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3fhj

From Proteopedia

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{{Seed}}
 
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[[Image:3fhj.jpg|left|200px]]
 
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==Independent saturation of three TrpRS subsites generates a partially-assembled state similar to those observed in molecular simulations==
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The line below this paragraph, containing "STRUCTURE_3fhj", creates the "Structure Box" on the page.
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<StructureSection load='3fhj' size='340' side='right'caption='[[3fhj]], [[Resolution|resolution]] 2.65&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3fhj]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FHJ FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.65&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=TRP:TRYPTOPHAN'>TRP</scene></td></tr>
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{{STRUCTURE_3fhj| PDB=3fhj | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3fhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhj OCA], [https://pdbe.org/3fhj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fhj RCSB], [https://www.ebi.ac.uk/pdbsum/3fhj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fhj ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/SYW_GEOSE SYW_GEOSE]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fh/3fhj_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3fhj ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Two new crystal structures of Bacillus stearothermophilus tryptophanyl-tRNA synthetase (TrpRS) afford evidence that a closed interdomain hinge angle requires a covalent bond between AMP and an occupant of either pyrophosphate or tryptophan subsite. They also are within experimental error of a cluster of structures observed in a nonequilibrium molecular dynamics simulation showing partial active-site assembly. Further, the highest energy structure in a minimum action pathway computed by using elastic network models for Open and Pretransition state (PreTS) conformations for the fully liganded TrpRS monomer is intermediate between that simulated structure and a partially disassembled structure from a nonequilibrium molecular dynamics trajectory for the unliganded PreTS. These mutual consistencies provide unexpected validation of inferences drawn from molecular simulations.
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===Independent saturation of three TrpRS subsites generates a partially-assembled state similar to those observed in molecular simulations===
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Independent saturation of three TrpRS subsites generates a partially assembled state similar to those observed in molecular simulations.,Laowanapiban P, Kapustina M, Vonrhein C, Delarue M, Koehl P, Carter CW Jr Proc Natl Acad Sci U S A. 2009 Feb 10;106(6):1790-5. Epub 2009 Jan 27. PMID:19174517<ref>PMID:19174517</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 3fhj" style="background-color:#fffaf0;"></div>
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==About this Structure==
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==See Also==
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3FHJ is a 6 chains structure of sequences from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHJ OCA].
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*[[Aminoacyl tRNA synthetase 3D structures|Aminoacyl tRNA synthetase 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
[[Category: Geobacillus stearothermophilus]]
[[Category: Geobacillus stearothermophilus]]
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[[Category: Tryptophan--tRNA ligase]]
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[[Category: Large Structures]]
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[[Category: Delarue, M.]]
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[[Category: Carter Jr CW]]
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[[Category: Jr., C W.Carter.]]
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[[Category: Delarue M]]
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[[Category: Kapustina, M.]]
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[[Category: Kapustina M]]
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[[Category: Koehl, P.]]
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[[Category: Koehl P]]
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[[Category: Laowanapiban, P.]]
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[[Category: Laowanapiban P]]
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[[Category: Vonrhein, C.]]
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[[Category: Vonrhein C]]
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[[Category: Aminoacyl-trna synthetase]]
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[[Category: Atp-binding]]
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[[Category: Cytoplasm]]
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[[Category: Ligand-dependent domain rearrangement]]
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[[Category: Ligase]]
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[[Category: Mechanistic pathway]]
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[[Category: Molecular simulation]]
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[[Category: Nucleotide-binding]]
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[[Category: Protein biosynthesis]]
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[[Category: Translation]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 4 11:40:16 2009''
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Current revision

Independent saturation of three TrpRS subsites generates a partially-assembled state similar to those observed in molecular simulations

PDB ID 3fhj

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