1jms: Difference between revisions

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[[Image:1jms.jpg|left|200px]]


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==Crystal Structure of the Catalytic Core of Murine Terminal Deoxynucleotidyl Transferase==
The line below this paragraph, containing "STRUCTURE_1jms", creates the "Structure Box" on the page.
<StructureSection load='1jms' size='340' side='right'caption='[[1jms]], [[Resolution|resolution]] 2.36&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[1jms]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JMS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JMS FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.36&#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=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
{{STRUCTURE_1jms| PDB=1jms |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1jms FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jms OCA], [https://pdbe.org/1jms PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jms RCSB], [https://www.ebi.ac.uk/pdbsum/1jms PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jms ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/TDT_MOUSE TDT_MOUSE] Template-independent DNA polymerase which catalyzes the random addition of deoxynucleoside 5'-triphosphate to the 3'-end of a DNA initiator. One of the in vivo functions of this enzyme is the addition of nucleotides at the junction (N region) of rearranged Ig heavy chain and T-cell receptor gene segments during the maturation of B- and T-cells.
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jm/1jms_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</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=1jms ConSurf].
<div style="clear:both"></div>


'''Crystal Structure of the Catalytic Core of Murine Terminal Deoxynucleotidyl Transferase'''
==See Also==
 
*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
 
__TOC__
==Overview==
</StructureSection>
The crystal structure of the catalytic core of murine terminal deoxynucleotidyltransferase (TdT) at 2.35 A resolution reveals a typical DNA polymerase beta-like fold locked in a closed form. In addition, the structures of two different binary complexes, one with an oligonucleotide primer and the other with an incoming ddATP-Co(2+) complex, show that the substrates and the two divalent ions in the catalytic site are positioned in TdT in a manner similar to that described for the human DNA polymerase beta ternary complex, suggesting a common two metal ions mechanism of nucleotidyl transfer in these two proteins. The inability of TdT to accommodate a template strand can be explained by steric hindrance at the catalytic site caused by a long lariat-like loop, which is absent in DNA polymerase beta. However, displacement of this discriminating loop would be sufficient to unmask a number of evolutionarily conserved residues, which could then interact with a template DNA strand. The present structure can be used to model the recently discovered human polymerase mu, with which it shares 43% sequence identity.
[[Category: Large Structures]]
 
==About this Structure==
1JMS is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JMS OCA].
 
==Reference==
Crystal structures of a template-independent DNA polymerase: murine terminal deoxynucleotidyltransferase., Delarue M, Boule JB, Lescar J, Expert-Bezancon N, Jourdan N, Sukumar N, Rougeon F, Papanicolaou C, EMBO J. 2002 Feb 1;21(3):427-39. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11823435 11823435]
[[Category: DNA nucleotidylexotransferase]]
[[Category: Mus musculus]]
[[Category: Mus musculus]]
[[Category: Single protein]]
[[Category: Boule JB]]
[[Category: Boule, J B.]]
[[Category: Delarue M]]
[[Category: Delarue, M.]]
[[Category: Expert-Bezancon N]]
[[Category: Expert-Bezancon, N.]]
[[Category: Jourdan N]]
[[Category: Jourdan, N.]]
[[Category: Lescar J]]
[[Category: Lescar, J.]]
[[Category: Papanicolaou C]]
[[Category: Papanicolaou, C.]]
[[Category: Rougeon F]]
[[Category: Rougeon, F.]]
[[Category: Sukumar N]]
[[Category: Sukumar, N.]]
[[Category: Nucleotidyl transferase]]
[[Category: Polymerase]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 21:25:25 2008''
Retrieved from "https://proteopedia.org/1jms"