hsdS: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

HsdS

Synonyms

specificity determinant for hsdM and hsdR[1], B4348[2][1], Hss[2][1], Hsp[2][1], HsdS[2][1] , ECK4338, hsp, hss, JW4311, b4348

Product description

specificity determinant for hsdM and hsdR[2][3];

Component of [[:Category:Complex:EcoKI restriction-modification system|EcoKI restriction-modification system]][3]

Specificity determinant for HsdM and HsdR[4]

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:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000055

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0006304

DNA modification

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000055

P

Seeded from EcoCyc (v14.0)

complete

GO:0009307

DNA restriction-modification system

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0680

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

Subunits of [[:Category:Complex:EcoKI restriction-modification system|EcoKI restriction-modification system]]

could be indirect

Protein

aceF

PMID:15690043[5]

Experiment(s):EBI-890261, EBI-895222

Protein

hsdM

PMID:15690043[5]

Experiment(s):EBI-890261, EBI-895222

Protein

hsdR

PMID:15690043[5]

Experiment(s):EBI-895222

Protein

hupA

PMID:15690043[5]

Experiment(s):EBI-895222

Protein

hupB

PMID:15690043[5]

Experiment(s):EBI-895222

Protein

lpdA

PMID:15690043[5]

Experiment(s):EBI-895222

Protein

malP

PMID:15690043[5]

Experiment(s):EBI-895222

Protein

rplD

PMID:15690043[5]

Experiment(s):EBI-895222

Protein

rplU

PMID:15690043[5]

Experiment(s):EBI-895222

Protein

rpsG

PMID:15690043[5]

Experiment(s):EBI-895222

Protein

hflB

PMID:16606699[6]

Experiment(s):EBI-1147886

Protein

rplU

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplD

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

hsdM

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):28.692887

Protein

hsdR

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

malP

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

hupB

PMID:19402753[7]

LCMS(ID Probability):99.6

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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 

MSAGKLPEGW VIAPVSTVTT LIRGVTYKKE QAINYLKDDY LPLIRANNIQ NGKFDTTDLV
FVPKNLVKES QKISPEDIVI AMSSGSKSVV GKSAHQHLPF ECSFGAFCGV LRPEKLIFSG
FIAHFTKSSL YRNKISSLSA GANINNIKPA SFDLINIPIP PLAEQKIIAE KLDTLLAQVD
STKARFEQIP QILKRFRQAV LGGAVNGKLT EKWRNFEPQH SVFKKLNFES ILTELRNGLS
SKPNESGVGH PILRISSVRA GHVDQNDIRF LECSESELNR HKLQDGDLLF TRYNGSLEFV
GVCGLLKKLQ HQNLLYPDKL IRARLTKDAL PEYIEIFFSS PSARNAMMNC VKTTSGQKGI
SGKDIKSQVV LLPPVKEQAE IVRRVEQLFA YADTIEKQVN NALARVNNLT QSILAKAFRG
ELTAQWRAEN PDLISGENSA AALLEKIKAE RAASGGKKAS RKKS
Length

464

Mol. Wt

51.396 kDa

pI

10.0 (calculated)

Extinction coefficient

28,420 - 29,045 (calc based on 8 Y, 3 W, and 5 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

7..191

PF01420 Type I restriction modification DNA specificity domain

PMID:19920124[8]

Domain

318..405

PF01420 Type I restriction modification DNA specificity domain

PMID:19920124[8]

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

Structures

<beststructure> gene=hsdS 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:16132169

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948867

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014258

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P05719

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10460

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10460

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948867

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000453

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0455

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 1.4 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 2.4 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. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 5.3 5.4 5.5 5.6 5.7 5.8 5.9 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  6. ↑ Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ 7.0 7.1 7.2 7.3 7.4 7.5 7.6 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  8. ↑ 8.0 8.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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