priA:On One Page

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

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Standard Name

priA

Gene Synonym(s)

ECK3927, b3935, JW3906, srgA[1], srgA

Product Desc.

primosome factor N'[2][3];

Component of primosome[3]

Primosome factor Y, also called protein n'; ATP-dependent DNA helicase activity required for recA-dependent stable DNA replication mode; also involved in double-strand break repair[4]

Product Synonyms(s)

Primosome factor n' (replication factor Y)[1], B3935[2][1], SrgA[2][1], replication factor Y[2][1], PriA[2][1] , ECK3927, JW3906, srgA, b3935

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): priA[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

priA

Mnemonic

Primosome

Synonyms

ECK3927, b3935, JW3906, srgA[1], srgA

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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

88.86 minutes 

MG1655: 4124833..4122635
<gbrowseImage> name=NC_000913:4122635..4124833 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4106293..4104095
<gbrowseImage> name=NC_012967:4104095..4106293 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4012304..4014502
<gbrowseImage> name=NC_012759:4012304..4014502 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3509871..3512069
<gbrowseImage> name=NC_007779:3509871..3512069 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4224530..4222332
<gbrowseImage> name=NC_010473:4222332..4224530 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

4122635

Edman degradation

PMID:2162049
PMID:2162050


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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

priA(del) (Keio:JW3906)

deletion

deletion

PMID:16738554

ShigenCGSC10820[5]

priA1::KanR

  • reduced P1 transduction frequency
  • chronic expression of sulA gene
  • defective in transductional recombination
  • defective in conjugative recombination
  • hypersensitive to mitomycin C
  • hypersensitive to gamma rays

PMID:1938875 PMID:10713144 PMID:8631700

CGSC:27573

ΔpriA722::kan

PMID:16738554

CGSC:102454

priA2::kan

inserted kan gene fragment

  • reduced P1 transduction frequency
  • chronic expression of sulA gene
  • defective in transductional recombination
  • defective in conjugative recombination
  • hypersensitive to mitomycin C
  • hypersensitive to gamma rays

PMID:8631700

priA2::kan ftsKC

Growth Phenotype

synthetically lethal

PMID:11459954

priA in MDS42

deletion

Sensitivity to

increases sensitivity to Bicyclomycin

PMID:21183718

fig. 2

recF4101 priA2:kan

Growth Phenotype

Double mutation decreases cell viability from wildtype, table 1.

PMID:8820655

experimental strain: JC18991

recF4115 priA2:kan

Growth Phenotype

Double mutation decreases cell viability, table 1.

PMID:8820655

experimental strain: JC18996

recF143 priA2::kan

Growth Phenotype

Double mutation causes decreased cell viability, table 1.

PMID:8820655

JC18989

priA2::kan

Sensitivity to

Mutations shows increase in UV-inducible SOS expression, fig 1A.

PMID:8820655

priA::kanr

Cell Shape

Inactivation of priA showed huge multinucleoid cell filaments, Fig 4B.

PMID:1938875

priA::kanr

Growth Phenotype

Inactivation causes slow growth rate, fig 3.

PMID:1938875


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Notes

spa-47 (dnaC) suppresses the recombination and DSB repair defects seen in the priA1::kan mutant [6]


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

JW3906

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCCCGTTGCCCACGTTGCCTT

Primer 2:CCACCCTCAATCGGATCAACATC

12E3

Kohara Phage

Genobase

PMID:3038334

4H12

Kohara Phage

Genobase

PMID:3038334

zih-35::Tn10

Linked marker

CAG18495 = CGSC7467[5]

est. P1 cotransduction: 5% [7]

pflD501::Tn10

Linked marker

CAG18477 = CGSC7470[5]

est. P1 cotransduction: 47% [7]
Synonyms:zij-501::Tn10 nnnCAG18477 also carries metF79(Am) (CGSC).

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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:EG10763

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10763

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000754

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948426

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0756

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012860

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

PriA

Synonyms

Primosome factor n' (replication factor Y)[1], B3935[2][1], SrgA[2][1], replication factor Y[2][1], PriA[2][1] , ECK3927, JW3906, srgA, b3935

Product description

primosome factor N'[2][3];

Component of primosome[3]

Primosome factor Y, also called protein n'; ATP-dependent DNA helicase activity required for recA-dependent stable DNA replication mode; also involved in double-strand break repair[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:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001650

F

Seeded from EcoCyc (v14.0)

complete

GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011545

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005259

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:0004386

helicase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001650

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:IPR001650

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011545

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:0005658

alpha DNA polymerase:primase complex

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0639

C

Seeded from EcoCyc (v14.0)

complete

GO:0006260

DNA replication

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005259

P

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:0006269

DNA replication, synthesis of RNA primer

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0639

P

Seeded from EcoCyc (v14.0)

complete

GO:0008026

ATP-dependent helicase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011545

F

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0862

F

Seeded from EcoCyc (v14.0)

complete

GO:0006261

DNA-dependent DNA replication

PMID:10097074

IDA: Inferred from Direct Assay

P

required for D-loop dependent DNA replication

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

GO:0006310

DNA recombination

PMID:8631700

IMP: Inferred from Mutant Phenotype

P

defective in transductional and conjugative recombination

complete

GO:0010332

response to gamma radiation

PMID:8631700

IMP: Inferred from Mutant Phenotype

P

complete

GO:0006302

double-strand break repair

PMID:8631700

IMP: Inferred from Mutant Phenotype

P

complete

GO:0046677

response to antibiotic

PMID:8631700

IMP: Inferred from Mutant Phenotype

P

hypersensitive to mitomycin C

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

Subunits of primosome

could be indirect

Protein

rplB

PMID:16606699

Experiment(s):EBI-1147108

Protein

rpsC

PMID:16606699

Experiment(s):EBI-1147108

Protein

galF

PMID:16606699

Experiment(s):EBI-1147108

Protein

rhsA

PMID:16606699

Experiment(s):EBI-1147108

Protein

rplQ

PMID:16606699

Experiment(s):EBI-1147108

Protein

tufA

PMID:15690043

Experiment(s):EBI-884556
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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 

MPVAHVALPV PLPRTFDYLL PEGMTVKAGC RVRVPFGKQQ ERIGIVVSVS DASELPLNEL
KAVVEVLDSE PVFTHSVWRL LLWAADYYHH PIGDVLFHAL PILLRQGRPA ANAPMWYWFA
TEQGQAVDLN SLKRSPKQQQ ALAALRQGKI WRDQVATLEF NDAALQALRK KGLCDLASET
PEFSDWRTNY AVSGERLRLN TEQATAVGAI HSAADTFSAW LLAGVTGSGK TEVYLSVLEN
VLAQGKQALV MVPEIGLTPQ TIARFRERFN APVEVLHSGL NDSERLSAWL KAKNGEAAIV
IGTRSALFTP FKNLGVIVID EEHDSSYKQQ EGWRYHARDL AVYRAHSEQI PIILGSATPA
LETLCNVQQK KYRLLRLTRR AGNARPAIQH VLDLKGQKVQ AGLAPALITR MRQHLQADNQ
VILFLNRRGF APALLCHDCG WIAECPRCDH YYTLHQAQHH LRCHHCDSQR PVPRQCPSCG
STHLVPVGLG TEQLEQTLAP LFPGVPISRI DRDTTSRKGA LEQQLAEVHR GGARILIGTQ
MLAKGHHFPD VTLVALLDVD GALFSADFRS AERFAQLYTQ VAGRAGRAGK QGEVVLQTHH
PEHPLLQTLL YKGYDAFAEQ ALAERRMMQL PPWTSHVIVR AEDHNNQHAP LFLQQLRNLI
LSSPLADEKL WVLGPVPALA PKRGGRWRWQ ILLQHPSRVR LQHIINGTLA LINTIPDSRK
VKWVLDVDPI EG
Length

732

Mol. Wt

81.654 kDa

pI

9.1 (calculated)

Extinction coefficient

104,850 - 106,225 (calc based on 15 Y, 15 W, and 11 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

200..367

PF00270 DEAD/DEAH box helicase

PMID:19920124

Domain

501..589

PF00271 Helicase conserved C-terminal domain

PMID:19920124

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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=priA 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:16131773

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948426

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012860

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P17888

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10763

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10763

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948426

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000754

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0756

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

105

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

59

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

76

molecules/cell/generation

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

Ribosome Profiling

PMID: 24766808

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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)

priA

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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_000913:4124813..4124853 source=MG1655 flip=1 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
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b3935 (EcoliWiki Page)

NCBI GEO profiles for priA

microarray

GenExpDB:b3935 (EcoliWiki Page)

Summary of data for priA from multiple microarray studies

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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

GFP Fusion

Intergenic region (4124313..4124659) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ09; Well:H9[8]

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Notes

Accessions Related to priA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10763

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0756

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3935

EcoGene

EcoGene:EG10763

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000754

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012860

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

PRIA

From SHIGELLACYC

E. coli O157

PRIA

From ECOO157CYC

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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

Pfam (EcoliWiki Page)

PF00271 Helicase conserved C-terminal domain

Pfam (EcoliWiki Page)

PF00270 DEAD/DEAH box helicase

Superfamily (EcoliWiki Page)

SUPERFAMILY:52540

EcoCyc

EcoCyc:EG10763

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10763

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000754

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0756

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012860

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 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 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 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ Kogoma, T et al. (1996) The DNA replication priming protein, PriA, is required for homologous recombination and double-strand break repair. J. Bacteriol. 178 1258-64 PubMed
  7. ↑ 7.0 7.1 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).
  8. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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