Rny - Revision history

Jstuelk: /* Reviews */

2015-03-08T16:28:04Z

‎Reviews

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Jstuelk at 12:40, 18 November 2014

2014-11-18T12:40:21Z

134.76.70.252 at 09:53, 17 April 2014

2014-04-17T09:53:25Z

134.76.70.252 at 11:40, 8 April 2014

2014-04-08T11:40:13Z

134.76.38.147 at 13:47, 2 April 2014

2014-04-02T13:47:00Z

Jstuelk at 20:09, 16 January 2014

2014-01-16T20:09:49Z

Jstuelk at 17:59, 12 January 2014

2014-01-12T17:59:32Z

134.76.70.252 at 10:50, 7 January 2014

2014-01-07T10:50:16Z

134.76.70.252 at 14:16, 18 November 2013

2013-11-18T14:16:59Z

Jstuelk: /* Biological materials */

2013-11-13T17:35:59Z

‎Biological materials

@@ Line 89: / Line 89: @@
 ** [[RNase]] Y is responsible for the degradation of [[23S rRNA]], [[16S rRNA]], and mRNAs in aging spores {{PubMed|22209493}}
 ** [[RNase]] Y cleaves the leader of the ''[[cwlO]]'' mRNA at a stem-loop structure {{PubMed|24163346}}
 * '''Protein family:''' Member of the HD superfamily of metal-dependent phosphohydrolases; 2',3' cyclic nucleotide phosphodiesterase family (according to Swiss-Prot)
@@ Line 199: / Line 200: @@
 ==Publications on ''B. subtilis rny''==
-<pubmed>21862575 22198292 22209493 22412379 23060960 23326572 21908660 21856853 21815947 24163346 18763711,19193632,17005971 19779461 19820159 20418391 20525796 20572937,21803996 21843271 23504012 </pubmed>
+<pubmed>21862575 22198292 22209493 22412379 23060960 23326572 21908660 21856853 21815947 24163346 18763711,19193632,17005971 19779461 19820159 20418391 20525796 20572937,21803996 21843271 23504012 25402410</pubmed>
 ==Publications on homologs from other organisms==
 <pubmed> 17951247  20385762 15853881 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 157: / Line 157: @@
 ** there is a terminator between ''rny'' and ''[[ymdB]]'', most transcripts terminate there {{PubMed|21856853}}
 ** The mRNA has a long 5' leader region. This may indicate RNA-based regulation {{PubMed|20525796}}
 =Biological materials =

@@ Line 19: / Line 19: @@
 |-
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Regulatory function of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=rny rny]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 58,7 kDa, 5.39

@@ Line 64: / Line 64: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 124: / Line 125: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 95: / Line 95: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 ** transmembrane domain	(aa 5–24) {{PubMed|21803996}}
 ** coiled-coiled domain (may form a leucine zipper) (aa 30-150) {{PubMed|21803996}}
-** KH domain	(aa 210–280) {{PubMed|21803996}}
+** KH domain	(aa 210–280) {{PubMed|21803996,18422648}}
-** HD domain	(aa 330–430) {{PubMed|21803996}}
+** HD domain	(aa 330–430) {{PubMed|21803996,9868367}}
 ** C-terminal domain (aa 430-520)  {{PubMed|21803996}}
 * '''Modification:'''
-* '''Cofactor(s):''' requires Mg+2, which can be replaced by Zn+2 or Mn+2 ions, [http://www.ncbi.nlm.nih.gov/pubmed/19779461 PubMed]
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:''' appears sensitive to downstream secondary structure, [http://www.ncbi.nlm.nih.gov/pubmed/19779461 PubMed]
@@ Line 189: / Line 190: @@
 =References=
 ==Reviews==
-<pubmed>21957024 22568516 24064983 </pubmed>
+<pubmed>21957024 22568516 24064983 9868367 18422648</pubmed>
 ==Publications on ''B. subtilis rny''==

@@ Line 1: / Line 1: @@
-* '''Description:''' [[RNase]] Y, 5' end sensitive endoribonuclease, involved in the degradation/processing of mRNA<br/><br/>
+* '''Description:''' [[RNase]] Y, 5' end sensitive endoribonuclease, involved in the degradation/ processing of mRNA<br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 85: / Line 85: @@
 ** [[RNase]] Y initiates the degradation of ''[[rpsO]]'' mRNA {{PubMed|20418391}}
 ** [[RNase]] Y is responsible for the degradation of [[23S rRNA]], [[16S rRNA]], and mRNAs in aging spores {{PubMed|22209493}}
 * '''Protein family:''' Member of the HD superfamily of metal-dependent phosphohydrolases; 2',3' cyclic nucleotide phosphodiesterase family (according to Swiss-Prot)
@@ Line 180: / Line 181: @@
 =Labs working on this gene/protein=
+* [[Ciaran Condon]], IBPC Paris, France [http://www.ibpc.fr/UPR9073/equipe_Ciaran/AccueilCCondonGB.htm Homepage]
-[[Harald Putzer]], IBPC Paris, France [http://www.ibpc.fr/UPR9073/putzer/recherches_harald.htm Homepage]
+* [[Harald Putzer]], IBPC Paris, France [http://www.ibpc.fr/UPR9073/putzer/recherches_harald.htm Homepage]
+* [[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]
 =Your additional remarks=
@@ Line 192: / Line 192: @@
 ==Publications on ''B. subtilis rny''==
-<pubmed>21862575 22198292 22209493 22412379 23060960 23326572 21908660 21856853 21815947 18763711,19193632,17005971 19779461 19820159 20418391 20525796 20572937,21803996 21843271 23504012 </pubmed>
+<pubmed>21862575 22198292 22209493 22412379 23060960 23326572 21908660 21856853 21815947 24163346 18763711,19193632,17005971 19779461 19820159 20418391 20525796 20572937,21803996 21843271 23504012 </pubmed>
 ==Publications on homologs from other organisms==
 <pubmed> 17951247  20385762 15853881 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 18: / Line 18: @@
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=Rny Rny]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Regulatory function of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Regulatory function of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=rny rny]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 58,7 kDa, 5.39

@@ Line 16: / Line 16: @@
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU16960 rny]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/Rny Rny]
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=Rny Rny]
 |-
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Regulatory function of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''

@@ Line 155: / Line 155: @@
 * '''Mutant:'''
 ** 4043 (''rny'' under p-spac control, ''cat''), GP193 (''rny'' under p-xyl control, ''cat''), both available in [[Jörg Stülke]]'s lab
 ** SSB447 (rny under P-spac control, "erm") available in [[Putzer]]  lab.