2xrz

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:11, 1 May 2024) (edit) (undo)
 
(One intermediate revision not shown.)
Line 3: Line 3:
<StructureSection load='2xrz' size='340' side='right'caption='[[2xrz]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
<StructureSection load='2xrz' size='340' side='right'caption='[[2xrz]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[2xrz]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Metma Metma]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XRZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XRZ FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[2xrz]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanosarcina_mazei_Go1 Methanosarcina mazei Go1] 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=2XRZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XRZ FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.2&#8491;</td></tr>
-
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TT:'>TT</scene></td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TT:[(1R,3R,4S,9R,10S,12R,15AS,15BR,18BR,18CS)-10-HYDROXY-15A,15B-DIMETHYL-13,15,16,18-TETRAOXOHEXADECAHYDRO-8H-9,12-EPOXY-1,4-METHANO-2,5,7-TRIOXA-12A,14,17,18A-TETRAAZACYCLOHEXADECA[1,2,3,4-DEF]BIPHENYLEN-3-YL]METHYL+DIHYDROGEN+PHOSPHATE'>TT</scene></td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2xry|2xry]]</div></td></tr>
+
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Deoxyribodipyrimidine_photo-lyase Deoxyribodipyrimidine photo-lyase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.99.3 4.1.99.3] </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=2xrz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xrz OCA], [https://pdbe.org/2xrz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xrz RCSB], [https://www.ebi.ac.uk/pdbsum/2xrz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xrz 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=2xrz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xrz OCA], [https://pdbe.org/2xrz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xrz RCSB], [https://www.ebi.ac.uk/pdbsum/2xrz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xrz ProSAT]</span></td></tr>
</table>
</table>
-
<div style="background-color:#fffaf0;">
+
== Function ==
-
== Publication Abstract from PubMed ==
+
[https://www.uniprot.org/uniprot/Q8PYK9_METMA Q8PYK9_METMA]
-
Class II photolyases ubiquitously occur in plants, animals, prokaryotes and some viruses. Like the distantly related microbial class I photolyases, these enzymes repair UV-induced cyclobutane pyrimidine dimer (CPD) lesions within duplex DNA using blue/near-UV light. Methanosarcina mazei Mm0852 is a class II photolyase of the archaeal order of Methanosarcinales, and is closely related to plant and metazoan counterparts. Mm0852 catalyses light-driven DNA repair and photoreduction, but in contrast to class I enzymes lacks a high degree of binding discrimination between UV-damaged and intact duplex DNA. We solved crystal structures of Mm0852, the first one for a class II photolyase, alone and in complex with CPD lesion-containing duplex DNA. The lesion-binding mode differs from other photolyases by a larger DNA-binding site, and an unrepaired CPD lesion is found flipped into the active site and recognized by a cluster of five water molecules next to the bound 3'-thymine base. Different from other members of the photolyase-cryptochrome family, class II photolyases appear to utilize an unusual, conserved tryptophane dyad as electron transfer pathway to the catalytic FAD cofactor.
+
-
 
+
-
Crystal structures of an archaeal class II DNA photolyase and its complex with UV-damaged duplex DNA.,Kiontke S, Geisselbrecht Y, Pokorny R, Carell T, Batschauer A, Essen LO EMBO J. 2011 Sep 2. doi: 10.1038/emboj.2011.313. PMID:21892138<ref>PMID:21892138</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
<div class="pdbe-citations 2xrz" style="background-color:#fffaf0;"></div>
+
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Deoxyribodipyrimidine photo-lyase]]
 
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Metma]]
+
[[Category: Methanosarcina mazei Go1]]
-
[[Category: Batschauer, A]]
+
[[Category: Synthetic construct]]
-
[[Category: Carell, T]]
+
[[Category: Batschauer A]]
-
[[Category: Essen, L O]]
+
[[Category: Carell T]]
-
[[Category: Geisselbrecht, Y]]
+
[[Category: Essen LO]]
-
[[Category: Kiontke, S]]
+
[[Category: Geisselbrecht Y]]
-
[[Category: Pokorny, R]]
+
[[Category: Kiontke S]]
-
[[Category: Class ii]]
+
[[Category: Pokorny R]]
-
[[Category: Dna damage]]
+
-
[[Category: Dna repair]]
+
-
[[Category: Intact cpd-lesion]]
+
-
[[Category: Lyase-dna complex]]
+
-
[[Category: Photolyase]]
+
-
[[Category: Protein-dna complex]]
+
-
[[Category: Water cluster]]
+

Current revision

X-ray structure of archaeal class II CPD photolyase from Methanosarcina mazei in complex with intact CPD-lesion

PDB ID 2xrz

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/2xrz"
Personal tools