Phage lambda xis:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

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Standard Name

Phage lambda xis

Gene Synonym(s)

xis, lambdap34

Product Desc.

Excisionase

Product Synonyms(s)

xis, lambdap34

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression
Regulation/Activity
Quick Links

porteco.png

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

Phage lambda xis

Mnemonic
Synonyms

xis, lambdap34

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Notes

Location(s) and DNA Sequence

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<protect> 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

BW2952

NC_012759: 4135699..4136379
gbrowse_img.php?coord=4135699..4136379&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

NC_001416

NC_001416: 35582..27538
gbrowse_img.php?coord=27538..35582&genome=bacteriophage_lambda&name=NC_001416&trackset=0&width=300&.png

NC_001416

NC_001416: 29078..28860
gbrowse_img.php?coord=28860..29078&genome=bacteriophage_lambda&name=NC_001416&trackset=0&width=300&.png

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

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

xis am6

g →a on the + strand at bp 29063

 

 

 

 

 

 

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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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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 in Other Databases

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

Database Accession Notes

Genbank (EcoliWiki Page)

Genbank:2703469

Genbank (EcoliWiki Page)

Genbank:2703504


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Notes

Links

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Name URL Comments
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Product(s)

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Nomenclature

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

Standard name

xis

Synonyms

xis, lambdap34

Product description

Excisionase

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:0019047

provirus integration

PMID:1055366

IDA: Inferred from Direct Assay

P

negatively affects phage integration (Int activity).

complete

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Interactions <protect> 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

Phage lambda Int

PMID:1396573

See Fig 4.

Protein

E. coli FIS protein

PMID:1396573

See Fig 4.

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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 
MYLTLQEWNA RQRRPRSLET VRRWVRECRI FPPPVKDGRE YLFHESAVKV DLNRPVTGGL
LKRIRNGKKA KS
Length

72

Mol. Wt

8.604 kDa

pI

11.6 (calculated)

Extinction coefficient

13,980 - 14,105 (calc based on 2 Y, 2 W, and 1 C residues)

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Domains/Motifs/Modification Sites

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Type Residues Description Notes References
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<motif_map/>

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

Structures

<beststructure> gene=Phage_lambda_xis taxon=10710 </beststructure>

Models

View models at:

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Structure figures

See Help:Jmol in EcoliWiki

Biological complex of xis interacting with DNA, PDB:1Rh6
<jmol> <jmolApplet> <color>white</color> <uploadedFileContents >1RH6.pdb</uploadedFileContents> <name></name> <script> wireframe off; spacefill off; trace off; rotate ON; cartoon; color chain; </script> </jmolApplet> </jmol>
<jmol> <jmolCheckbox > <scriptWhenChecked > rotate on; </scriptWhenChecked > <scriptWhenUnchecked > rotate off; </scriptWhenUnchecked > <checked>true</checked> <text>rotate</text> </jmolCheckbox > <jmolButton><script>reset; </script><text>reset</text></jmolButton> </jmol>









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Notes

See Crystal structure of the excisionase-DNA complex from bacteriophage lambda[1] or PDB 1RH6.

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
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Notes

Links

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Name URL Comments
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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)
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Notes

Transcription and Transcriptional Regulation

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<protect>

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

Transcription unit(s)

Phage lambda Pl - t'j4

Phage lambda Pl - t'j3

Phage lambda Pl - t'j2

Phage lambda Pl - t'j1

Phage lambda Pl - ti

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_001416:29058..29098 source=bacteriophage_lambda flip=1 type=CDS+DNA preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes
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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes
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Notes

Accessions Related to Phage lambda xis Expression

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Database Accession Notes
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Notes

Links

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Name URL Comments
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Evolution

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Homologs in Other Organisms

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

Organism Homologs (Statistics) Comments
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Do-It-Yourself Web Tools

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Notes

Families

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

Database Accession Notes
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Notes

Links

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Name URL Comments
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References

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

  1. ↑ Sam, MD et al. (2004) Crystal structure of the excisionase-DNA complex from bacteriophage lambda. J. Mol. Biol. 338 229-40 PubMed

Categories

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