1dde: Difference between revisions

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[[Image:1dde.gif|left|200px]]


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==STRUCTURE OF THE DNAG CATALYTIC CORE==
The line below this paragraph, containing "STRUCTURE_1dde", creates the "Structure Box" on the page.
<StructureSection load='1dde' size='340' side='right'caption='[[1dde]], [[Resolution|resolution]] 1.70&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'>[[1dde]] is a 1 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=1DDE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DDE 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]] 1.7&#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=Y1:YTTRIUM+ION'>Y1</scene></td></tr>
{{STRUCTURE_1dde| PDB=1dde |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1dde FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dde OCA], [https://pdbe.org/1dde PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dde RCSB], [https://www.ebi.ac.uk/pdbsum/1dde PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dde ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/DNAG_ECOLI DNAG_ECOLI] RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication.[HAMAP-Rule:MF_00974]<ref>PMID:1511009</ref> <ref>PMID:340457</ref>
== 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/dd/1dde_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=1dde ConSurf].
<div style="clear:both"></div>


'''STRUCTURE OF THE DNAG CATALYTIC CORE'''
==See Also==
 
*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
 
== References ==
==Overview==
<references/>
All cellular organisms use specialized RNA polymerases called "primases" to synthesize RNA primers for the initiation of DNA replication. The high-resolution crystal structure of a primase, comprising the catalytic core of the Escherichia coli DnaG protein, was determined. The core structure contains an active-site architecture that is unrelated to other DNA or RNA polymerase palm folds, but is instead related to the "toprim" fold. On the basis of the structure, it is likely that DnaG binds nucleic acid in a groove clustered with invariant residues and that DnaG is positioned within the replisome to accept single-stranded DNA directly from the replicative helicase.
__TOC__
 
</StructureSection>
==About this Structure==
1DDE 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=1DDE OCA].
 
==Reference==
Structure of the RNA polymerase domain of E. coli primase., Keck JL, Roche DD, Lynch AS, Berger JM, Science. 2000 Mar 31;287(5462):2482-6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10741967 10741967]
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Berger, J M.]]
[[Category: Berger JM]]
[[Category: Keck, J L.]]
[[Category: Keck JL]]
[[Category: Lynch, A S.]]
[[Category: Lynch AS]]
[[Category: Roche, D D.]]
[[Category: Roche DD]]
[[Category: 3-helix bundle]]
[[Category: Dna-binding protein]]
[[Category: Primase]]
[[Category: Replication protein]]
[[Category: Rna polymerase]]
[[Category: Toprim]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 13:43:13 2008''

Latest revision as of 09:52, 7 February 2024

STRUCTURE OF THE DNAG CATALYTIC CORESTRUCTURE OF THE DNAG CATALYTIC CORE

Structural highlights

1dde is a 1 chain structure with sequence from Escherichia coli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.7Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

DNAG_ECOLI RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication.[HAMAP-Rule:MF_00974][1] [2]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

References

  1. ↑ Stamford NP, Lilley PE, Dixon NE. Enriched sources of Escherichia coli replication proteins. The dnaG primase is a zinc metalloprotein. Biochim Biophys Acta. 1992 Aug 17;1132(1):17-25. PMID:1511009
  2. ↑ Rowen L, Kornberg A. Primase, the dnaG protein of Escherichia coli. An enzyme which starts DNA chains. J Biol Chem. 1978 Feb 10;253(3):758-64. PMID:340457

1dde, resolution 1.70Å

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