RnhB - Revision history

Jstuelk: /* Biological materials */

2014-10-14T17:39:43Z

‎Biological materials

Fabian Commichau: /* Biological materials */

2014-10-07T13:31:38Z

‎Biological materials

Fabian Commichau at 13:24, 7 October 2014

2014-10-07T13:24:28Z

Fabian Commichau at 13:23, 7 October 2014

2014-10-07T13:23:46Z

Jstuelk: /* Reviews */

2014-04-24T11:59:28Z

‎Reviews

134.76.38.147 at 13:42, 2 April 2014

2014-04-02T13:42:53Z

Fabian Commichau: /* Biological materials */

2013-10-29T15:30:42Z

‎Biological materials

Fabian Commichau: /* Biological materials */

2013-10-29T15:29:59Z

‎Biological materials

Fabian Commichau: /* Biological materials */

2013-10-29T13:03:33Z

‎Biological materials

Jstuelk at 15:57, 25 July 2013

2013-07-25T15:57:19Z

← Older revision		Revision as of 17:39, 14 October 2014
Line 1:		Line 1:
−	* '''Description:~~''' [[RNase]] HII, endoribonuclease, responsible for removal of single rNMPs incorporated into DNA by DNA polymerase during [[DNA replication]] <br/><br/>~~	+	{{#bank: RnhB}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''rnhB''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''rnh ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| Mn2+-dependent [[RNase]] HII~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| endonucleolytic cleavage of RNA in <br/>RNA-DNA hybrid molecules~~
−	\|-
−	\|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=BSU16060 rnhB]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 28 kDa, 5.518~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 765 bp, 255 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[rbgA]]'', ''[[ylqG]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU16060 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU16060 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU16060 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:rnhB_context.gif]]~~
−	~~<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>~~
−	\|-
−	\|colspan="2" \|'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rnhB_1677451_1678218_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:rnhB_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU16060]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[DNA replication]]}},~~
−	~~{{SubtiWiki category\|[[Rnases]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU16060
−
−	~~===Phenotypes of a mutant ===~~
−	* increased mutation rate {{PubMed\|23882084}}
−	* a ''[[rnhB]] [[rnhC]]'' double mutant grows poorly {{PubMed\|23882084}}
−	* a ''[[rnhB]] [[mutS]]-[[mutL]]'' mutant is not viable {{PubMed\|23882084}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU16060&redirect=T BSU16060]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12666]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** Endonucleolytic cleavage to 5'-phosphomonoester (according to Swiss-Prot)
−	** removal of single rNMPs incorporated into DNA by DNA polymerase during [[DNA replication]] {{PubMed\|23882084}}
−
−	* '''Protein family:''' [[RNase]] HII family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−	** cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU16060&redirect=T BSU16060]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O31744 O31744]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU16060]
−
−	* '''E.C. number:''' 3.1.26.4.
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rnhB_1677451_1678218_1 rnhB] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:''' BP423 (''ΔrnhB::aphA3'') available in [[Fabian Commichau]]'s lab
−
−	* '''Expression vector:''' for expression/ purification from ''B. subtilis'' with N-terminal Strep-tag, for [[SPINE]], expression from plasmid: pBP500 (E. coli amp & B. subtilis E/L) , available in [[Fabian Commichau]]'s lab
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Fabian Commichau]]'s lab
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed>19228197 24464998 </pubmed>~~
−
−	~~==Original publications==~~
−	~~<pubmed>9888800 10094689 12417313 17905985 23882084</pubmed>~~
−	~~[[Category:Protein-coding genes]]~~

@@ Line 127: / Line 127: @@
 * '''Mutant:''' BP423 (''ΔrnhB::aphA3'') available in [[Fabian Commichau]]'s lab
-* '''Expression vector:''' for expression/ purification from ''B. subtilis'' with C-terminal Strep-tag, for [[SPINE]], expression from plasmid: pBP500 (E. coli amp & B. subtilis E/L) , available in [[Fabian Commichau]]'s lab
+* '''Expression vector:''' for expression/ purification from ''B. subtilis'' with N-terminal Strep-tag, for [[SPINE]], expression from plasmid: pBP500 (E. coli amp & B. subtilis E/L) , available in [[Fabian Commichau]]'s lab
 * '''lacZ fusion:'''

@@ Line 127: / Line 127: @@
 * '''Mutant:''' BP423 (''ΔrnhB::aphA3'') available in [[Fabian Commichau]]'s lab
-* '''Expression vector:''' ** for expression/ purification from ''B. subtilis'' with C-terminal Strep-tag, for [[SPINE]], expression from plasmid: pBP500 (E. coli amp & B. subtilis E/L) , available in [[Fabian Commichau]]'s lab
+* '''Expression vector:''' for expression/ purification from ''B. subtilis'' with C-terminal Strep-tag, for [[SPINE]], expression from plasmid: pBP500 (E. coli amp & B. subtilis E/L) , available in [[Fabian Commichau]]'s lab
 * '''lacZ fusion:'''

@@ Line 127: / Line 127: @@
 * '''Mutant:''' BP423 (''ΔrnhB::aphA3'') available in [[Fabian Commichau]]'s lab
-* '''Expression vector:'''
+* '''Expression vector:''' ** for expression/ purification from ''B. subtilis'' with C-terminal Strep-tag, for [[SPINE]], expression from plasmid: pBP500 (E. coli amp & B. subtilis E/L) , available in [[Fabian Commichau]]'s lab
 * '''lacZ fusion:'''
@@ Line 133: / Line 133: @@
 * '''GFP fusion:'''
-* '''two-hybrid system:'''
+* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Fabian Commichau]]'s lab
 * '''Antibody:'''

@@ Line 143: / Line 143: @@
 =References=
 ==Reviews==
-<pubmed>19228197 </pubmed>
+<pubmed>19228197 24464998 </pubmed>
 ==Original publications==
 <pubmed>9888800  10094689 12417313 17905985 23882084</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 56: / Line 56: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 96: / Line 97: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 123: / Line 123: @@
 =Biological materials =
-* '''Mutant: BP424(ΔrnhB), BP431 (ΔrnhC), BP444 (ΔypeP) available in Fabian Commichau's lab
+* '''Mutant:''' BP423 (''ΔrnhB::aphA3'')
 * '''Expression vector:'''

@@ Line 1: / Line 1: @@
-* '''Description:''' [[RNase]] HII, endoribonuclease <br/><br/>
+* '''Description:''' [[RNase]] HII, endoribonuclease, responsible for removal of single rNMPs incorporated into DNA by DNA polymerase during [[DNA replication]] <br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 51: / Line 51: @@
 ===Phenotypes of a mutant ===
 * a ''[[rnhB]] [[rnhC]]'' double mutant grows poorly {{PubMed|23882084}}
 === Database entries ===
@@ Line 68: / Line 70: @@
 === Basic information/ Evolution ===
-* '''Catalyzed reaction/ biological activity:''' Endonucleolytic cleavage to 5'-phosphomonoester (according to Swiss-Prot)
+* '''Catalyzed reaction/ biological activity:'''
 * '''Protein family:''' [[RNase]] HII family (according to Swiss-Prot)