nrdI:Gene Product(s): Difference between revisions

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Adding "length" to the physical properties table.
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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
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protein that stimulates ribonucleotide reduction<ref name='LIB:Riley_2006'/>, B2674<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YgaO<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, NrdI<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''protein that stimulates ribonucleotide reduction<ref name='LIB:Riley_2006'/>, B2674<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YgaO<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, NrdI<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK2668, JW2649, ygaO, b2674''
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!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
!|Qualifier!!GO ID!!GO term name!!Reference!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|
|
GO:0015949
|
nucleobase, nucleoside and nucleotide interconversion
|
|
|
|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
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required fields missing 
|-
|
 
|
GO:0006464
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protein modification process
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PMID:18799738
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IDA: Inferred from Direct Assay
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|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
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complete
|-
|
 
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GO:0010181
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FMN binding
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PMID:18799738
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IDA: Inferred from Direct Assay
|
 
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
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complete


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!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence


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!|Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes


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!align=left {{table heading style}} |Name
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!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
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15.34 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
15.339 kDa
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!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
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9.7 (calculated)
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!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
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18450 - 18575 (calc based on 5 Y, 2 W, and 1 C residues)  
18,450 - 18,575 (calc based on 5 Y, 2 W, and 1 C residues)


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<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span>
<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span><table>
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|- {{table heading style}}
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!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-
|
Domain
|
5..123
|
[http://pfam.janelia.org/family/PF07972 PF07972  NrdI Flavodoxin like ]
|
 
|
PMID:19920124


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<td>
<!-- motifs column 2-->
<motif_map/>
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</table>


<span id="Structure"></span><big>'''Structure'''</big>
<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
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!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
||
||
<beststructure>nrdI
<beststructure>
562</beststructure>
gene=nrdI
 
taxon=562,83333
</beststructure>
|-
|-
!align=left {{table heading style}} |Models
!align=left {{table heading style}} |Models
||
||
View models at:
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=nrdI&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P0A772 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=nrdI&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P0A772 PSI-PRED (P0A772)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P0A772 Genomes TO Protein (P0A772)] (GTOP)
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)


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<!--Structure_notes--></protect>
</td><td></protect>
==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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===Notes===
===Notes===


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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/16130588 GI:16130588]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/NP_417160.1 GeneID:947158]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
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ASAP:ABE-0008804
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.uniprot.org/uniprot/P0A772 UniProtKB/Swiss-Prot:P0A772]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[EcoCyc]]
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EcoCyc:G7402
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
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[[EcoGene]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G7402-MONOMER EcoCyc:G7402-MONOMER]
EcoGene:EG13287
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
|
|
[[uniprot:P0A772|UniProt:P0A772]]
[http://www.ncbi.nlm.nih.gov/gene?term=947158 GeneID:947158]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_417160 RefSeq:NP_417160]
RegulonDB:ECK120003969
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://salilab.org/modbase/searchbyid?databaseID=P0A772 ModBase:P0A772]
EchoBASE:EB3072
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
 
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0015949_!_nucleobase, nucleoside and nucleotide interconversion]]

Latest revision as of 20:54, 17 February 2015

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

NrdI

Synonyms

protein that stimulates ribonucleotide reduction[1], B2674[2][1], YgaO[2][1], NrdI[2][1] , ECK2668, JW2649, ygaO, b2674

Product description

conserved protein that may stimulate ribonucleotide reductase[2][3]

Part of nrdHIEF operon, function unknown; stimulatory effect on ribonucleotide reduction; non-essential gene[4]

EC number (for enzymes)


edit table


Notes

Function

[back to top]


Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
edit table

Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence
edit table


Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes
edit table


Notes

Structure and Physical Properties

[back to top]


Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MSQLVYFSSS SENTQRFIER LGLPAVRIPL NERERIQVDE PYILIVPSYG GGGTAGAVPR
QVIRFLNDEH NRALLRGVIA SGNRNFGEAY GRAGDVIARK CGVPWLYRFE LMGTQSDIEN
VRKGVTEFWQ RQPQNA
Length

136

Mol. Wt

15.339 kDa

pI

9.7 (calculated)

Extinction coefficient

18,450 - 18,575 (calc based on 5 Y, 2 W, and 1 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Domain

5..123

PF07972 NrdI Flavodoxin like

PMID:19920124[5]

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<motif_map/>

Structure
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Structures

<beststructure> gene=nrdI taxon=562,83333 </beststructure>

Models

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Structure figures

Notes

Gene Product Resources

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Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16130588

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947158

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008804

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A772

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7402

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13287

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947158

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003969

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3072

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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