polA: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

polA

Gene Synonym(s)

ECK3855, b3863, JW3835, resA[1], resA

Product Desc.

DNA polymerase I, 3' --> 5' polymerase, 5' --> 3' and 3' --> 5' exonuclease[2][3]

DNA polymerase I; required for plasmid replication; synthetic lethal with ygdG[4]

Product Synonyms(s)

fused DNA polymerase I 5'->3' exonuclease[1], 3'->5' polymerase[1], 3'->5' exonuclease[1], B3863[2][1], ResA[2][1], PolA[2][1] , ECK3855, JW3835, resA, b3863

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): polA[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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Residues 324-928 constitute the Klenow fragment.[4]



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

polA

Mnemonic

Polymerase

Synonyms

ECK3855, b3863, JW3835, resA[1], resA

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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

87.18 minutes 

MG1655: 4044989..4047775
<gbrowseImage> name=NC_000913:4044989..4047775 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4025263..4028049
<gbrowseImage> name=NC_012967:4025263..4028049 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3934658..3937444
<gbrowseImage> name=NC_012759:3934658..3937444 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3589715..3586929
<gbrowseImage> name=NC_007779:3586929..3589715 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4143909..4146695
<gbrowseImage> name=NC_010473:4143909..4146695 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
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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

polA(del) (Keio:JW3835)

deletion

deletion

PMID:16738554

Shigen
CGSC10770[5]

polA12(ts)

temperature sensitive

PMID:776979 PMID:765763

CGSC:5215

polA1(Am)

PMID:765763 PMID:4902143

CGSC:6245

amber (UAG) mutation

polA480(ts, EX)

"temperature sensitive, exonuclease activity mutation "

PMID:776979 PMID:765763

CGSC:6383

polA546(ts, EX)

"temperature sensitive, exonuclease activity mutation "

CGSC:6418

polA107

PMID:765763

CGSC:8417

polA11

CGSC:8660

polA4113(ts)

temperature sensitive

PMID:765763

CGSC:10274

polA34(ts)

temperature sensitive

CGSC:10522

polA0

CGSC:10858

polA591

CGSC:11054

polA20

CGSC:11306

polA5

PMID:359556 PMID:765763

CGSC:16005

polA6

PMID:12497

CGSC:19630

polA726(del)::kan

PMID:16738554

CGSC:102396


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Notes

The Keio collection[6] lists a deletion of polA. The insertion in this strain is a duplication of the polA region.[7]


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

JW3835

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGTTCAGATCCCCCAAAATCC

Primer 2:CCGTGCGCCTGATCCCAGTTTTC

8D12

Kohara Phage

Genobase

PMID:3038334

10H11

Kohara Phage

Genobase

PMID:3038334

fad-751::Tn10

Linked marker

CAG18496 = CGSC7465[5]

est. P1 cotransduction: 53% [8]
Synonyms:fadAB101::Tn10

zih-35::Tn10

Linked marker

CAG18495 = CGSC7467[5]

est. P1 cotransduction: 50% [8]

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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:EG10746

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10746

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000737

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948356

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0739

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012618

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

PolA

Synonyms

fused DNA polymerase I 5'->3' exonuclease[1], 3'->5' polymerase[1], 3'->5' exonuclease[1], B3863[2][1], ResA[2][1], PolA[2][1] , ECK3855, JW3835, resA, b3863

Product description

DNA polymerase I, 3' --> 5' polymerase, 5' --> 3' and 3' --> 5' exonuclease[2][3]

DNA polymerase I; required for plasmid replication; synthetic lethal with ygdG[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:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002562

F

Seeded from EcoCyc (v14.0)

complete

GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012337

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001098

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002298

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002421

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003583

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008918

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020045

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020046

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020047

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:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008918

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020045

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001098

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002298

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.7.7.7

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

PMID:4902142

IMP: Inferred from Mutant Phenotype

F

W3110 thy- mutagenized with NNG. Ts mutant isolated based on lack of enzymatic activity.

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:0004527

exonuclease activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0269

F

Seeded from EcoCyc (v14.0)

complete

GO:0006139

nucleobase, nucleoside, nucleotide and nucleic acid metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002562

P

Seeded from EcoCyc (v14.0)

complete

GO:0006260

DNA replication

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001098

P

Seeded from EcoCyc (v14.0)

complete

GO:0006260

DNA replication

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002298

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:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003583

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: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:0008408

3'-5' exonuclease activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002562

F

Seeded from EcoCyc (v14.0)

complete

GO:0008409

5'-3' exonuclease activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002421

F

Seeded from EcoCyc (v14.0)

complete

GO:0008409

5'-3' exonuclease activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020046

F

Seeded from EcoCyc (v14.0)

complete

GO:0008409

5'-3' exonuclease activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020047

F

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc (v14.0)

complete

GO:0016779

nucleotidyltransferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0548

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:0003887

DNA-directed DNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001098

F

Seeded from EcoCyc (v14.0)

complete

GO:0003887

DNA-directed DNA polymerase activity

PMID:381283

IDA: Inferred from Direct Assay

F

Paper describes a simple purification from W3110. Assayed on poly dA:dT. Not the first paper.

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

hsdS

PMID:15690043

Experiment(s):EBI-892889

Protein

aceF

PMID:15690043

Experiment(s):EBI-886509, EBI-892889

Protein

lpdA

PMID:15690043

Experiment(s):EBI-886509, EBI-892889

Protein

malP

PMID:15690043

Experiment(s):EBI-886509, EBI-892889

Protein

metK

PMID:15690043

Experiment(s):EBI-886509

Protein

rpoA

PMID:15690043

Experiment(s):EBI-886509, EBI-892889

Protein

rpoB

PMID:15690043

Experiment(s):EBI-886509

Protein

rpoC

PMID:15690043

Experiment(s):EBI-886509

Protein

tufA

PMID:15690043

Experiment(s):EBI-886509

Protein

mnmC

PMID:15690043

Experiment(s):EBI-892889

Protein

fis

PMID:15690043

Experiment(s):EBI-892889

Protein

hns

PMID:15690043

Experiment(s):EBI-892889

Protein

hrpA

PMID:15690043

Experiment(s):EBI-892889

Protein

hupA

PMID:15690043

Experiment(s):EBI-892889

Protein

murF

PMID:15690043

Experiment(s):EBI-892889

Protein

rplD

PMID:15690043

Experiment(s):EBI-892889

Protein

rplL

PMID:15690043

Experiment(s):EBI-892889

Protein

rplM

PMID:15690043

Experiment(s):EBI-892889

Protein

rpmB

PMID:15690043

Experiment(s):EBI-892889

Protein

rpsB

PMID:15690043

Experiment(s):EBI-892889

Protein

slyD

PMID:15690043

Experiment(s):EBI-892889

Protein

yidX

PMID:15690043

Experiment(s):EBI-892889

Protein

hrpA

PMID:19402753

LCMS(ID Probability):99.0

Protein

metK

PMID:19402753

MALDI(Z-score):36.964539

Protein

tufB

PMID:19402753

MALDI(Z-score):23.864151

Protein

kdsA

PMID:19402753

MALDI(Z-score):39.157008

Protein

malP

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):15.660450

Protein

fis

PMID:19402753

LCMS(ID Probability):99.0

Protein

rpoA

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):17.053160

Protein

yidX

PMID:19402753

LCMS(ID Probability):99.0

Protein

hupA

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):5.741142

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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 

MVQIPQNPLI LVDGSSYLYR AYHAFPPLTN SAGEPTGAMY GVLNMLRSLI MQYKPTHAAV
VFDAKGKTFR DELFEHYKSH RPPMPDDLRA QIEPLHAMVK AMGLPLLAVS GVEADDVIGT
LAREAEKAGR PVLISTGDKD MAQLVTPNIT LINTMTNTIL GPEEVVNKYG VPPELIIDFL
ALMGDSSDNI PGVPGVGEKT AQALLQGLGG LDTLYAEPEK IAGLSFRGAK TMAAKLEQNK
EVAYLSYQLA TIKTDVELEL TCEQLEVQQP AAEELLGLFK KYEFKRWTAD VEAGKWLQAK
GAKPAAKPQE TSVADEAPEV TATVISYDNY VTILDEETLK AWIAKLEKAP VFAFDTETDS
LDNISANLVG LSFAIEPGVA AYIPVAHDYL DAPDQISRER ALELLKPLLE DEKALKVGQN
LKYDRGILAN YGIELRGIAF DTMLESYILN SVAGRHDMDS LAERWLKHKT ITFEEIAGKG
KNQLTFNQIA LEEAGRYAAE DADVTLQLHL KMWPDLQKHK GPLNVFENIE MPLVPVLSRI
ERNGVKIDPK VLHNHSEELT LRLAELEKKA HEIAGEEFNL SSTKQLQTIL FEKQGIKPLK
KTPGGAPSTS EEVLEELALD YPLPKVILEY RGLAKLKSTY TDKLPLMINP KTGRVHTSYH
QAVTATGRLS STDPNLQNIP VRNEEGRRIR QAFIAPEDYV IVSADYSQIE LRIMAHLSRD
KGLLTAFAEG KDIHRATAAE VFGLPLETVT SEQRRSAKAI NFGLIYGMSA FGLARQLNIP
RKEAQKYMDL YFERYPGVLE YMERTRAQAK EQGYVETLDG RRLYLPDIKS SNGARRAAAE
RAAINAPMQG TAADIIKRAM IAVDAWLQAE QPRVRMIMQV HDELVFEVHK DDVDAVAKQI
HQLMENCTRL DVPLLVEVGS GENWDQAH
Length

928

Mol. Wt

103.121 kDa

pI

5.4 (calculated)

Extinction coefficient

86,180 - 86,430 (calc based on 32 Y, 7 W, and 2 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

330..517

PF01612 3'-5' exonuclease

PMID:19920124

Domain

7..169

PF02739 5'-3' exonuclease, N-terminal resolvase-like domain

PMID:19920124

Domain

171..277

PF01367 5'-3' exonuclease, C-terminal SAM fold

PMID:19920124

Domain

547..927

PF00476 DNA polymerase family A

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=polA taxon=562,83333 </beststructure>

Models

View models at:

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</protect>

Structure figures

See Help:Jmol in EcoliWiki

DNA polymerase I Klenow fragment
<jmol> <jmolApplet> <color>white</color> <uploadedFileContents >1DPI.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

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:16131704

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948356

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012618

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P00582

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10746

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10746

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948356

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000737

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0739

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 MC4100

3.21E+02

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

Ecoli K-12

40.704+/-0.241

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.063890883

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

2028

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

541

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

1514

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

Transcription unit(s)

polA

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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_000913:4044969..4045009 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
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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:b3863 (EcoliWiki Page)

NCBI GEO profiles for polA

microarray

GenExpDB:b3863 (EcoliWiki Page)

Summary of data for polA 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 (4043909..4044418) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ11; Well:H8[9]

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Notes

Accessions Related to polA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10746

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0739

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3863

EcoGene

EcoGene:EG10746

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000737

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012618

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Evolution

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{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

Apis mellifera

  • ENSAPMP00000035455 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT1G50840 (score: 1.000; bootstrap: 89%)
  • AT3G20540 (score: 0.673)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000023023 (score: 1.000; bootstrap: 55%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000016901 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040724-232 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0191131 (score: 1.000; bootstrap: 98%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000024026 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000264233 (score: 1.000; bootstrap: 52%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000010461 (score: 1.000; bootstrap: 59%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000005015 (score: 1.000; bootstrap: 56%)

From Inparanoid:20070104

Mus musculus

  • MGI:2155399 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q6Z4T5 (score: 1.000; bootstrap: 83%)
  • Q6Z4T3 (score: 0.921)
  • Q8S9E2 (score: 0.918)
  • Q7XND0 (score: 0.662)
  • Q69S01 (score: 0.489)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000026331 (score: 1.000; bootstrap: 98%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000034638 (score: 1.000; bootstrap: 61%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000128096 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00025905001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000043173 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

POLA

From SHIGELLACYC

E. coli O157

POLA

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)

PF02739 5'-3' exonuclease, N-terminal resolvase-like domain

Pfam (EcoliWiki Page)

PF01612 3'-5' exonuclease

Pfam (EcoliWiki Page)

PF00476 DNA polymerase family A

Pfam (EcoliWiki Page)

PF01367 5'-3' exonuclease, C-terminal SAM fold

Superfamily (EcoliWiki Page)

SUPERFAMILY:47807

Superfamily (EcoliWiki Page)

SUPERFAMILY:53098

Panther (EcoliWiki Page)

PTHR10133:SF20

Superfamily (EcoliWiki Page)

SUPERFAMILY:56672

Superfamily (EcoliWiki Page)

SUPERFAMILY:88723

PFAM (EcoliWiki Page)

PFAM:PF02739

EcoCyc

EcoCyc:EG10746

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10746

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000737

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0739

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012618

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. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 2.8 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 4.2 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. ↑ Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed
  7. ↑ Yamamoto, N et al. (2009) Update on the Keio collection of Escherichia coli single-gene deletion mutants. Mol. Syst. Biol. 5 335 PubMed
  8. ↑ 8.0 8.1 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).
  9. ↑ 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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