1d9d: Difference between revisions

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{{Seed}}
[[Image:1d9d.png|left|200px]]


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==CRYSTALL STRUCTURE OF THE COMPLEX OF DNA POLYMERASE I KLENOW FRAGMENT WITH SHORT DNA FRAGMENT CARRYING 2'-0-AMINOPROPYL-RNA MODIFICATIONS 5'-D(TCG)-AP(AUC)-3'==
The line below this paragraph, containing "STRUCTURE_1d9d", creates the "Structure Box" on the page.
<StructureSection load='1d9d' size='340' side='right'caption='[[1d9d]], [[Resolution|resolution]] 2.18&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'>[[1d9d]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D9D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D9D 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]] 2.18&#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=C31:2-O-3-AMINOPROPYL+CYTIDINE-5-MONOPHOSPHATE'>C31</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=U31:2-O-3-AMINOPROPYL+2-DEOXYURIDINE-5-MONOPHOSPHATE'>U31</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
{{STRUCTURE_1d9d|  PDB=1d9d |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1d9d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d9d OCA], [https://pdbe.org/1d9d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d9d RCSB], [https://www.ebi.ac.uk/pdbsum/1d9d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d9d ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/DPO1_ECOLI DPO1_ECOLI] In addition to polymerase activity, this DNA polymerase exhibits 3' to 5' and 5' to 3' exonuclease activity. It is able to utilize nicked circular duplex DNA as a template and can unwind the parental DNA strand from its template.
== 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/d9/1d9d_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=1d9d ConSurf].
<div style="clear:both"></div>


===CRYSTALL STRUCTURE OF THE COMPLEX OF DNA POLYMERASE I KLENOW FRAGMENT WITH SHORT DNA FRAGMENT CARRYING 2'-0-AMINOPROPYL-RNA MODIFICATIONS 5'-D(TCG)-AP(AUC)-3'===
==See Also==
 
*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
 
__TOC__
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</StructureSection>
The line below this paragraph, {{ABSTRACT_PUBMED_10588690}}, adds the Publication Abstract to the page
(as it appears on PubMed at http://www.pubmed.gov), where 10588690 is the PubMed ID number.
-->
{{ABSTRACT_PUBMED_10588690}}
 
==About this Structure==
1D9D is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D9D OCA].
 
==Reference==
Structural origins of the exonuclease resistance of a zwitterionic RNA., Teplova M, Wallace ST, Tereshko V, Minasov G, Symons AM, Cook PD, Manoharan M, Egli M, Proc Natl Acad Sci U S A. 1999 Dec 7;96(25):14240-5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10588690 10588690]
[[Category: DNA-directed DNA polymerase]]
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Cook, P D.]]
[[Category: Cook PD]]
[[Category: Egli, M.]]
[[Category: Egli M]]
[[Category: Manoharan, M.]]
[[Category: Manoharan M]]
[[Category: Minasov, G.]]
[[Category: Minasov G]]
[[Category: Simons, A M.]]
[[Category: Simons AM]]
[[Category: Teplova, M.]]
[[Category: Teplova M]]
[[Category: Tereshko, V.]]
[[Category: Tereshko V]]
[[Category: Wallace, S T.]]
[[Category: Wallace ST]]
[[Category: 2'-o-aminopropyl nucleotide]]
[[Category: Klenow fragment]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 22:42:10 2008''

Latest revision as of 06:50, 7 February 2024

CRYSTALL STRUCTURE OF THE COMPLEX OF DNA POLYMERASE I KLENOW FRAGMENT WITH SHORT DNA FRAGMENT CARRYING 2'-0-AMINOPROPYL-RNA MODIFICATIONS 5'-D(TCG)-AP(AUC)-3'

1d9d, resolution 2.18Å

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