4tra

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[[Image:4tra.jpg|left|200px]]
[[Image:4tra.jpg|left|200px]]
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{{Structure
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|PDB= 4tra |SIZE=350|CAPTION= <scene name='initialview01'>4tra</scene>, resolution 3.000&Aring;
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The line below this paragraph, containing "STRUCTURE_4tra", creates the "Structure Box" on the page.
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|SITE=
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|LIGAND= <scene name='pdbligand=1MA:6-HYDRO-1-METHYLADENOSINE-5&#39;-MONOPHOSPHATE'>1MA</scene>, <scene name='pdbligand=2MG:2N-METHYLGUANOSINE-5&#39;-MONOPHOSPHATE'>2MG</scene>, <scene name='pdbligand=5MC:5-METHYLCYTIDINE-5&#39;-MONOPHOSPHATE'>5MC</scene>, <scene name='pdbligand=5MU:5-METHYLURIDINE+5&#39;-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=7MG:7N-METHYL-8-HYDROGUANOSINE-5&#39;-MONOPHOSPHATE'>7MG</scene>, <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=H2U:5,6-DIHYDROURIDINE-5&#39;-MONOPHOSPHATE'>H2U</scene>, <scene name='pdbligand=M2G:N2-DIMETHYLGUANOSINE-5&#39;-MONOPHOSPHATE'>M2G</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OMC:O2&#39;-METHYLYCYTIDINE-5&#39;-MONOPHOSPHATE'>OMC</scene>, <scene name='pdbligand=OMG:O2&#39;-METHYLGUANOSINE-5&#39;-MONOPHOSPHATE'>OMG</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5&#39;-MONOPHOSPHATE'>PSU</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>, <scene name='pdbligand=YG:WYBUTOSINE'>YG</scene>
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|ACTIVITY=
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|GENE=
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|DOMAIN=
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{{STRUCTURE_4tra| PDB=4tra | SCENE= }}
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4tra FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tra OCA], [http://www.ebi.ac.uk/pdbsum/4tra PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=4tra RCSB]</span>
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}}
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'''RESTRAINED REFINEMENT OF TWO CRYSTALLINE FORMS OF YEAST ASPARTIC ACID AND PHENYLALANINE TRANSFER RNA CRYSTALS'''
'''RESTRAINED REFINEMENT OF TWO CRYSTALLINE FORMS OF YEAST ASPARTIC ACID AND PHENYLALANINE TRANSFER RNA CRYSTALS'''
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==About this Structure==
==About this Structure==
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4TRA is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TRA OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TRA OCA].
==Reference==
==Reference==
Restrained refinement of two crystalline forms of yeast aspartic acid and phenylalanine transfer RNA crystals., Westhof E, Dumas P, Moras D, Acta Crystallogr A. 1988 Mar 1;44 ( Pt 2):112-23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/3272146 3272146]
Restrained refinement of two crystalline forms of yeast aspartic acid and phenylalanine transfer RNA crystals., Westhof E, Dumas P, Moras D, Acta Crystallogr A. 1988 Mar 1;44 ( Pt 2):112-23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/3272146 3272146]
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[[Category: Protein complex]]
 
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[[Category: Saccharomyces cerevisiae]]
 
[[Category: Dumas, P.]]
[[Category: Dumas, P.]]
[[Category: Moras, D.]]
[[Category: Moras, D.]]
[[Category: Westhof, E.]]
[[Category: Westhof, E.]]
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[[Category: loop]]
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[[Category: Loop]]
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[[Category: single strand]]
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[[Category: Single strand]]
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[[Category: t-rna]]
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[[Category: T-rna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:30:33 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:40:27 2008''
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Revision as of 19:30, 4 May 2008

Image:4tra.jpg

Template:STRUCTURE 4tra

RESTRAINED REFINEMENT OF TWO CRYSTALLINE FORMS OF YEAST ASPARTIC ACID AND PHENYLALANINE TRANSFER RNA CRYSTALS


Overview

Four transfer RNA crystals, the monoclinic and orthorhombic forms of yeast tRNA(Phe) as well as forms A and B of yeast tRNA(Asp), have been submitted to the same restrained least-squares refinement program and refined to an R factor well below 20% for about 4500 reflections between 10 and 3 A. In yeast tRNA(Asp) crystals the molecules exist as dimers with base pairings of the anticodon (AC) triplets and labilization of the tertiary interaction between one invariant guanine of the dihydrouridine (D) loop and the invariant cytosine of the thymine (T) loop (G19-C56). In yeast tRNA(Phe) crystals, the molecules exist as monomers with only weak intermolecular packing contacts between symmetry-related molecules. Despite this, the tertiary folds of the L-shaped tRNA structures are identical when allowance is made for base sequence changes between tRNA(Phe) and tRNA(Asp). However, the relative mobilities of two regions are inverse in the two structures with the AC loop more mobile than the D loop in tRNA(Phe) and the D loop more mobile than the AC loop in tRNA(Asp). In addition, the T loop becomes mobile in tRNA(Asp). The present refinements were performed to exclude packing effects or refinement bias as possible sources of such differential dynamic behavior. It is concluded that the transfer of flexibility from the anticodon to the D- and T-loop region in tRNA(Asp) is not a crystal-line artefact. Further, analysis of the four structures supports a mechanism for the flexibility transfer through base stacking in the AC loop and concomitant variations in twist angles between base pairs of the anticodon helix which propagate up to the D- and T-loop region.

About this Structure

Full crystallographic information is available from OCA.

Reference

Restrained refinement of two crystalline forms of yeast aspartic acid and phenylalanine transfer RNA crystals., Westhof E, Dumas P, Moras D, Acta Crystallogr A. 1988 Mar 1;44 ( Pt 2):112-23. PMID:3272146 Page seeded by OCA on Sun May 4 22:30:33 2008

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