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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

rep

Gene Synonym(s)

ECK3770, b3778, JW5604, dasC, mbrA, mmrA, dasC?[1][2], mmrA?

Product Desc.

rep[2][3];

Component of rep helicase, a single-stranded DNA dependent ATPase[3]

ATP-dependent DNA helicase Rep, involved in DNA replication; ssDNA-dependent ATPase[4]

Product Synonyms(s)

DNA helicase and single-stranded DNA-dependent ATPase[1], B3778[2][1], MmrA[2][1], MbrA[2][1], DasC[2][1], Rep[2][1] , dasC, ECK3770, JW5604, mbrA, mmrA?, b3778

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): rep[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

rep

Mnemonic

Replicase

Synonyms

ECK3770, b3778, JW5604, dasC, mbrA, mmrA, dasC?[1][2], mmrA?

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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

85.32 minutes 

MG1655: 3958700..3960721
<gbrowseImage> name=NC_000913:3958700..3960721 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3922479..3924500
<gbrowseImage> name=NC_012967:3922479..3924500 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3848369..3850390
<gbrowseImage> name=NC_012759:3848369..3850390 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3676004..3673983
<gbrowseImage> name=NC_007779:3673983..3676004 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4057620..4059641
<gbrowseImage> name=NC_010473:4057620..4059641 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

3958700

Edman degradation

PMID:2999067


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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

rep(del) (Keio:JW5604)

deletion

deletion

PMID:16738554

Shigen

rep::Tn5KAN-I-SceI (FB21451)

Insertion at nt 508 in Minus orientation

PMID:15262929

E. coli Genome Project:FB21451

contains pKD46

Δrep::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938

Δrep::kan

deletion

Biolog:respiration

unable to respire a-Hydroxybutyrate

PMID:16095938

Δrep::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938

Δrep::kan

deletion

Biolog:respiration

unable to respire a-Ketoglutarate

PMID:16095938

Δrep::kan

deletion

Biolog:respiration

unable to respire Succinate

PMID:16095938

Δrep::kan

deletion

Biolog:respiration

unable to respire Bromosuccinate

PMID:16095938

Δrep::kan

deletion

Biolog:respiration

unable to respire L-Alanine

PMID:16095938

Δrep::kan

deletion

Biolog:respiration

unable to respire L-Asparagine

PMID:16095938

Δrep::kan

deletion

Biolog:respiration

unable to respire L-Aspartate

PMID:16095938

Δrep::kan

deletion

Biolog:respiration

unable to respire L-Serine

PMID:16095938

rep-5

CGSC:7013

rep-3

PMID:383240

CGSC:9794

rep-142(ts)

temperature sensitive

CGSC:90737

[rep-71]

PMID:6286604

CGSC:90823

null allele

rep-729(del)::kan

PMID:16738554

CGSC:113537

rep in MDS42

deletion

Sensitivity to

increased sensitivity to Bicyclomycin

PMID:21183718

Fig. 2

mbrA4

Growth Phenotype

no growth in the first few hours at non-permissive conditions but eventually resumed growth, after exposed to LB cells began to elongate LB-Mac-

PMID:2176633

mbrA15

Growth Phenotype

temperature sensitive, forms two distinct populations, one more dense and one less dense than wild type

PMID:2176633

mbrA4

Resistant to

camphor resistance

PMID:2176633

PMID:1925019

Table 2 and table 1

mrbA15

Resistant to

Resistant to camphor

PMID:2176633

PMID:1925019

table 2 and table 1

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Notes

Genetic Interactions

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<protect>

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

JW5604

Plasmid clone

Shigen

PMID:16769691

Status:cloned as old JW

Primer 1:GCCCGTCTAAACCCCGGCCAACA

Primer 2:CCTTTCCCTCGTTTTGCCGCCAT

2A8

Kohara Phage

Genobase

PMID:3038334

2E6

Kohara Phage

Genobase

PMID:3038334

ilvD500::Tn10

Linked marker

CAG18431 = CGSC7462[5]

est. P1 cotransduction: 83% [6]
Synonyms:ilv500::Tn10

metEo-3079::Tn10

Linked marker

CAG18491 = CGSC7464[5]

est. P1 cotransduction: 10% [6]
Synonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.

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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:EG10837

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10837

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000828

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948292

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0830

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012344

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

Rep

Synonyms

DNA helicase and single-stranded DNA-dependent ATPase[1], B3778[2][1], MmrA[2][1], MbrA[2][1], DasC[2][1], Rep[2][1] , dasC, ECK3770, JW5604, mbrA, mmrA?, b3778

Product description

rep[2][3];

Component of rep helicase, a single-stranded DNA dependent ATPase[3]

ATP-dependent DNA helicase Rep, involved in DNA replication; ssDNA-dependent ATPase[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:0000166

nucleotide binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000212

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0004003

ATP-dependent DNA helicase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000212

F

Seeded from EcoCyc (v14.0)

complete

GO:0004003

ATP-dependent DNA helicase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005752

F

Seeded from EcoCyc (v14.0)

complete

GO:0004386

helicase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0347

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000212

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR014016

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR014017

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0067

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005752

C

Seeded from EcoCyc (v14.0)

complete

GO:0006260

DNA replication

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0235

P

Seeded from EcoCyc (v14.0)

complete

GO:0006268

DNA unwinding involved in replication

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005752

P

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000212

P

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR014016

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR014017

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

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

Subunits of rep helicase, a single-stranded DNA dependent ATPase

could be indirect


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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

MRLNPGQQQA VEFVTGPCLV LAGAGSGKTR VITNKIAHLI RGCGYQARHI AAVTFTNKAA
REMKERVGQT LGRKEARGLM ISTFHTLGLD IIKREYAALG MKANFSLFDD TDQLALLKEL
TEGLIEDDKV LLQQLISTIS NWKNDLKTPS QAAASAIGER DRIFAHCYGL YDAHLKACNV
LDFDDLILLP TLLLQRNEEV RKRWQNKIRY LLVDEYQDTN TSQYELVKLL VGSRARFTVV
GDDDQSIYSW RGARPQNLVL LSQDFPALKV IKLEQNYRSS GRILKAANIL IANNPHVFEK
RLFSELGYGA ELKVLSANNE EHEAERVTGE LIAHHFVNKT QYKDYAILYR GNHQSRVFEK
FLMQNRIPYK ISGGTSFFSR PEIKDLLAYL RVLTNPDDDS AFLRIVNTPK REIGPATLKK
LGEWAMTRNK SMFTASFDMG LSQTLSGRGY EALTRFTHWL AEIQRLAERE PIAAVRDLIH
GMDYESWLYE TSPSPKAAEM RMKNVNQLFS WMTEMLEGSE LDEPMTLTQV VTRFTLRDMM
ERGESEEELD QVQLMTLHAS KGLEFPYVYM VGMEEGFLPH QSSIDEDNID EERRLAYVGI
TRAQKELTFT LCKERRQYGE LVRPEPSRFL LELPQDDLIW EQERKVVSAE ERMQKGQSHL
ANLKAMMAAK RGK
Length

673

Mol. Wt

77.026 kDa

pI

7.2 (calculated)

Extinction coefficient

76,780 - 77,405 (calc based on 22 Y, 8 W, and 5 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

3..484

PF00580 UvrD/REP helicase

PMID:19920124

<motif_map/>

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

Structures

<beststructure> gene=rep taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

<protect>

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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:49176407

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012344

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P09980

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10837

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10837

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948292

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000828

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948292

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0830

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

Ecoli K-12

3.292+/-0.069

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.025729837

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

453

molecules/cell/generation

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

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

102

molecules/cell/generation

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

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

224

molecules/cell/generation

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

Ribosome Profiling

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)

rep

Figure courtesy of RegulonDB

</protect>

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_000913:3958680..3958720 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:b3778 (EcoliWiki Page)

NCBI GEO profiles for rep

microarray

GenExpDB:b3778 (EcoliWiki Page)

Summary of data for rep 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 rep Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10837

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0830

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3778

EcoGene

EcoGene:EG10837

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000828

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012344

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

REP

From SHIGELLACYC

E. coli O157

REP

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:52540

Pfam (EcoliWiki Page)

PF00580 UvrD/REP helicase

EcoCyc

EcoCyc:EG10837

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10837

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000828

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0830

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012344

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 1.13 1.14 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 2.11 2.12 2.13 2.14 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. 3.0 3.1 3.2 3.3 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. 4.0 4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. 5.0 5.1 CGSC: The Coli Genetics Stock Center
  6. 6.0 6.1 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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