3nkd: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
 ==Structure of CRISP-associated protein Cas1 from Escherichia coli str. K-12==
-<StructureSection load='3nkd' size='340' side='right' caption='[[3nkd]], [[Resolution|resolution]] 1.95&Aring;' scene=''>
+<StructureSection load='3nkd' size='340' side='right'caption='[[3nkd]], [[Resolution|resolution]] 1.95&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3nkd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecod1 Ecod1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NKD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3NKD FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3nkd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_DH1 Escherichia coli DH1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NKD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NKD FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3nke|3nke]], [[3god|3god]]</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]] 1.95&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">EcDH1_0933 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=536056 ECOD1])</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=3nkd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nkd OCA], [https://pdbe.org/3nkd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3nkd RCSB], [https://www.ebi.ac.uk/pdbsum/3nkd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3nkd ProSAT]</span></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=3nkd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nkd OCA], [http://pdbe.org/3nkd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3nkd RCSB], [http://www.ebi.ac.uk/pdbsum/3nkd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3nkd ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/C9R0C6_ECOD1 C9R0C6_ECOD1]] CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Acts as a dsDNA endonuclease. May be involved in the integration of spacer DNA into the CRISPR cassette (By similarity).[HAMAP-Rule:MF_01470]
+[https://www.uniprot.org/uniprot/CAS1_ECOLI CAS1_ECOLI] CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Cas1 is thought to be involved in CRISPR adaptation, the first stage of CRISPR immunity. Might be involved in the addition/removal of CRISPR spacers. Endonucleolytically cleaves linear ssRNA, ssDNA and short (34 base) dsDNA as well as branched DNA substrates such as Holliday junctions, replication forks and 5'-flap DNA substrates. Genetic interactions suggest Cas1 interacts with components of the RecBC and RuvB DNA repair systems.<ref>PMID:21255106</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 15: / Line 14: @@
    <jmolCheckbox>
      <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nk/3nkd_consurf.spt"</scriptWhenChecked>
-     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
      <text>to colour the structure by Evolutionary Conservation</text>
    </jmolCheckbox>
@@ Line 31: / Line 30: @@
 ==See Also==
-*[[Endonuclease|Endonuclease]]
+*[[Endonuclease 3D structures|Endonuclease 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Ecod1]]
+[[Category: Escherichia coli DH1]]
-[[Category: Beloglazova, N]]
+[[Category: Large Structures]]
-[[Category: Joachimiak, A]]
+[[Category: Beloglazova N]]
-[[Category: Nocek, B]]
+[[Category: Joachimiak A]]
-[[Category: Savchenko, A]]
+[[Category: Nocek B]]
-[[Category: Skarina, T]]
+[[Category: Savchenko A]]
-[[Category: Yakunin, A]]
+[[Category: Skarina T]]
-[[Category: Cas1]]
+[[Category: Yakunin A]]
-[[Category: Crispr]]
-[[Category: Dna recombination]]
-[[Category: Dna repair]]
-[[Category: Immune system]]
-[[Category: Nuclease]]
-[[Category: Ygbt]]