holD:Gene Product(s): Difference between revisions

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!align=left {{table heading style}} |Standard name
!align=left |Standard name
||
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HolD product  
HolD product  
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!align=left {{table heading style}} |Synonyms
!align=left |Synonyms
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DNA polymerase III, psi subunit product<ref name='LIB:Riley_2006'/>, B4372 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, HolD product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
DNA polymerase III, psi subunit product<ref name='LIB:Riley_2006'/>, B4372 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, HolD product<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, &psi; subunit<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;  
DNA polymerase III, &psi; subunit<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;  
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DNA polymerase, psi subunit, clamp loader complex subunit<ref name='LIB:EcoGene'/>
DNA polymerase, psi subunit, clamp loader complex subunit<ref name='LIB:EcoGene'/>
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!align=left {{table heading style}} |EC number (for enzymes)
!align=left |EC number (for enzymes)
||
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* [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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required fields missing   


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


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|-
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!align=left {{table heading style}} |Sequence
!align=left |Sequence
||
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[http://biocyc.org/ECOLI/sequence-aa?object=EG11414-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=EG11414-MONOMER at EcoCyc]  
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LWQQICTYEH DFFPRND</pre>  
LWQQICTYEH DFFPRND</pre>  
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!align=left {{table heading style}} |Length
!align=left |Length
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137
137
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!align=left {{table heading style}} |Mol. Wt
!align=left |Mol. Wt
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15.174 kDa
15.174 kDa
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!align=left {{table heading style}} |pI
!align=left |pI
||
||
5.7 (calculated)
5.7 (calculated)
|-
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!align=left {{table heading style}} |Extinction coefficient
!align=left |Extinction coefficient
||
||
23,490 - 23,740 (calc based on 1 Y, 4 W, and 2 C residues)
23,490 - 23,740 (calc based on 1 Y, 4 W, and 2 C residues)


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<beststructure>
<beststructure>
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</beststructure>
</beststructure>
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!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 01:37, 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

HolD product

Synonyms

DNA polymerase III, psi subunit product[1], B4372 product[2][1], HolD product[2][1]

Product description

DNA polymerase III, ψ subunit[2][3];

Component of DNA polymerase III, preinitiation complex[3]; DNA polymerase III, holoenzyme[3]

DNA polymerase, psi subunit, clamp loader complex subunit[4]

EC number (for enzymes)
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Notes

Function

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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(s) Evidence Code with/from Aspect Notes Status
GO:0003887

DNA-directed DNA polymerase activity

GO_REF:0000002
GO_REF:0000003
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR004615
EC:2.7.7.7
SP_KW:KW-0239

F

Seeded from EcoCyc [5]

complete

GO:0006260

DNA replication

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR004615
SP_KW:KW-0235

P

Seeded from EcoCyc [5]

complete

GO:0008408

3'-5' exonuclease activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004615

F

Seeded from EcoCyc [5]

complete

GO:0016740

transferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc [5]

complete

GO:0016779

nucleotidyltransferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0548

F

Seeded from EcoCyc [5]

complete

GO:0005737

cytoplasm

C

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0006261

DNA-dependent DNA replication

P

Seeded from EcoCyc 11.1[3].

required fields missing

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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 DNA polymerase III, preinitiation complex

could be indirect

Protein

ssb

PMID:15690043[6]

Experiment(s):EBI-880133, EBI-885289

Protein

pyrI

PMID:16606699[7]

Experiment(s):EBI-1147919

Protein

ycgL

PMID:16606699[7]

Experiment(s):EBI-1147919

Protein

ynbC

PMID:15690043[6]

Experiment(s):EBI-880133

Protein

dnaX

PMID:15690043[6]

Experiment(s):EBI-880133, EBI-885289

Protein

holA

PMID:15690043[6]

Experiment(s):EBI-880133

Protein

holB

PMID:15690043[6]

Experiment(s):EBI-880133, EBI-885437

Protein

holC

PMID:15690043[6]

Experiment(s):EBI-880133, EBI-880166, EBI-885289, EBI-885330

Protein

recQ

PMID:15690043[6]

Experiment(s):EBI-880133

Protein

rplM

PMID:15690043[6]

Experiment(s):EBI-880133

Protein

rpoC

PMID:15690043[6]

Experiment(s):EBI-880133

Protein

secA

PMID:15690043[6]

Experiment(s):EBI-880133

Protein

topB

PMID:15690043[6]

Experiment(s):EBI-880133

Protein

rplC

PMID:15690043[6]

Experiment(s):EBI-880133

Protein

rplL

PMID:15690043[6]

Experiment(s):EBI-885289

Protein

rplU

PMID:15690043[6]

Experiment(s):EBI-885289

Protein

rpmB

PMID:15690043[6]

Experiment(s):EBI-885289

Protein

Subunits of DNA polymerase III, holoenzyme

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 Source Notes
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Notes

Structure and Physical Properties

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

Sequence

at EcoCyc 

MTSRRDWQLQ QLGITQWSLR RPGALQGEIA IAIPAHVRLV MVANDLPALT DPLVSDVLRA
LTVSPDQVLQ LTPEKIAMLP QGSHCNSWRL GTDEPLSLEG AQVASPALTD LRANPTARAA
LWQQICTYEH DFFPRND
Length

137

Mol. Wt

15.174 kDa

pI

5.7 (calculated)

Extinction coefficient

23,490 - 23,740 (calc based on 1 Y, 4 W, and 2 C residues)

edit table


Domains/Motifs/Modification Sites

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

Type Residues Description Notes
edit table

<motif_map/>

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

Structures

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

Models

View models at:

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Structure figures

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

EcoCyc (EcoliWiki Page)

EcoCyc:EG11414-MONOMER

UniProt (EcoliWiki Page)

UniProt:P28632

PFAM (EcoliWiki Page)

PFAM:PF03603

RefSeq (EcoliWiki Page)

RefSeq:NP_418789


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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. ↑ 1.0 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 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 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. ↑ 5.0 5.1 5.2 5.3 5.4 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 6.11 6.12 6.13 6.14 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 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed

Categories

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