthetase (aaRS) tree as the last known synthetase that evolved for genetic code expansion, as well as the finding that Pyl arose before the last universal common ancestral state. The PylRS structure provides an excellent framework for designing new aaRSs with altered amino acid specificity.
About this Structure
2Q7H is a Single protein structure of sequence from Methanosarcina mazei. Full crystallographic information is available from OCA.
Reference
Structure of pyrrolysyl-tRNA synthetase, an archaeal enzyme for genetic code innovation., Kavran JM, Gundllapalli S, O'Donoghue P, Englert M, Soll D, Steitz TA, Proc Natl Acad Sci U S A. 2007 Jul 3;104(27):11268-73. Epub 2007 Jun 25. PMID:17592110
Page seeded by OCA on Thu Mar 20 18:22:40 2008
