dnaX:Gene Product(s): Difference between revisions

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|-
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!align=left {{table heading style}} |Standard name
!align=left |Standard name
||
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DnaX  
DnaX  
|-
|-
!align=left {{table heading style}} |Synonyms
!align=left |Synonyms
||
||
DNA polymerase III/DNA elongation factor III, tau and gamma subunits<ref name='LIB:Riley_2006'/>, DnaZ<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, B0470<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
DNA polymerase III/DNA elongation factor III, tau and gamma subunits<ref name='LIB:Riley_2006'/>, DnaZ<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, B0470<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
|-
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!align=left {{table heading style}} |Product description
!align=left |Product description
||
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* DNA polymerase III, γ subunit<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
* DNA polymerase III, γ subunit<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
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DNA polymerase III holoenzyme, tau and gamma ATPase subunits; gamma chain (aa 1-431) is main subunit of the clamp loader complex<ref name='LIB:EcoGene'/>
DNA polymerase III holoenzyme, tau and gamma ATPase subunits; gamma chain (aa 1-431) is main subunit of the clamp loader complex<ref name='LIB:EcoGene'/>
|-
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!align=left {{table heading style}} |EC number (for enzymes)
!align=left |EC number (for enzymes)
||
||
[http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7]<ref name='LIB:Riley_2006'/>
[http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7]<ref name='LIB:Riley_2006'/>


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!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
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complete  
complete  


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!|Compartment!!Description!!Evidence!!Source!!Notes
!|Compartment!!Description!!Evidence!!Source!!Notes


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|-
|-
!align=left {{table heading style}} |Sequence
!align=left |Sequence
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[http://biocyc.org/ECOLI/sequence-aa?object= at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object= at EcoCyc]  
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EWRQAIYEEK LAQARESIIA DNNIQTLRRF FDAELDEESI RPI</pre>  
EWRQAIYEEK LAQARESIIA DNNIQTLRRF FDAELDEESI RPI</pre>  
|-
|-
!align=left {{table heading style}} |Length
!align=left |Length
||
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643
643
|-
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!align=left {{table heading style}} |Mol. Wt
!align=left |Mol. Wt
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71.138 kDa
71.138 kDa
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!align=left {{table heading style}} |pI
!align=left |pI
||
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6.8 (calculated)
6.8 (calculated)
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!align=left {{table heading style}} |Extinction coefficient
!align=left |Extinction coefficient
||
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46,410 - 47,160 (calc based on 9 Y, 6 W, and 6 C residues)
46,410 - 47,160 (calc based on 9 Y, 6 W, and 6 C residues)


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!align=left |Structures
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<beststructure>
<beststructure>
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</beststructure>
</beststructure>
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!align=left {{table heading style}} |Models
!align=left |Models
||
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View models at:
View models at:
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* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)


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Revision as of 00:40, 9 January 2010

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

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

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

Standard name

DnaX

Synonyms

DNA polymerase III/DNA elongation factor III, tau and gamma subunits[1], DnaZ[2][1], B0470[2][1]

Product description


DNA polymerase III holoenzyme, tau and gamma ATPase subunits; gamma chain (aa 1-431) is main subunit of the clamp loader complex[4]

EC number (for enzymes)

2.7.7.7[1]

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Notes

Function

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Gene Ontology

DNA polymerase III

See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference(s) Evidence Code with/from Aspect Notes Status
GO:0017111

nucleoside-triphosphatase activity

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003593
InterPro:IPR003593

F

Seeded from EcoCyc [5]

complete

GO:0016779

nucleotidyltransferase activity

GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0548
SP_KW:KW-0548

F

Seeded from EcoCyc [5]

complete

GO:0016740

transferase activity

GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808
SP_KW:KW-0808

F

Seeded from EcoCyc [5]

complete

GO:0009360

DNA polymerase III complex

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012763
InterPro:IPR012763

C

Seeded from EcoCyc [5]

complete

GO:0006260

DNA replication

GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR008921
InterPro:IPR008921
InterPro:IPR012763
InterPro:IPR012763
SP_KW:KW-0235
SP_KW:KW-0235

P

Seeded from EcoCyc [5]

complete

GO:0005634

nucleus

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008921
InterPro:IPR008921

C

Seeded from EcoCyc [5]

complete

GO:0005524

ATP binding

GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR001270
InterPro:IPR001270
InterPro:IPR003959
InterPro:IPR003959
InterPro:IPR012763
InterPro:IPR012763
SP_KW:KW-0067
SP_KW:KW-0067

F

Seeded from EcoCyc [5]

complete

GO:0003887

DNA-directed DNA polymerase activity

GO_REF:0000002
GO_REF:0000002
GO_REF:0000003
GO_REF:0000003
GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR012763
InterPro:IPR012763
EC:2.7.7.7
EC:2.7.7.7
SP_KW:KW-0239
SP_KW:KW-0239

F

Seeded from EcoCyc [5]

complete

GO:0003677

DNA binding

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008921
InterPro:IPR008921

F

Seeded from EcoCyc [5]

complete

GO:0000166

nucleotide binding

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR003593
InterPro:IPR003593
SP_KW:KW-0547
SP_KW:KW-0547

F

Seeded from EcoCyc [5]

complete

GO:0005515

protein binding

PMID:15690043[6]

IPI: Inferred from Physical Interaction

UniProtKB:P0A7L0

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0005515

protein binding

PMID:15690043[6]

IPI: Inferred from Physical Interaction

UniProtKB:P0A7L0

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0005737

cytoplasm

C

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0006261

DNA-dependent DNA replication

PMID:10748120[8]

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc 11.1[3].

complete

GO:0043846

DNA polymerase III, DnaX complex

C

required field missing

GO:0003689

DNA clamp loader activity

F

required field missing

GO:0006260

DNA replication

PMID:391641[9]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0017111

nucleoside-triphosphatase activity

PMID:11029431[10]

IDA: Inferred from Direct Assay

F

complete

GO:0043846

DNA polymerase III, DnaX complex

PMID:8376347[11]

IDA: Inferred from Direct Assay

C

complete

GO:0016887

ATPase activity

PMID:2681183[12]

IDA: Inferred from Direct Assay

F

complete

GO:0030337

DNA polymerase processivity factor activity

PMID:11525729[13]

IDA: Inferred from Direct Assay

F

complete

GO:0030337

DNA polymerase processivity factor activity

PMID:7494000[14]

IDA: Inferred from Direct Assay

F

complete

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Interactions

DNA polymerase III

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 DNA polymerase III, preinitiation complex

could be indirect

Protein

rplA

PMID:15690043[6]

Experiment(s):EBI-883400

Protein

fecB

PMID:15690043[6]

Experiment(s):EBI-890677

Protein

nusG

PMID:15690043[6]

Experiment(s):EBI-890677

Protein

rplL

PMID:15690043[6]

Experiment(s):EBI-890677

Protein

rpmC

PMID:15690043[6]

Experiment(s):EBI-890677

Protein

rpsF

PMID:15690043[6]

Experiment(s):EBI-890677

Protein

ugpB

PMID:15690043[6]

Experiment(s):EBI-890677

Protein

yfiF

PMID:15690043[6]

Experiment(s):EBI-890677

Protein

yjgD

PMID:15690043[6]

Experiment(s):EBI-890677

Protein

rhsD

PMID:16606699[15]

Experiment(s):EBI-1136784

Protein

rpoC

PMID:16606699[15]

Experiment(s):EBI-1136784

Protein

Subunits of DNA polymerase III, holoenzyme

could be indirect

Protein

ParC from Topo IV


PMID:12535532[16]

Microscopy- colocalization at the fork lost in dnaX mutant


Protein

subunits of the clamp loader

PMID:11525729[13]

Protein

DnaB (Helicase)-Interacts with tau

PMID:10748120[8]

Protein

alpha subunit of DNA Polymerase III- interacts with tau

PMID:10748120[8]


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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 Source Notes
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Notes

Structure and Physical Properties

[back to top]


Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Sequence

at EcoCyc 

MSYQVLARKW RPQTFADVVG QEHVLTALAN GLSLGRIHHA YLFSGTRGVG KTSIARLLAK
GLNCETGITA TPCGVCDNCR EIEQGRFVDL IEIDAASRTK VEDTRDLLDN VQYAPARGRF
KVYLIDEVHM LSRHSFNALL KTLEEPPEHV KFLLATTDPQ KLPVTILSRC LQFHLKALDV
EQIRHQLEHI LNEEHIAHEP RALQLLARAA EGSLRDALSL TDQAIASGDG QVSTQAVSAM
LGTLDDDQAL SLVEAMVEAN GERVMALINE AAARGIEWEA LLVEMLGLLH RIAMVQLSPA
ALGNDMAAIE LRMRELARTI PPTDIQLYYQ TLLIGRKELP YAPDRRMGVE MTLLRALAFH
PRMPLPEPEV PRQSFAPVAP TAVMTPTQVP PQPQSAPQQA PTVPLPETTS QVLAARQQLQ
RVQGATKAKK SEPAAATRAR PVNNAALERL ASVTDRVQAR PVPSALEKAP AKKEAYRWKA
TTPVMQQKEV VATPKALKKA LEHEKTPELA AKLAAEAIER DPWAAQVSQL SLPKLVEQVA
LNAWKEESDN AVCLHLRSSQ RHLNNRGAQQ KLAEALSMLK GSTVELTIVE DDNPAVRTPL
EWRQAIYEEK LAQARESIIA DNNIQTLRRF FDAELDEESI RPI
Length

643

Mol. Wt

71.138 kDa

pI

6.8 (calculated)

Extinction coefficient

46,410 - 47,160 (calc based on 9 Y, 6 W, and 6 C residues)

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Domains/Motifs/Modification Sites

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Type Residues Description Notes
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<motif_map/>

Structure
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Structures

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

Models

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Structure figures

Notes

Gene Product Resources

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Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10245-MONOMER

UniProt (EcoliWiki Page)

UniProt:P06710

PFAM (EcoliWiki Page)

PFAM:PF00004

RefSeq (EcoliWiki Page)

RefSeq:NP_415003


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Notes

Links

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References

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  1. ↑ 1.0 1.1 1.2 1.3 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 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 3.4 3.5 3.6 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.00 5.01 5.02 5.03 5.04 5.05 5.06 5.07 5.08 5.09 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  6. ↑ 6.00 6.01 6.02 6.03 6.04 6.05 6.06 6.07 6.08 6.09 6.10 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  7. ↑ 7.0 7.1 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  8. ↑ 8.0 8.1 8.2 Dallmann, HG et al. (2000) Characterization of the unique C terminus of the Escherichia coli tau DnaX protein. Monomeric C-tau binds alpha AND DnaB and can partially replace tau in reconstituted replication forks. J. Biol. Chem. 275 15512-9 PubMed
  9. ↑ Henson, JM et al. (1979) Isolation and characterization of dnaX and dnaY temperature-sensitive mutants of Escherichia coli. Genetics 92 1041-59 PubMed
  10. ↑ Walker, JR et al. (2000) Escherichia coli DNA polymerase III tau- and gamma-subunit conserved residues required for activity in vivo and in vitro. J. Bacteriol. 182 6106-13 PubMed
  11. ↑ Blinkova, A et al. (1993) The Escherichia coli DNA polymerase III holoenzyme contains both products of the dnaX gene, tau and gamma, but only tau is essential. J. Bacteriol. 175 6018-27 PubMed
  12. ↑ Tsuchihashi, Z & Kornberg, A (1989) ATP interactions of the tau and gamma subunits of DNA polymerase III holoenzyme of Escherichia coli. J. Biol. Chem. 264 17790-5 PubMed
  13. ↑ 13.0 13.1 Jeruzalmi, D et al. (2001) Crystal structure of the processivity clamp loader gamma (gamma) complex of E. coli DNA polymerase III. Cell 106 429-41 PubMed
  14. ↑ Olson, MW et al. (1995) DnaX complex of Escherichia coli DNA polymerase III holoenzyme. The chi psi complex functions by increasing the affinity of tau and gamma for delta.delta' to a physiologically relevant range. J. Biol. Chem. 270 29570-7 PubMed
  15. ↑ 15.0 15.1 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  16. ↑ Espeli, O et al. (2003) Temporal regulation of topoisomerase IV activity in E. coli. Mol. Cell 11 189-201 PubMed

Categories

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