rusA: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

rusA

Gene Synonym(s)

ECK0541, b0550, JW0538, rus, rusA(qsr'), ybcP[1], ybcP

Product Desc.

endodeoxyribonuclease RUS (Holliday junction resolvase)[2][3]

Product Synonyms(s)

DLP12 prophage; endonuclease RUS[1], B0550[2][1], YbcP[2][1], RusA[2][1], Rus[2][1] , ECK0541, JW0538, rus, ybcP, b0550

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ybcN[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

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

rusA

Mnemonic

ruv suppressor

Synonyms

ECK0541, b0550, JW0538, rus, rusA(qsr'), ybcP[1], ybcP

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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

MG1655

12.34 minutes 

MG1655: 572594..572956
<gbrowseImage> name=NC_000913:572594..572956 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 545261..545623
<gbrowseImage> name=NC_012967:545261..545623 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 475354..475716
<gbrowseImage> name=NC_012759:475354..475716 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 572594..572956
<gbrowseImage> name=NC_007779:572594..572956 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 511926..512288
<gbrowseImage> name=NC_010473:511926..512288 source=DH10B preset=GeneLocation </gbrowseImage>

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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

Coding Start (SO:0000323)

MG1655

572594

Edman degradation

PMID:7813450


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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

ΔrusA (Keio:JW0538)

deletion

deletion

PMID:16738554

Shigen

rusAF87Y,V

F87Y,V

No effect on ability to promote DNA repair

seeded from UniProt:P0AG74

rusAD90N

D90N

Slight reduction in ability to resolve junctions. No effect on DNA binding

seeded from UniProt:P0AG74

rusAD91N

D91N

Loss of ability to resolve junctions. No effect on DNA binding

seeded from UniProt:P0AG74

rusAD70N

D70N

Reduces junction resolution 80- fold. No effect on DNA binding

seeded from UniProt:P0AG74

rusAD72N

D72N

Loss of ability to resolve junctions. No effect on DNA binding

seeded from UniProt:P0AG74

rusAN73A

N73A

Slight reduction in ability to promote DNA repair. Great reduction in Holliday junction resolution activity

seeded from UniProt:P0AG74

rusAK76Q

K76Q

Loss of ability to promote DNA repair. Loss of Holliday junction resolvase activity. No effect on DNA binding

seeded from UniProt:P0AG74

rusAK76R

K76R

Loss of ability to promote DNA repair. Less than 2% activity of Holliday junction resolvase. No effect on DNA binding

seeded from UniProt:P0AG74

rusAD80N

D80N

Slight reduction in ability to resolve junctions. No effect on DNA binding

seeded from UniProt:P0AG74

rusAK101Q

K101Q

No effect on ability to promote DNA repair

seeded from UniProt:P0AG74

rusAR58Q

R58Q

No effect on ability to promote DNA repair

seeded from UniProt:P0AG74

rusAE111Q

E111Q

No effect on resolvase activity or DNA binding

seeded from UniProt:P0AG74

rusAR19Q

R19Q

No effect on ability to promote DNA repair

seeded from UniProt:P0AG74

rusAR68Q

R68Q

No effect on ability to promote DNA repair

seeded from UniProt:P0AG74

rusAR69Q,A

R69Q,A

Loss of ability to promote DNA repair. Great loss of Holliday junction resolvase activity. No effect on DNA binding

seeded from UniProt:P0AG74

rusAE116Q

E116Q

No effect on resolvase activity or DNA binding

seeded from UniProt:P0AG74

rusAY17L

Y17L

No effect on ability to promote DNA repair

seeded from UniProt:P0AG74

rusAR16Q

R16Q

No effect on ability to promote DNA repair

seeded from UniProt:P0AG74

ΔrusA(qsr')-3::kan

PMID:8648624

CGSC:59112


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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

JW0538

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAATACCTACAGCATCACATT

Primer 2:CCTTCATTCCCCATTTCGGTGAT

23E10

Kohara Phage

Genobase

PMID:3038334

purK79::Tn10

Linked marker

CAG12171 = CGSC7342[4]

est. P1 cotransduction: 47% [5]
Synonyms:purE79::Tn10

dsbG601::Tn10

Linked marker

CAG12149 = CGSC7346[4]

est. P1 cotransduction: 3% [5]
Synonyms:zbd-601::Tn10, zbe-601::Tn10

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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

EcoCyc

EcoCyc:G6306

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG20283

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002914

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945174

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4170

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001880

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

RusA

Synonyms

DLP12 prophage; endonuclease RUS[1], B0550[2][1], YbcP[2][1], RusA[2][1], Rus[2][1] , ECK0541, JW0538, rus, ybcP, b0550

Product description

endodeoxyribonuclease RUS (Holliday junction resolvase)[2][3]

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:0000287

magnesium ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008822

F

Seeded from EcoCyc (v14.0)

complete

GO:0000287

magnesium ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0460

F

Seeded from EcoCyc (v14.0)

complete

GO:0004518

nuclease activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0540

F

Seeded from EcoCyc (v14.0)

complete

GO:0004519

endonuclease activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0255

F

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008822

P

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0234

P

Seeded from EcoCyc (v14.0)

complete

GO:0006310

DNA recombination

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008822

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:0006974

response to DNA damage stimulus

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0227

P

Seeded from EcoCyc (v14.0)

complete

GO:0008821

crossover junction endodeoxyribonuclease activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:3.1.22.4

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

GO:0046872

metal ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

Seeded from EcoCyc (v14.0)

complete

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

MNTYSITLPW PPSNNRYYRH NRGRTHVSAE GQAYRDNVAR IIKNAMLDIG LAMPVKIRIE
CHMPDRRRRD LDNLQKAAFD ALTKAGFWLD DAQVVDYRVV KMPVTKGGRL ELTITEMGNE
Length

120

Mol. Wt

13.845 kDa

pI

10.0 (calculated)

Extinction coefficient

18,450 - 18,575 (calc based on 5 Y, 2 W, and 1 C residues)


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

8..117

PF05866 Endodeoxyribonuclease RusA

PMID:19920124

<motif_map/>

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

Structures

<beststructure> gene=rusA 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:16128533

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945174

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001880

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AG74

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6306

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG20283

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945174

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002914

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4170

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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)

Protein

E. coli K-12 MG1655

0a

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

Low confidence in the sequencing data set.

PMID: 24766808

Protein

E. coli K-12 MG1655

0a

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

Low confidence in the sequencing data set.

PMID: 24766808

Protein

E. coli K-12 MG1655

0a

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

Low confidence in the sequencing data set.

PMID: 24766808

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)

ybcN

Figure courtesy of RegulonDB

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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_000913:572574..572614 source=MG1655 type=Gene+DNA_+Protein 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


Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b0550 (EcoliWiki Page)

NCBI GEO profiles for rusA

microarray

GenExpDB:b0550 (EcoliWiki Page)

Summary of data for rusA from multiple microarray studies


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 rusA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:G6306

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4170

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0550

EcoGene

EcoGene:EG20283

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002914

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001880

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

Shigella flexneri

S2140

From SHIGELLACYC

E. coli O157

RUS

From ECOO157CYC


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

Superfamily (EcoliWiki Page)

SUPERFAMILY:103084

Pfam (EcoliWiki Page)

PF05866 Endodeoxyribonuclease RusA

PFAM (EcoliWiki Page)

PFAM:PF05866

EcoCyc

EcoCyc:G6306

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG20283

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002914

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4170

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001880

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. 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. 4.0 4.1 CGSC: The Coli Genetics Stock Center
  5. 5.0 5.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).

Categories

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