yciF:Gene Product(s)

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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

YciF

Synonyms

conserved protein[1], B1258[2][1], YciF[2][1] , ECK1252, JW1250, b1258

Product description

conserved protein[2]; putative structural protein[3];

Component of putative structural protein[3]

Function unknown, H-NS repressed[4]; dimeric; rubrerythrin/ferritin-like putative metal-binding protein[5]

EC number (for enzymes)


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Notes

Function

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<protect> 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:0006974

response to DNA damage stimulus

PMID:11967071[6]

IEP: Inferred from Expression Pattern

P

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

Subunits of putative structural protein

could be indirect

Protein

mdtC

PMID:16606699[7]

Experiment(s):EBI-1139331

Protein

polB

PMID:16606699[7]

Experiment(s):EBI-1139331

Protein

kdpD

PMID:16606699[7]

Experiment(s):EBI-1139331

Protein

trpA

PMID:16606699[7]

Experiment(s):EBI-1139331, EBI-1139344

Protein

fabI

PMID:16606699[7]

Experiment(s):EBI-1139331

Protein

rpmB

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

ybgI

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

pfkA

PMID:19402753[8]

MALDI(Z-score):27.964914

Protein

talA

PMID:19402753[8]

MALDI(Z-score):38.865437

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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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<protect> 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 

MNMKTIEDVF IHLLSDTYSA EKQLTRALAK LARATSNEKL SQAFHAHLEE THGQIERIDQ
VVESESNLKI KRMKCVAMEG LIEEANEVIE STEKNEVRDA ALIAAAQKVE HYEIASYGTL
ATLAEQLGYR KAAKLLKETL EEEKATDIKL TDLAINNVNK KAENKA
Length

166

Mol. Wt

18.597 kDa

pI

5.5 (calculated)

Extinction coefficient

5,960 - 6,085 (calc based on 4 Y, 0 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..163

PF05974 Domain of unknown function (DUF892)

PMID:19920124[9]

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

Structures

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

Models

View models at:

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Structure figures

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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:16129219

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947133

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004222

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P21362

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11126

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11126

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947133

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001110

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1116

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 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ Yoshida, T et al. (1993) Function of the Escherichia coli nucleoid protein, H-NS: molecular analysis of a subset of proteins whose expression is enhanced in a hns deletion mutant. Mol. Gen. Genet. 237 113-22 PubMed
  5. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  6. ↑ Khil, PP & Camerini-Otero, RD (2002) Over 1000 genes are involved in the DNA damage response of Escherichia coli. Mol. Microbiol. 44 89-105 PubMed
  7. ↑ 7.0 7.1 7.2 7.3 7.4 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  8. ↑ 8.0 8.1 8.2 8.3 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  9. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

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