TrmFO - Revision history

Jstuelk at 14:33, 7 June 2014

2014-06-07T14:33:45Z

134.76.70.252 at 14:06, 17 April 2014

2014-04-17T14:06:58Z

134.76.70.252 at 09:38, 17 April 2014

2014-04-17T09:38:18Z

134.76.38.147 at 13:43, 2 April 2014

2014-04-02T13:43:06Z

Jstuelk at 09:09, 19 November 2013

2013-11-19T09:09:56Z

Jstuelk: /* References */

2013-11-19T09:07:46Z

‎References

Jstuelk at 09:03, 19 November 2013

2013-11-19T09:03:59Z

Jstuelk: /* References */

2013-11-19T09:00:47Z

‎References

Jstuelk: /* Extended information on the protein */

2013-11-19T08:59:26Z

‎Extended information on the protein

134.76.70.252 at 13:21, 16 May 2013

2013-05-16T13:21:08Z

← Older revision		Revision as of 14:33, 7 June 2014
Line 1:		Line 1:
−	* '''Description:~~''' flavoprotein, tRNA:m(5)U-54 methyltransferase, glucose-inhibited division protein <br/><br/>~~	+	{{#bank: TrmFO}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''trmFO''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ylyC, gid ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| tRNA:m(5)U-54 methyltransferase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| tRNA modification~~
−	\|-
−	\|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=BSU16130 trmFO]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 47 kDa, 5.767~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1305 bp, 435 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[topA]]'', ''[[codV]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU16130 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU16130 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU16130 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:gid_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=trmFO_1685812_1687119_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:trmFO_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU16130]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[translation]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU16130
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU16130&redirect=T BSU16130]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11008]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' catalyzes the folate-dependent C(5)-methylation of uridine at position 54 in the TpsiC loop of tRNA
−
−	* '''Protein family:''' TrmFO subfamily (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:''' FAD, methylene-THF {{PubMed\|24228791}}
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU16130&redirect=T BSU16130]
−
−	* '''Structure:'''
−	** [http://www.pdb.org/pdb/explore/explore.do?structureId=3G5S 3G5S] (TrmFO from ''Thermus thermophilus'', 54% identity, 79% similarity) {{PubMed\|19416846}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P39815 P39815]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU16130]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.1.1.74 2.1.1.74]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=trmFO_1685812_1687119_1 trmFO] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 458 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 1069 {{PubMed\|24696501}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 237 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 237 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 439 {{PubMed\|21395229}}
−
−	~~=Biological materials =~~
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed> 16027442 20412857 21846722 24228791 21561081 23157377 23095745 19416846 </pubmed>~~
−	~~[[Category:Protein-coding genes]]~~

@@ Line 118: / Line 118: @@
 ** number of protein molecules per cell (minimal medium with glucose and ammonium): 458 {{PubMed|24696501}}
 ** number of protein molecules per cell (complex medium with amino acids, without glucose): 1069 {{PubMed|24696501}}
 =Biological materials =
 * '''Mutant:'''

← Older revision		Revision as of 09:38, 17 April 2014
Line 116:		Line 116:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 458 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 1069 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 52: / Line 52: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 89: / Line 90: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 91: / Line 91: @@
 * '''Structure:'''
 * '''UniProt:''' [http://www.uniprot.org/uniprot/P39815 P39815]
@@ Line 133: / Line 134: @@
 =References=
-<pubmed> 16027442 20412857 21846722 24228791 21561081 23157377 23095745 </pubmed>
+<pubmed> 16027442 20412857 21846722 24228791 21561081 23157377 23095745 19416846 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 35: / Line 35: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 84: / Line 80: @@
 * '''Modification:'''
-* '''[[Cofactors]]:''' FAD
+* '''[[Cofactors]]:''' FAD, methylene-THF {{PubMed|24228791}}
 * '''Effectors of protein activity:'''

@@ Line 137: / Line 137: @@
 =References=
-'''Additional publications:''' {{PubMed|21561081}}
+<pubmed> 16027442 20412857 21846722 24228791 21561081</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 27: / Line 27: @@
   <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=trmFO_1685812_1687119_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:trmFO_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=trmFO_1685812_1687119_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:trmFO_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU16130]]
 |-
 |}