ynbD: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

YnbD

Synonyms

predicted phosphatase, inner membrane protein[1], B1411[2][1], YnbD[2][1] , ECK1404, JW1408, b1411

Product description

predicted phosphatase, inner membrane protein[2][3]

Putative phospholipid or protein phosphatase; predicted inner membrane protein[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:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000326

F

Seeded from EcoCyc (v14.0)

complete

GO:0004725

protein tyrosine phosphatase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016130

F

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0006470

protein amino acid dephosphorylation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000340

P

Seeded from EcoCyc (v14.0)

complete

GO:0006470

protein amino acid dephosphorylation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020422

P

Seeded from EcoCyc (v14.0)

complete

GO:0008138

protein tyrosine/serine/threonine phosphatase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000340

F

Seeded from EcoCyc (v14.0)

complete

GO:0008138

protein tyrosine/serine/threonine phosphatase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020422

F

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000326

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9909

C

Seeded from EcoCyc (v14.0)

complete

GO:0016311

dephosphorylation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000387

P

Seeded from EcoCyc (v14.0)

complete

GO:0016311

dephosphorylation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016130

P

Seeded from EcoCyc (v14.0)

complete

GO:0016791

phosphatase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000387

F

Seeded from EcoCyc (v14.0)

complete

GO:0016791

phosphatase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016130

F

Seeded from EcoCyc (v14.0)

complete

GO:0005887

integral to plasma membrane

PMID:11152613[5]

ISM: Inferred from Sequence Model

PMID:11152613[5]


C

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
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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 

MLQGAGWLLL LAPFFFFTYG SLNQFTAVQD LNSHDIPSQV FGWETAIPFL PWTIVPYWSL
DLLYGFSLFV CSTTFEQRRL VHRLILATVM ACCGFLLYPL KFSFIRPEVS GVTGWLFSQL
ELFDLPYNQS PSLHIILCWL LWRHFRQHLA ERWRKVCGGW FLLIAISTLT TWQHHFIDVI
TGLAVGMLID WMVPVDRRWN YQKPDQRRIK IALPYVVGAG SCIVLMELMM MIQLWWSVWL
CWPVLSLLII GRGYGGLGAI TTGKDSQGKL PPAVYWLTLP CRIGMWLSMR WFCRRLEPVS
KMTAGVYLGA FPRHIPAQNA VLDVTFEFPR GRATKDRLYF CVPMLDLVVP EEGELRQAVA
MLETLREEQG SVLVHCALGL SRSALVVAAW LLCYGHCKTV NEAISYIRAR RPQIVLTDEH
KAMLRLWENR
Length

430

Mol. Wt

49.563 kDa

pI

8.8 (calculated)

Extinction coefficient

134,870 - 136,495 (calc based on 13 Y, 21 W, and 13 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

306..430

PF00782 Dual specificity phosphatase, catalytic domain

PMID:19920124[6]

Domain

79..202

PF01569 PAP2 superfamily

PMID:19920124[6]

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tmhmm.php?gene=ynbD&show=pic&.jpg
Click the image to view raw output from TMHMM.

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

Structures

<beststructure> gene=ynbD 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:16129372

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945985

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004710

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P76093

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6730

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13751

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945985

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003323

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3514

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. ↑ 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 Krogh, A et al. (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305 567-80 PubMed
  6. ↑ 6.0 6.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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