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.


1cz0

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:46, 7 February 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1cz0.gif|left|200px]]<br /><applet load="1cz0" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1cz0, resolution 2.1&Aring;" />
 
-
'''INTRON ENCODED HOMING ENDONUCLEASE I-PPOI/DNA COMPLEX LACKING CATALYTIC METAL ION'''<br />
 
-
==Overview==
+
==INTRON ENCODED HOMING ENDONUCLEASE I-PPOI/DNA COMPLEX LACKING CATALYTIC METAL ION==
-
A novel mechanism of DNA endonucleolytic cleavage has been visualized for the homing endonuclease I-PpoI by trapping the uncleaved enzyme-substrate complex and comparing it to the previously visualized product complex. This enzyme employs a unique single metal mechanism. A magnesium ion is coordinated by an asparagine residue and two DNA oxygen atoms and stabilizes the phosphoanion transition state and the 3'oxygen leaving group. A hydrolytic water molecule is activated by a histidine residue for an in-line attack on the scissile phosphate. A strained enzyme-substrate-metal complex is formed before cleavage, then relaxed during the reaction.
+
<StructureSection load='1cz0' size='340' side='right'caption='[[1cz0]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1cz0]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Physarum_polycephalum Physarum polycephalum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CZ0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CZ0 FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=1cz0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cz0 OCA], [https://pdbe.org/1cz0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cz0 RCSB], [https://www.ebi.ac.uk/pdbsum/1cz0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cz0 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/PPO1_PHYPO PPO1_PHYPO] Mediates the homing of a group I intron in the ribosomal DNA. Makes a four-base staggered cut in its ribosomal DNA target sequence.
-
==About this Structure==
+
==See Also==
-
1CZ0 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Physarum_polycephalum Physarum polycephalum] with <scene name='pdbligand=ZN:'>ZN</scene> and <scene name='pdbligand=NA:'>NA</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CZ0 OCA].
+
*[[Endonuclease 3D structures|Endonuclease 3D structures]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
A novel endonuclease mechanism directly visualized for I-PpoI., Galburt EA, Chevalier B, Tang W, Jurica MS, Flick KE, Monnat RJ Jr, Stoddard BL, Nat Struct Biol. 1999 Dec;6(12):1096-9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10581547 10581547]
+
[[Category: Large Structures]]
[[Category: Physarum polycephalum]]
[[Category: Physarum polycephalum]]
-
[[Category: Single protein]]
+
[[Category: Chevalier B]]
-
[[Category: Chevalier, B.]]
+
[[Category: Flick KE]]
-
[[Category: Flick, K E.]]
+
[[Category: Galburt EA]]
-
[[Category: Galburt, E A.]]
+
[[Category: Jurica MS]]
-
[[Category: Jurica, M S.]]
+
[[Category: Stoddard BL]]
-
[[Category: Stoddard, B L.]]
+
-
[[Category: NA]]
+
-
[[Category: ZN]]
+
-
[[Category: beta sheet dna binding]]
+
-
[[Category: distorted dna]]
+
-
[[Category: his-cys box zinc binding site]]
+
-
[[Category: protein-dna complex]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:11:10 2008''
+

Current revision

INTRON ENCODED HOMING ENDONUCLEASE I-PPOI/DNA COMPLEX LACKING CATALYTIC METAL ION

PDB ID 1cz0

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/1cz0"
Personal tools