3bsu

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:31, 21 February 2024) (edit) (undo)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:3bsu.jpg|left|200px]]
 
-
<!--
+
==Hybrid-binding domain of human RNase H1 in complex with 12-mer RNA/DNA==
-
The line below this paragraph, containing "STRUCTURE_3bsu", creates the "Structure Box" on the page.
+
<StructureSection load='3bsu' size='340' side='right'caption='[[3bsu]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[3bsu]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BSU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BSU FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</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=5IU:5-IODO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>5IU</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-
{{STRUCTURE_3bsu| PDB=3bsu | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3bsu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bsu OCA], [https://pdbe.org/3bsu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bsu RCSB], [https://www.ebi.ac.uk/pdbsum/3bsu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bsu ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/RNH1_HUMAN RNH1_HUMAN] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.
 +
== Evolutionary Conservation ==
 +
[[Image:Consurf_key_small.gif|200px|right]]
 +
Check<jmol>
 +
<jmolCheckbox>
 +
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bs/3bsu_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 +
<text>to colour the structure by Evolutionary Conservation</text>
 +
</jmolCheckbox>
 +
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3bsu ConSurf].
 +
<div style="clear:both"></div>
-
'''Hybrid-binding domain of human RNase H1 in complex with 12-mer RNA/DNA'''
+
==See Also==
-
 
+
*[[Ribonuclease 3D structures|Ribonuclease 3D structures]]
-
 
+
__TOC__
-
==Overview==
+
</StructureSection>
-
Human RNase H1 contains an N-terminal domain known as dsRHbd for binding both dsRNA and RNA/DNA hybrid. We find that dsRHbd binds preferentially to RNA/DNA hybrids by over 25-fold and rename it as hybrid binding domain (HBD). The crystal structure of HBD complexed with a 12 bp RNA/DNA hybrid reveals that the RNA strand is recognized by a protein loop, which forms hydrogen bonds with the 2'-OH groups. The DNA interface is highly specific and contains polar residues that interact with the phosphate groups and an aromatic patch that appears selective for binding deoxyriboses. HBD is unique relative to non-sequence-specific dsDNA- and dsRNA-binding domains because it does not use positive dipoles of alpha-helices for nucleic acid binding. Characterization of full-length enzymes with defective HBDs indicates that this domain dramatically enhances both the specific activity and processivity of RNase H1. Similar activity enhancement by small substrate-binding domains linked to the catalytic domain likely occurs in other nucleic acid enzymes.
+
-
 
+
-
==About this Structure==
+
-
3BSU is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BSU OCA].
+
-
 
+
-
==Reference==
+
-
Specific recognition of RNA/DNA hybrid and enhancement of human RNase H1 activity by HBD., Nowotny M, Cerritelli SM, Ghirlando R, Gaidamakov SA, Crouch RJ, Yang W, EMBO J. 2008 Mar 13;. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18337749 18337749]
+
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
-
[[Category: Ribonuclease H]]
+
[[Category: Large Structures]]
-
[[Category: Single protein]]
+
[[Category: Cerritelli SM]]
-
[[Category: Cerritelli, S M.]]
+
[[Category: Crouch RJ]]
-
[[Category: Crouch, R J.]]
+
[[Category: Gaidamakov SA]]
-
[[Category: Gaidamakov, S A.]]
+
[[Category: Ghirlando R]]
-
[[Category: Ghirlando, R.]]
+
[[Category: Nowotny M]]
-
[[Category: Nowotny, M.]]
+
[[Category: Yang W]]
-
[[Category: Yang, W.]]
+
-
[[Category: Dsrna]]
+
-
[[Category: Hydrolase/rna/dna complex]]
+
-
[[Category: Rnase h,rna/dna hybrid]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 21:04:15 2008''
+

Current revision

Hybrid-binding domain of human RNase H1 in complex with 12-mer RNA/DNA

PDB ID 3bsu

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/3bsu"
Personal tools