Cis Element:Phage lambda attP: Difference between revisions

Latest revision as of 08:40, 27 May 2013

Cis element summary table

Standard Name	lambda attP
Synonyms
Function	phage attachment site
Location	approximately nt 27 571 - 27 813 (PMID:6246439^[1]) attP core sequence located at nt 27 721 - 27 735 (PMID:6246439^[1])
SO terms
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Notes

In the free phage, the att site is referred to as attP (phage attachment site) while the corresponding site in a host genome is called attB (bacterial attachment site). After integration occurs to create a prophage, these sites are then known as attL (left end of prophage) and attR (right end of prophage). Reviewed in Lambda II.^[2]

Location and Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
Phage Lambda (NC_001416)		NC_001416: 27571..27813	Gbrowse (Bacteriophage lambda)	FASTA Dump
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Notes

Interactions

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See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	References
Protein	Phage Lambda Int protein	PMID:159130^[3], PMID:2958633^[4]
Protein	E. coli host protein IHF (Integration Host Factor)	PMID:2958633^[4]
Protein	Phage Lambda Xis protein	PMID:3156374^[5]
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Notes

Mutant alleles and phenotypes

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Allele	Nt change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
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Notes

Accessions

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:	Escherichia coli str. K-12 substr. MG1655
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Notes

References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.0 ^1.1 Hsu, PL et al. (1980) The lambda phage att site: functional limits and interaction with Int protein. Nature 285 85-91 PubMed
↑ Edited by Roger W. Hendrix, Jeffrey W. Roberts, Franklin W. Stahl and Robert A. Weisberg (1983) Lambda II (Cold Spring Harbor Laboratory, Cold Spring Harbor, NY)
↑ Ross, W et al. (1979) Interaction of int protein with specific sites on lambda att DNA. Cell 18 297-307 PubMed
↑ ^4.0 ^4.1 Thompson, JF et al. (1987) Protein-protein interactions in a higher-order structure direct lambda site-specific recombination. J. Mol. Biol. 195 481-93 PubMed
↑ Yin, S et al. (1985) Interaction of the lambda site-specific recombination protein Xis with attachment site DNA. Proc. Natl. Acad. Sci. U.S.A. 82 1040-4 PubMed

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+{|   id="U4a413ab9aedf9"  class=" tableEdit Cis_element_summary_table"
 |-
@@ Line 25: / Line 25: @@
 !align=left {{table_heading_style}} |Location
 ||
-approximately nt 27 718 - 27 746
+approximately nt 27 571 - 27 813 (PMID:6246439)
+''attP'' core sequence located at nt 27 721 - 27 735 (PMID:6246439)
 |-
 !align=left {{table_heading_style}} |SO terms
@@ Line 31: / Line 33: @@
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 |}
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 ===Notes===
-In the free phage, the ''att'' site is referred to as ''attP'' (<u>p</u>hage <u>att</u>achment site) while the corresponding site in a host genome is called ''attB'' (<u>b</u>acterial <u>att</u>achment site).  After integration occurs to create a prophage, these sites are then known as ''attL'' (<u>l</u>eft end of prophage) and ''attR'' (<u>r</u>ight end of prophage).
+In the free phage, the ''att'' site is referred to as ''attP'' (<u>p</u>hage <u>att</u>achment site) while the corresponding site in a host genome is called ''attB'' (<u>b</u>acterial <u>att</u>achment site).  After integration occurs to create a prophage, these sites are then known as ''attL'' (<u>l</u>eft end of prophage) and ''attR'' (<u>r</u>ight end of prophage).  Reviewed in <u>Lambda II.</u><ref name=LIB:Lambda_II/>
 == Location and Sequence ==
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 *
 ****************************************************************************************** -->{{Gene_location_help}}
-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="V4a413aba1592f"  class=" tableEdit Gene_location_table"
 |- {{table_heading_style}}
 !|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
@@ Line 56: / Line 58: @@
 |
-NC_001416: 27718..27746<br />{{GBrowseFigureByCoord|27713|27751|bacteriophage_lambda|NC_001416}}
+NC_001416: 27571..27813<br />{{GBrowseFigureByCoord|27521|27863|bacteriophage_lambda|NC_001416}}
 |
-{{GBrowseLink|bacteriophage_lambda|NC_001416|27718|27746|Gbrowse (Bacteriophage lambda)}}
+{{GBrowseLink|bacteriophage_lambda|NC_001416|27571|27813|Gbrowse (Bacteriophage lambda)}}
 |
-{{GBrowseFastaLink|bacteriophage_lambda|NC_001416|27718|27746|FASTA Dump}}
+{{GBrowseFastaLink|bacteriophage_lambda|NC_001416|27571|27813|FASTA Dump}}
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.164833.V4a413aba1592f&page=164833&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table] || || || ||
+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.164833.V4a413aba1592f&page=164833&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table]</span> || || || ||
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-{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="T4a413aba1f82d"  class=" tableEdit Product_interactions_table dataTable"
 |- {{table heading style}}
 !|Partner Type!!Partner!!Notes!!References!!Evidence
+|-
+|
+Protein
+|
+Phage Lambda Int protein
+|
+|
+PMID:159130, PMID:2958633
+|
+|-
+|
+Protein
+|
+''E. coli'' host protein IHF (Integration Host Factor)
+|
+|
+PMID:2958633
+|
+|-
+|
+Protein
+|
+Phage Lambda Xis protein
+|
+|
+PMID:3156374
+|
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+|- class="tableEdit_footer"
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 |}
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 |- {{table_heading_style}}
 !|Allele!!Nt change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
-|-class='sortbottom'
+|- class="tableEdit_footer"
-|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.164833.D4a413aba21605&page=164833&pagename={{FULLPAGENAMEE}}&type=0&template=Cis_Element_allele_table edit table] || || || || || ||
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 ****************************************************************************************** -->{{Gene_resources_help}}
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 |- {{table_heading_style}}
 !|Resource!!Resource Type!!Source!!Notes/Reference
-|-class='sortbottom'
+|- class="tableEdit_footer"
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 ****************************************************************************************** -->{{Gene_accessions_help}}
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+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="N4a413aba24414"  class=" tableEdit Gene_accessions_table"
 |- {{table_heading_style}}
 !|Database!!Accession!!Notes
+|-
+|
+[[EcoCyc]]
+|
+EcoCyc:
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[[EcoGene]]
+|
+EcoGene:
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[[RegulonDB]]
+|
+RegulonDB:
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[[EchoBASE]]
+|
+EchoBASE:
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[[ASAP]]
+|
+ASAP:
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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+|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.164833.N4a413aba24414&page=164833&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
 |}
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 {{BacktoTop}}
 {{RefHelp}}
-<references/>
+<references />
-===Categories===[[Category:Phage lambda:Cis_Element]]
+===Categories===
+[[Category:Phage lambda:Cis_Element]]

Cis Element:Phage lambda attP: Difference between revisions

Latest revision as of 08:40, 27 May 2013

Cis element summary table

Notes

Location and Sequence

Notes

Interactions

Notes

Mutant alleles and phenotypes

Notes

Genetic Resources

Notes

Accessions

Notes

References

Categories

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