1bgb

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:36, 7 February 2024) (edit) (undo)
 
(3 intermediate revisions not shown.)
Line 1: Line 1:
==ECORV ENDONUCLEASE COMPLEX WITH 5'-CGGGATATCCC DNA==
==ECORV ENDONUCLEASE COMPLEX WITH 5'-CGGGATATCCC DNA==
-
<StructureSection load='1bgb' size='340' side='right' caption='[[1bgb]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+
<StructureSection load='1bgb' size='340' side='right'caption='[[1bgb]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[1bgb]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BGB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BGB FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[1bgb]] is a 4 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=1BGB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BGB FirstGlance]. <br>
-
</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Type_II_site-specific_deoxyribonuclease Type II site-specific deoxyribonuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.21.4 3.1.21.4] </span></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&#8491;</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=1bgb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bgb OCA], [http://pdbe.org/1bgb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1bgb RCSB], [http://www.ebi.ac.uk/pdbsum/1bgb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1bgb 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=1bgb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bgb OCA], [https://pdbe.org/1bgb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1bgb RCSB], [https://www.ebi.ac.uk/pdbsum/1bgb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1bgb ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/T2E5_ECOLX T2E5_ECOLX]] Recognizes the double-stranded sequence GATATC and cleaves after T-3.
+
[https://www.uniprot.org/uniprot/T2E5_ECOLX T2E5_ECOLX] Recognizes the double-stranded sequence GATATC and cleaves after T-3.
-
<div style="background-color:#fffaf0;">
+
-
== Publication Abstract from PubMed ==
+
-
The 2.1-A cocrystal structure of EcoRV endonuclease bound to 5'-CGGGATATCCC, in a crystal lattice isomorphous with the cocrystallized undecamer 5'-AAAGATATCTT previously determined, shows novel base recognition in the major groove of the DNA flanking the GATATC target site. Lys104 of the enzyme interacts through water molecules with the exocyclic N-4 amino groups of flanking cytosines. Steric exclusion of water molecule-binding sites by the 5-methyl group of thymine drives the adoption of alternative water-mediated contacts with AT versus GC flanks. This structure provides a rare example of structural adaptability in the recognition of different DNA sequences by a protein and suggests preferred strategies for the expansion of target site specificity by EcoRV.
+
-
 
+
-
Recognition of flanking DNA sequences by EcoRV endonuclease involves alternative patterns of water-mediated contacts.,Horton NC, Perona JJ J Biol Chem. 1998 Aug 21;273(34):21721-9. PMID:9705308<ref>PMID:9705308</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
<div class="pdbe-citations 1bgb" style="background-color:#fffaf0;"></div>
+
==See Also==
==See Also==
-
*[[Endonuclease|Endonuclease]]
+
*[[Endonuclease 3D structures|Endonuclease 3D structures]]
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Type II site-specific deoxyribonuclease]]
+
[[Category: Escherichia coli]]
-
[[Category: Horton, N C]]
+
[[Category: Large Structures]]
-
[[Category: Perona, J]]
+
[[Category: Horton NC]]
-
[[Category: Hydrolase-dna complex]]
+
[[Category: Perona J]]

Current revision

ECORV ENDONUCLEASE COMPLEX WITH 5'-CGGGATATCCC DNA

PDB ID 1bgb

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/1bgb"
Personal tools