dam:Gene Product(s): Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
Update TableEdit tables.
touch the Product_motif_table table.
Line 38: Line 38:


|-
|-
!align=left |Standard name
!align=left {{table heading style}} |Standard name
||
||
Dam  
Dam  
|-
|-
!align=left |Synonyms
!align=left {{table heading style}} |Synonyms
||
||
DNA adenine methylase<ref name='LIB:Riley_2006'/>, B3387<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Dam<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
DNA adenine methylase<ref name='LIB:Riley_2006'/>, B3387<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Dam<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
|-
|-
!align=left |Product description
!align=left {{table heading style}} |Product description
||
||
DNA adenine methylase<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
DNA adenine methylase<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
Line 52: Line 52:
DNA-(adenine-N6)-methyltransferase<ref name='LIB:EcoGene'/>
DNA-(adenine-N6)-methyltransferase<ref name='LIB:EcoGene'/>
|-
|-
!align=left |EC number (for enzymes)
!align=left {{table heading style}} |EC number (for enzymes)
||
||
* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.72 2.1.1.72]<ref name='LIB:Riley_2006'/>
* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.72 2.1.1.72]<ref name='LIB:Riley_2006'/>
Line 75: Line 75:
*  
*  
****************************************************************************************** -->{{Product_GO_help}}
****************************************************************************************** -->{{Product_GO_help}}
{|   id="N46aae60305146"  class=" tableEdit GO_table_product dataTable"   
{| {{Prettytable}}  id="N46aae60305146"  class=" tableEdit GO_table_product dataTable"   
|-
|- {{table_heading_style}}
!|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
|-  
|-  
Line 416: Line 416:
*  
*  
****************************************************************************************** -->{{Product_interactions_help}}
****************************************************************************************** -->{{Product_interactions_help}}
{|  id="S46aae6183f3e7"  class=" tableEdit Product_interactions_table"   
{|  id="S46aae6183f3e7"  class=" tableEdit Product_interactions_table dataTable"   
|-
|- {{table heading style}}
!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence
|-  
|-  
Line 691: Line 691:
****************************************************************************************** -->{{Product_localization_help}}
****************************************************************************************** -->{{Product_localization_help}}
{|  id="J46a8767bec48c"  class=" tableEdit Product_localization_table"   
{|  id="J46a8767bec48c"  class=" tableEdit Product_localization_table"   
|-
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Source!!Notes
!|Compartment!!Description!!Evidence!!Source!!Notes


Line 718: Line 718:


|-
|-
!align=left |Sequence
!align=left {{table heading style}} |Sequence
||
||
[http://biocyc.org/ECOLI/sequence-aa?object=EG10204-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=EG10204-MONOMER at EcoCyc]  
Line 727: Line 727:
KLHVVKVRRS ISSNGGTRKK VDELLALYKP GVVSPAKK</pre>  
KLHVVKVRRS ISSNGGTRKK VDELLALYKP GVVSPAKK</pre>  
|-
|-
!align=left |Length
!align=left {{table heading style}} |Length
||
||
278
278
|-
|-
!align=left |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
32.1 kDa
32.1 kDa
|-
|-
!align=left |pI
!align=left {{table heading style}} |pI
||
||
8.8 (calculated)
8.8 (calculated)
|-
|-
!align=left |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
||
40,800 - 41,425 (calc based on 20 Y, 2 W, and 5 C residues)
40,800 - 41,425 (calc based on 20 Y, 2 W, and 5 C residues)
Line 758: Line 758:
*  
*  
****************************************************************************************** -->{{Product_domains_motifs_help}}
****************************************************************************************** -->{{Product_domains_motifs_help}}
{|  id="H46aae61ab9166"  class=" tableEdit Product_motif_table"   
{|  id="H46aae61ab9166"  class=" tableEdit Product_motif_table dataTable"   
|-
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.27260.H46aae61ab9166&page=27260&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table]</span> || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.27260.H46aae61ab9166&page=27260&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.27260.H46aae61ab9166--></td>
<!--box uid=421aa90e079fa326b6494f812ad13e79.27260.H46aae61ab9166--></td>
Line 786: Line 786:


|-
|-
!align=left |Structures
!align=left {{table heading style}} |Structures
||
||
<beststructure>
<beststructure>
Line 793: Line 793:
</beststructure>
</beststructure>
|-
|-
!align=left |Models
!align=left {{table heading style}} |Models
||
||
View models at:
View models at:
Line 842: Line 842:
****************************************************************************************** -->{{Product_resources_help}}
****************************************************************************************** -->{{Product_resources_help}}
{|  id="F46aae61b92d14"  class=" tableEdit Product_resource_table"   
{|  id="F46aae61b92d14"  class=" tableEdit Product_resource_table"   
|-
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference
!|Resource type!!Source!!Notes/Reference


Line 864: Line 864:
****************************************************************************************** -->{{Gene_accessions_help}}
****************************************************************************************** -->{{Gene_accessions_help}}
{|  id="U46aae61c06f72"  class=" tableEdit Gene_accessions_table"   
{|  id="U46aae61c06f72"  class=" tableEdit Gene_accessions_table"   
|-
|- {{table_heading_style}}
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
Line 914: Line 914:
****************************************************************************************** -->
****************************************************************************************** -->
{|  id="C46a876812c867"  class=" tableEdit Links_table"   
{|  id="C46a876812c867"  class=" tableEdit Links_table"   
|-
|- {{table_heading_style}}
!|Name!!URL!!Comments
!|Name!!URL!!Comments


Revision as of 19:38, 23 February 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

Dam

Synonyms

DNA adenine methylase[1], B3387[2][1], Dam[2][1]

Product description

DNA adenine methylase[2][3]

DNA-(adenine-N6)-methyltransferase[4]

EC number (for enzymes)
edit table


Notes

Function

[back to top]


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:0009007

site-specific DNA-methyltransferase (adenine-specific) activity

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

IEA: Inferred from Electronic Annotation

InterPro:IPR002294
InterPro:IPR012326
InterPro:IPR012327
EC:2.1.1.72

F

Seeded from EcoCyc 12.5 [5]

complete

GO:0016740

transferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc [6]

complete

GO:0032259

methylation

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002052

P

Seeded from EcoCyc [6]

complete

GO:0008168

methyltransferase activity

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR002052
SP_KW:KW-0489

F

Seeded from EcoCyc [6]

complete

GO:0006260

DNA replication

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0235

P

Seeded from EcoCyc [6]

complete

GO:0006306

DNA methylation

GO_REF:0000002
GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002294
InterPro:IPR012326
InterPro:IPR012327

P

Seeded from EcoCyc [6]

complete

GO:0003677

DNA binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002294

F

Seeded from EcoCyc [6]

complete

GO:0003676

nucleic acid binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002052

F

Seeded from EcoCyc [6]

complete

GO:0009007

site-specific DNA-methyltransferase (adenine-specific) activity

PMID:7037767[7]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc 12.5 [5]

complete

GO:0006298

mismatch repair

PMID:6225697[8]

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc 12.5 [5]

complete

GO:0006298

mismatch repair

PMID:6308634[9]

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc 12.5 [5]

complete

GO:0005737

cytoplasm

C

Seeded from EcoCyc 11.1[3].

required fields missing

NOT

GO:0009307

DNA restriction-modification system

P

Seeded from EcoCyc 11.1[3]. Dam methylation is not a component of the E. coli restriction-modification systems, although it does block cleavage in vitro by some Type II restriction endonucleases. Dam functions as a component of methyl-directed mismatch repair.

required field missing

GO:0009007

site-specific DNA-methyltransferase (adenine-specific) activity

PMID:7037767[7]

IDA: Inferred from Direct Assay

F

complete

GO:0006298

mismatch repair

PMID:6225697[8]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0006298

mismatch repair

PMID:6308634[9]

IDA: Inferred from Direct Assay

P

complete

GO:0006261

DNA-dependent DNA replication

PMID:3891329[10] PMID:3891330[11]

IMP: Inferred from Mutant Phenotype

P

complete

edit table

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

aceE

PMID:15690043[12]

Experiment(s):EBI-881035

Protein

lpdA

PMID:15690043[12]

Experiment(s):EBI-881035, EBI-887858

Protein

yjjI

PMID:15690043[12]

Experiment(s):EBI-881035

Protein

glpD

PMID:15690043[12]

Experiment(s):EBI-887858

Protein

rplV

PMID:15690043[12]

Experiment(s):EBI-887858

Protein

serS

PMID:15690043[12]

Experiment(s):EBI-887858

Protein

rplS

PMID:15690043[12]

Experiment(s):EBI-887858

Protein

envY

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

ulaF

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

rpsC

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

htpG

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

rpsG

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

rpoC

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

rplQ

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

ybaB

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

rpsM

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

yjbD

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

narZ

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

rplD

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

groL

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

rplA

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

rpoB

PMID:16606699[13]

Experiment(s):EBI-1145744

Protein

rpsD

PMID:16606699[13]

Experiment(s):EBI-1145744
edit table


Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Source Notes
edit table


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 

MKKNRAFLKW AGGKYPLLDD IKRHLPKGEC LVEPFVGAGS VFLNTDFSRY ILADINSDLI
SLYNIVKMRT DEYVQAAREL FVPETNCAEV YYQFREEFNK SQDPFRRAVL FLYLNRYGYN
GLCRYNLRGE FNVPFGRYKK PYFPEAELYH FAEKAQNAFF YCESYADSMA RADDASVVYC
DPPYAPLSAT ANFTAYHTNS FTLEQQAHLA EIAEGLVERH IPVLISNHDT MLTREWYQRA
KLHVVKVRRS ISSNGGTRKK VDELLALYKP GVVSPAKK
Length

278

Mol. Wt

32.1 kDa

pI

8.8 (calculated)

Extinction coefficient

40,800 - 41,425 (calc based on 20 Y, 2 W, and 5 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 References
edit table

<motif_map/>

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

Structures

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

Models

View models at:

edit table

Structure figures

Notes

Gene Product Resources

[back to top]


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

Resource type Source Notes/Reference
edit table


Notes

Accessions in Other Databases

[back to top]


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

Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10204-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0AEE8

PFAM (EcoliWiki Page)

PFAM:PF02086

RefSeq (EcoliWiki Page)

RefSeq:NP_417846


edit table


Notes

Links

[back to top]




References

[back to top]


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 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 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  6. ↑ 6.0 6.1 6.2 6.3 6.4 6.5 6.6 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  7. ↑ 7.0 7.1 Herman, GE & Modrich, P (1982) Escherichia coli dam methylase. Physical and catalytic properties of the homogeneous enzyme. J. Biol. Chem. 257 2605-12 PubMed
  8. ↑ 8.0 8.1 Pukkila, PJ et al. (1983) Effects of high levels of DNA adenine methylation on methyl-directed mismatch repair in Escherichia coli. Genetics 104 571-82 PubMed
  9. ↑ 9.0 9.1 Lu, AL et al. (1983) Methyl-directed repair of DNA base-pair mismatches in vitro. Proc. Natl. Acad. Sci. U.S.A. 80 4639-43 PubMed
  10. ↑ Smith, DW et al. (1985) Importance of state of methylation of oriC GATC sites in initiation of DNA replication in Escherichia coli. EMBO J. 4 1319-26 PubMed
  11. ↑ Messer, W et al. (1985) Effect of dam methylation on the activity of the E. coli replication origin, oriC. EMBO J. 4 1327-32 PubMed
  12. ↑ 12.0 12.1 12.2 12.3 12.4 12.5 12.6 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  13. ↑ 13.00 13.01 13.02 13.03 13.04 13.05 13.06 13.07 13.08 13.09 13.10 13.11 13.12 13.13 13.14 13.15 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=dam:Gene_Product(s)&oldid=1048801"