This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


5yth

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:37, 22 November 2023) (edit) (undo)
 
Line 3: Line 3:
<StructureSection load='5yth' size='340' side='right'caption='[[5yth]], [[Resolution|resolution]] 2.53&Aring;' scene=''>
<StructureSection load='5yth' size='340' side='right'caption='[[5yth]], [[Resolution|resolution]] 2.53&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[5yth]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_25104 Atcc 25104]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YTH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YTH FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[5yth]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_aquaticus Thermus aquaticus] 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=5YTH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YTH FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DGT:2-DEOXYGUANOSINE-5-TRIPHOSPHATE'>DGT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.53&#8491;</td></tr>
-
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=92F:'>92F</scene>, <scene name='pdbligand=DOC:2,3-DIDEOXYCYTIDINE-5-MONOPHOSPHATE'>DOC</scene></td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=92F:7-amino-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-2-oxo-2,3-dihydropyrido[2,3-d]pyrimidine-6-carbonitrile'>92F</scene>, <scene name='pdbligand=DGT:2-DEOXYGUANOSINE-5-TRIPHOSPHATE'>DGT</scene>, <scene name='pdbligand=DOC:2,3-DIDEOXYCYTIDINE-5-MONOPHOSPHATE'>DOC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">polA, pol1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=271 ATCC 25104])</td></tr>
+
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </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=5yth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yth OCA], [https://pdbe.org/5yth PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yth RCSB], [https://www.ebi.ac.uk/pdbsum/5yth PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yth 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=5yth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yth OCA], [https://pdbe.org/5yth PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yth RCSB], [https://www.ebi.ac.uk/pdbsum/5yth PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yth ProSAT]</span></td></tr>
</table>
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/DPO1_THEAQ DPO1_THEAQ]
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
Line 19: Line 19:
</div>
</div>
<div class="pdbe-citations 5yth" style="background-color:#fffaf0;"></div>
<div class="pdbe-citations 5yth" style="background-color:#fffaf0;"></div>
 +
 +
==See Also==
 +
*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Atcc 25104]]
 
-
[[Category: DNA-directed DNA polymerase]]
 
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Gao, Y Q]]
+
[[Category: Synthetic construct]]
-
[[Category: Mondal, M]]
+
[[Category: Thermus aquaticus]]
-
[[Category: Song, R Y]]
+
[[Category: Gao YQ]]
-
[[Category: Xia, B]]
+
[[Category: Mondal M]]
-
[[Category: Yi, C Q]]
+
[[Category: Song RY]]
-
[[Category: Zeng, H]]
+
[[Category: Xia B]]
-
[[Category: Zhang, J]]
+
[[Category: Yi CQ]]
-
[[Category: Dna]]
+
[[Category: Zeng H]]
-
[[Category: Replication]]
+
[[Category: Zhang J]]
-
[[Category: Transferase-dna complex]]
+

Current revision

Structure of large fragment of DNA Polymerase I from Thermus aquaticus Host-Guest complex with the unnatural base M-fC pair with dG

PDB ID 5yth

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/5yth"
Personal tools