smpB:Gene Product(s): Difference between revisions

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MALDI(Z-score):18.851547  
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MALDI(Z-score):25.712309  
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Protein
Protein
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[[gyrB:Gene_Product(s)|gyrB]]
gyrB
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Protein
Protein
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[[hupA:Gene_Product(s)|hupA]]
hupA
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Protein
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[[yfiF:Gene_Product(s)|yfiF]]
yfiF
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PMID:19402753
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MALDI(Z-score):36.128347  
MALDI(Z-score):36.128347  
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Protein
Protein
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[[rplM:Gene_Product(s)|rplM]]
rplM
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Protein
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[[yeeX:Gene_Product(s)|yeeX]]
yeeX
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Protein
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[[ycbB:Gene_Product(s)|ycbB]]
ycbB
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PMID:19402753
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MALDI(Z-score):24.925478  
MALDI(Z-score):24.925478  
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!|Type!!Residues!!Description!!Notes!!References
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View models at:
View models at:
* [http://www.proteinmodelportal.org/query/uniprot/P0A832 Protein Model Portal]
* [http://www.proteinmodelportal.org/query/uniprot/P0A832 Protein Model Portal]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P0A832 PSI-PRED (P0A832)]
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P0A832 Genomes TO Protein (P0A832)] (GTOP)


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!|Database!!Accession!!Notes
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[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWiki Page]])
[[ASAP]]
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0008622&formSubmitReturn=1 ASAP:ABE-0008622]
ASAP:ABE-0008622
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Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG11782 ECOCYC:EG11782]
EcoCyc:EG11782
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Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EcoGene]]
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[http://ecogene.org/geneinfo.php?eg_id=EG11782 EcoGene:EG11782]
EcoGene:EG11782
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Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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Escherichia coli str. K-12 substr. MG1655  
Escherichia coli str. K-12 substr. MG1655  
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[[RegulonDB]]
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RegulonDB:ECK120001716
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[EchoBASE]]
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EchoBASE:EB1730
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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Latest revision as of 20:53, 17 February 2015

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

SmpB

Synonyms

trans-translation protein[1], B2620[2][1], SmqB[2][1], SmpB[2][1] , ECK2616, JW2601, smqB, b2620

Product description

small protein B[2][3]

tmRNA RNA-binding protein; required for peptide-tagging trans-translation and association of tmRNA(SsrA) with ribosomes[4]

EC number (for enzymes)


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Notes

Function

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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
GO:0003723

RNA binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00023

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000037

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0694

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00023

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0086

C

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000037

P

Seeded from EcoCyc (v14.0)

complete

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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

Protein

aidB

PMID:15690043[5]

Experiment(s):EBI-882920

Protein

clpA

PMID:15690043[5]

Experiment(s):EBI-882920

Protein

infB

PMID:15690043[5]

Experiment(s):EBI-882920

Protein

malP

PMID:15690043[5]

Experiment(s):EBI-882920

Protein

parC

PMID:15690043[5]

Experiment(s):EBI-882920

Protein

rplF

PMID:15690043[5]

Experiment(s):EBI-882920, EBI-890426

Protein

rpsA

PMID:15690043[5]

Experiment(s):EBI-882920, EBI-890426

Protein

rpsB

PMID:15690043[5]

Experiment(s):EBI-882920, EBI-890426

Protein

rpsC

PMID:15690043[5]

Experiment(s):EBI-882920

Protein

secA

PMID:15690043[5]

Experiment(s):EBI-882920

Protein

selB

PMID:15690043[5]

Experiment(s):EBI-882920

Protein

ycbB

PMID:15690043[5]

Experiment(s):EBI-882920

Protein

yfiF

PMID:15690043[5]

Experiment(s):EBI-882920

Protein

gyrA

PMID:15690043[5]

Experiment(s):EBI-890426

Protein

gyrB

PMID:15690043[5]

Experiment(s):EBI-890426

Protein

skp

PMID:15690043[5]

Experiment(s):EBI-890426

Protein

hupA

PMID:15690043[5]

Experiment(s):EBI-890426

Protein

hupB

PMID:15690043[5]

Experiment(s):EBI-890426

Protein

rplM

PMID:15690043[5]

Experiment(s):EBI-890426

Protein

rplX

PMID:15690043[5]

Experiment(s):EBI-890426

Protein

rpmB

PMID:15690043[5]

Experiment(s):EBI-890426

Protein

rpsE

PMID:15690043[5]

Experiment(s):EBI-890426

Protein

rpsN

PMID:15690043[5]

Experiment(s):EBI-890426

Protein

yeeX

PMID:15690043[5]

Experiment(s):EBI-890426

Protein

vsr

PMID:16606699[6]

Experiment(s):EBI-1143521

Protein

yibK

PMID:16606699[6]

Experiment(s):EBI-1143521

Protein

rplA

PMID:16606699[6]

Experiment(s):EBI-1143521

Protein

ycgE

PMID:16606699[6]

Experiment(s):EBI-1143521

Protein

ycfJ

PMID:16606699[6]

Experiment(s):EBI-1143521

Protein

secA

PMID:19402753[7]

MALDI(Z-score):18.851547

Protein

aidB

PMID:19402753[7]

LCMS(ID Probability):98.3 MALDI(Z-score):27.388524

Protein

rplF

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):35.816231

Protein

skp

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsA

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):26.098127

Protein

gyrA

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

parC

PMID:19402753[7]

MALDI(Z-score):37.105392

Protein

malP

PMID:19402753[7]

MALDI(Z-score):28.886498

Protein

clpA

PMID:19402753[7]

MALDI(Z-score):25.712309

Protein

hupB

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpmB

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

gyrB

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

yfiF

PMID:19402753[7]

MALDI(Z-score):36.128347

Protein

rplM

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

yeeX

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

ycbB

PMID:19402753[7]

MALDI(Z-score):24.925478

RNA

SsrA RNA


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Notes

Localization

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

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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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 

MTKKKAHKPG SATIALNKRA RHEYFIEEEF EAGLALQGWE VKSLRAGKAN ISDSYVLLRD
GEAFLFGANI TPMAVASTHV VCDPTRTRKL LLNQRELDSL YGRVNREGYT VVALSLYWKN
AWCKVKIGVA KGKKQHDKRS DIKEREWQVD KARIMKNAHR
Length

160

Mol. Wt

18.269 kDa

pI

10.4 (calculated)

Extinction coefficient

29,450 - 29,700 (calc based on 5 Y, 4 W, and 2 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

Initiator Methionine

1

Removed

UniProt:P0A832

Domain

12..80

PF01668 SmpB protein

PMID:19920124[8]

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<motif_map/>

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

Structures

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

Models

View models at:

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Structure figures

Notes

Gene Product Resources

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

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:16130539

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947296

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008622

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A832

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11782

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11782

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947296

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001716

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1730

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. ↑ 5.00 5.01 5.02 5.03 5.04 5.05 5.06 5.07 5.08 5.09 5.10 5.11 5.12 5.13 5.14 5.15 5.16 5.17 5.18 5.19 5.20 5.21 5.22 5.23 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  6. ↑ 6.0 6.1 6.2 6.3 6.4 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ 7.00 7.01 7.02 7.03 7.04 7.05 7.06 7.07 7.08 7.09 7.10 7.11 7.12 7.13 7.14 7.15 7.16 7.17 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  8. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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