intD: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

IntD

Synonyms

DLP12 prophage; predicted integrase[1], B0537[2][1], Int[2][1], IntD[2][1] , ECK0530, int, JW0525, b0537

Product description

DLP12 prophage; predicted integrase[2][3]

Integrase gene within defective prophage DLP12[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:IPR002104

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011010

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013762

F

Seeded from EcoCyc (v14.0)

complete

GO:0006310

DNA recombination

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002104

P

Seeded from EcoCyc (v14.0)

complete

GO:0006310

DNA recombination

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013762

P

Seeded from EcoCyc (v14.0)

complete

GO:0006310

DNA recombination

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0233

P

Seeded from EcoCyc (v14.0)

complete

GO:0015074

DNA integration

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002104

P

Seeded from EcoCyc (v14.0)

complete

GO:0015074

DNA integration

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013762

P

Seeded from EcoCyc (v14.0)

complete

GO:0015074

DNA integration

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0229

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

ynaE

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

paaG

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

ydfK

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

rpsI

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

rpsD

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

yiiQ

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

gadX

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

rplD

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

rof

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

ruvB

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

dinG

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

crl

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

ribH

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

yeaO

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

rplQ

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

rplB

PMID:16606699[5]

Experiment(s):EBI-1137105

Protein

phnA

PMID:16606699[5]

Experiment(s):EBI-1137105
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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 

MSLFRRNEIW YASYSLPGGK RIKESLGTKD KRQAQELHDK RKAELWRVEK LGDLPDVTFE
EACLRWLEEK ADKKSLDSDK SRIEFWLEHF EGIRLKDISE AKIYSAVSRM HNRKTKEIWK
QKVQAAIRKG KELPVYEPKP VSTQTKAKHL AMIKAILRAA ERDWKWLEKA PVIKIPAVRN
KRVRWLEKEE AKRLIDECPE PLKSVVKFAL ATGLRKSNII NLEWQQIDMQ RRVAWVNPEE
SKSNRAIGVA LNDTACKVLR DQIGKHHKWV FVHTKAAKRA DGTSTPAVRK MRIDSKTSWL
SACRRAGIED FRFHDLRHTW ASWLIQSGVP LSVLQEMGGW ESIEMVRRYA HLAPNHLTEH
ARKIDDIFGD NVPNMSHSEI MEDIKKA
Length

387

Mol. Wt

45.09 kDa

pI

10.1 (calculated)

Extinction coefficient

89,950 - 90,450 (calc based on 5 Y, 15 W, and 4 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

184..356

PF00589 Phage integrase family

PMID:19920124[6]

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

Structures

<beststructure> gene=intD 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:16128520

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947162

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001842

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P24218

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10507

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10507

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947162

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000500

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0502

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 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  6. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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