Latest revision as of 09:54, 7 December 2016

Description: flavodoxin, ribonucleoside-diphosphate reductase

Gene name	nrdI
Synonyms	ymaA
Essential	yes PubMed
Product	ribonucleoside-diphosphate reductase
Function	synthesis of deoxyribonucleoside triphosphates
*Gene expression levels in SubtiExpress*: nrdI
*Interactions involving this protein in SubtInteract*: NrdI
Metabolic function and regulation of this protein in SubtiPathways: nrdI
MW, pI	14 kDa, 8.58
Gene length, protein length	390 bp, 130 aa
Immediate neighbours	ymzA, nrdE
Gene sequence (+200bp)	Protein sequence
Genetic context This image was kindly provided by SubtiList
Expression at a glance PubMed

Categories containing this gene/protein

biosynthesis/ acquisition of nucleotides, essential genes

This gene is a member of the following regulons

ResD regulon

The gene

Basic information

Locus tag: BSU17370

Phenotypes of a mutant

essential PubMed

Database entries

BsubCyc: BSU17370

DBTBS entry: [1]

SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

Catalyzed reaction/ biological activity:

Protein family: nrdI family (according to Swiss-Prot)

Paralogous protein(s): YosM

Extended information on the protein

Kinetic information:

Domains:

Modification:

Cofactor(s):

Effectors of protein activity:

Interactions:
- NrdI-NrdF PubMed

Localization:

Database entries

BsubCyc: BSU17370

Structure: 1RLJ

UniProt: P50618

KEGG entry: [3]

E.C. number:

Additional information

Expression and regulation

Operon: nrdI-nrdE-nrdF-ymaB PubMed

Expression browser: nrdI PubMed

Sigma factor: SigA PubMed

Regulation:
- expressed under anaerobic conditions (ResD) PubMed

Regulatory mechanism:
- ResD: transcription activation PubMed

Additional information:
- A ncRNA is predicted between ymzA and nrdI PubMed

Biological materials

Mutant:

Expression vector:

lacZ fusion:

GFP fusion:

two-hybrid system:

Antibody:

Labs working on this gene/protein

Your additional remarks

References

Reviews

Original Publications

Additional publications: PubMed <pubmed>16885274,8969495, 12682299 ,20525796</pubmed>

@@ Line 1: / Line 1: @@
-* '''Description:''' write here <br/><br/>
+{{#bank: nrdI}}
+* '''Description:''' flavodoxin, ribonucleoside-diphosphate reductase <br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 10: / Line 11: @@
 |style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' ||
+|style="background:#ABCDEF;" align="center"| '''Product''' || ribonucleoside-diphosphate reductase
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+|style="background:#ABCDEF;" align="center"|'''Function''' || synthesis of deoxyribonucleoside triphosphates
+|-
+|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=BSU17370 nrdI]
+|-
+|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=NrdI NrdI]
+|-
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=nrdI nrdI]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 8.58
@@ Line 18: / Line 25: @@
 |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 390 bp, 130 aa
 |-
-|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' ||
+|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ymzA]]'', ''[[nrdE]]''
 |-
 |style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ymaA_nucleotide.txt     Gene sequence      (+200bp)   ]'''
@@ Line 24: / Line 31: @@
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:ymaA_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=nrdI_1868617_1869009_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:nrdI_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU17370]]
 |-
 |}
 __TOC__
+<br/><br/><br/><br/>
+<br/><br/><br/><br/>
+<br/><br/><br/><br/>
+<br/><br/>
+= [[Categories]] containing this gene/protein =
+{{SubtiWiki category|[[biosynthesis/ acquisition of nucleotides]]}},
+{{SubtiWiki category|[[essential genes]]}}
-<br/><br/>
+= This gene is a member of the following [[regulons]] =
+{{SubtiWiki regulon|[[ResD regulon]]}}
 =The gene=
@@ Line 35: / Line 54: @@
 === Basic information ===
-* '''Coordinates:'''
+* '''Locus tag:''' BSU17370
 ===Phenotypes of a mutant ===
+essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
 === Database entries ===
+* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU17370&redirect=T BSU17370]
-* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ymaA.html]
+* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/nrdIEF-ymaB.html]
 * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11426]
 === Additional information===
 =The protein=
@@ Line 54: / Line 75: @@
 * '''Catalyzed reaction/ biological activity:'''
-* '''Protein family:'''
+* '''Protein family:''' nrdI family (according to Swiss-Prot)
-* '''Paralogous protein(s):'''
+* '''Paralogous protein(s):''' [[YosM]]
 === Extended information on the protein ===
@@ Line 70: / Line 91: @@
 * '''Effectors of protein activity:'''
-* '''Interactions:'''
+* '''[[SubtInteract|Interactions]]:'''
+** [[NrdI]]-[[NrdF]] {{PubMed|23402532}}
-* '''Localization:'''
+* '''[[Localization]]:'''
 === Database entries ===
+* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU17370&redirect=T BSU17370]
-* '''Structure:'''
+* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1RLJ 1RLJ]
-* '''Swiss prot entry:'''
+* '''UniProt:''' [http://www.uniprot.org/uniprot/P50618 P50618]
-* '''KEGG entry:'''
+* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU17370]
 * '''E.C. number:'''
@@ Line 88: / Line 111: @@
 =Expression and regulation=
-* '''Operon:'''
+* '''Operon:''' ''[[nrdI]]-[[nrdE]]-[[nrdF]]-[[ymaB]]'' {{PubMed|16885274}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=nrdI_1868617_1869009_1 nrdI] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|16885274}}
 * '''Regulation:'''
+** expressed under anaerobic conditions ([[ResD]]) {{PubMed|16885274}}
 * '''Regulatory mechanism:'''
+** [[ResD]]: transcription activation {{PubMed|16885274}}
 * '''Additional information:'''
+** A [[ncRNA]] is predicted between ''[[ymzA]]'' and ''[[nrdI]]'' {{PubMed|20525796}}
 =Biological materials =
@@ Line 117: / Line 145: @@
 =References=
+==Reviews==
+<pubmed> 17229208 </pubmed>
+==Original Publications==
+'''Additional publications:''' {{PubMed|23402532}}
+<pubmed>16885274,8969495, 12682299 ,20525796</pubmed>
-# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
+[[Category:Protein-coding genes]]