ydcP: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

YdcP

Synonyms

predicted peptidase[1], YdcP[2][1], B1435[2][1] , ECK1429, JW1431, b1435

Product description

putative collagenase[2][3]

Function unknown, U32 peptidase family[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:0006508

proteolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001539

P

Seeded from EcoCyc (v14.0)

complete

GO:0008233

peptidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001539

F

Seeded from EcoCyc (v14.0)

complete

GO:0008233

peptidase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0645

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

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

rplA

PMID:15690043[5]

Experiment(s):EBI-880468, EBI-886031

Protein

tufA

PMID:15690043[5]

Experiment(s):EBI-880468

Protein

rplB

PMID:16606699[6]

Experiment(s):EBI-1139836

Protein

mrdA

PMID:16606699[6]

Experiment(s):EBI-1139836

Protein

fumA

PMID:16606699[6]

Experiment(s):EBI-1139836

Protein

yhgF

PMID:16606699[6]

Experiment(s):EBI-1139836

Protein

dnaE

PMID:16606699[6]

Experiment(s):EBI-1139836

Protein

groL

PMID:16606699[6]

Experiment(s):EBI-1139836

Protein

sdhA

PMID:16606699[6]

Experiment(s):EBI-1139836

Protein

arpA

PMID:16606699[6]

Experiment(s):EBI-1139836

Protein

ycgE

PMID:16606699[6]

Experiment(s):EBI-1139836

Protein

cysI

PMID:16606699[6]

Experiment(s):EBI-1139836

Protein

cirA

PMID:16606699[6]

Experiment(s):EBI-1139836

Protein

kbl

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rho

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rplC

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rplI

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rplL

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rplS

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rplT

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rplV

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rplX

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rpmG

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rpsA

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rpsC

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rpsE

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rpsG

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rpsN

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

selB

PMID:15690043[5]

Experiment(s):EBI-886031

Protein

rpsN

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplT

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplS

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rho

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplI

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rpsA

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplX

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplA

PMID:19402753[7]

LCMS(ID Probability):99.6 MALDI(Z-score):28.190084

Protein

rplD

PMID:19402753[7]

LCMS(ID Probability):98.7 MALDI(Z-score):5.780482

Protein

kbl

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

selB

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplL

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 

MAKIAAIFQL LDKNVTVSSH RLELLSPARD AAIAREAILH GADAVYIGGP GFGARHNASN
SLKDIAELVP FAHRYGAKIF VTLNTILHDD ELEPAQRLIT DLYQTGVDAL IVQDMGILEL
DIPPIELHAS TQCDIRTVEK AKFLSDVGFT QIVLARELNL DQIRAIHQAT DATIEFFIHG
ALCVAYSGQC YISHAQTGRS ANRGDCSQAC RLPYTLKDDQ GRVVSYEKHL LSMKDNDQTA
NLGALIDAGV RSFKIEGRYK DMSYVKNITA HYRQMLDAII EERGDLARAS SGRTEHFFVP
STEKTFHRGS TDYFVNARKG DIGAFDSPKF IGLPVGEVVK VAKDHLDVAV TEPLANGDGL
NVLIKREVVG FRANTVEKTG ENQYRVWPNE MPADLHKIRP HHPLNRNLDH NWQQALTKTS
SERRVAVDIE LGGWQEQLIL TLTSEEGVSI THTLDGQFDE ANNAEKAMNN LKDGLAKLGQ
TLYYARDVQI NLPGALFVPN SLLNQFRREA ADMLDAARLA SYQRGSRKPV ADPAPVYPQT
HLSFLANVYN QKAREFYHRY GVQLIDAAYE AHEEKGEVPV MITKHCLRFA FNLCPKQAKG
NIKSWKATPM QLVNGDEVLT LKFDCRPCEM HVIGKIKNHI LKMPLPGSVV ASVSPDELLK
TLPKRKG
Length

667

Mol. Wt

74.228 kDa

pI

7.3 (calculated)

Extinction coefficient

51,800 - 52,925 (calc based on 20 Y, 4 W, and 9 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

motif

1-20

UniProt Manual:Signal Peptides

UniProt:P76104

Domain

78..307

PF01136 Peptidase family U32

PMID:19920124[8]

Domain

390..508

PF12392 Collagenase

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=ydcP 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:90111273

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945993

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004786

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P76104

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6746

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13759

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945993

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003335

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3522

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. ↑ 5.00 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 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  6. ↑ 6.00 6.01 6.02 6.03 6.04 6.05 6.06 6.07 6.08 6.09 6.10 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 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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