5omf

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (16:54, 13 December 2023) (edit) (undo)
 
Line 1: Line 1:
==Closed, ternary structure of KOD DNA polymerase==
==Closed, ternary structure of KOD DNA polymerase==
-
<StructureSection load='5omf' size='340' side='right' caption='[[5omf]], [[Resolution|resolution]] 2.09&Aring;' scene=''>
+
<StructureSection load='5omf' size='340' side='right'caption='[[5omf]], [[Resolution|resolution]] 2.09&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[5omf]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_kodakaraensis_(strain_kod1) Pyrococcus kodakaraensis (strain kod1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OMF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OMF FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[5omf]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_kodakarensis_KOD1 Thermococcus kodakarensis KOD1] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OMF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5OMF FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DTP:2-DEOXYADENOSINE+5-TRIPHOSPHATE'>DTP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.092&#8491;</td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pol, TK0001 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=69014 Pyrococcus kodakaraensis (strain KOD1)])</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DTP:2-DEOXYADENOSINE+5-TRIPHOSPHATE'>DTP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
-
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5omf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5omf OCA], [http://pdbe.org/5omf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5omf RCSB], [http://www.ebi.ac.uk/pdbsum/5omf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5omf ProSAT]</span></td></tr>
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5omf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5omf OCA], [https://pdbe.org/5omf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5omf RCSB], [https://www.ebi.ac.uk/pdbsum/5omf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5omf ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/DPOL_THEKO DPOL_THEKO]] Intein encoded endonucleases are thought to mediate intein mobility by site-specific recombination initiated by endonuclease cleavage at the "homing site" in gene that lack the intein. PI-PkoI recognizes 5'-GATTTAGATCCCTGTACC-3' and PI-PkoII recognizes 5'-CAGCTACTACGGTTAC-3'.
+
[https://www.uniprot.org/uniprot/DPOL_THEKO DPOL_THEKO] Intein encoded endonucleases are thought to mediate intein mobility by site-specific recombination initiated by endonuclease cleavage at the "homing site" in gene that lack the intein. PI-PkoI recognizes 5'-GATTTAGATCCCTGTACC-3' and PI-PkoII recognizes 5'-CAGCTACTACGGTTAC-3'.
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
Line 21: Line 21:
==See Also==
==See Also==
-
*[[DNA polymerase|DNA polymerase]]
+
*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Betz, K]]
+
[[Category: Large Structures]]
-
[[Category: Diederichs, K]]
+
[[Category: Synthetic construct]]
-
[[Category: Kropp, H M]]
+
[[Category: Thermococcus kodakarensis KOD1]]
-
[[Category: Marx, A]]
+
[[Category: Betz K]]
-
[[Category: Wirth, J]]
+
[[Category: Diederichs K]]
-
[[Category: Dna binding protein]]
+
[[Category: Kropp HM]]
-
[[Category: Dna replication dna polymerase archaea]]
+
[[Category: Marx A]]
 +
[[Category: Wirth J]]

Current revision

Closed, ternary structure of KOD DNA polymerase

PDB ID 5omf

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5omf"
Personal tools