icd:Gene Product(s): Difference between revisions

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|-
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!align=left |Standard name
!align=left {{table heading style}} |Standard name
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Icd  
Icd  
|-
|-
!align=left |Synonyms
!align=left {{table heading style}} |Synonyms
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e14 prophage; isocitrate dehydrogenase, specific for NADP+<ref name='LIB:Riley_2006'/>, B1136<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Icd<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, IcdE<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, IcdA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
e14 prophage; isocitrate dehydrogenase, specific for NADP+<ref name='LIB:Riley_2006'/>, B1136<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Icd<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, IcdE<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, IcdA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
|-
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!align=left |Product description
!align=left {{table heading style}} |Product description
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Icd<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;  
Icd<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;  
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Isocitrate dehydrogenase, NADP+-specific; e14 attachment site<ref name='LIB:EcoGene'/>
Isocitrate dehydrogenase, NADP+-specific; e14 attachment site<ref name='LIB:EcoGene'/>
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!align=left |EC number (for enzymes)
!align=left {{table heading style}} |EC number (for enzymes)
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* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.42 1.1.1.42]<ref name='LIB:Riley_2006'/>
* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.42 1.1.1.42]<ref name='LIB:Riley_2006'/>
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*  
*  
****************************************************************************************** -->{{Product_GO_help}}
****************************************************************************************** -->{{Product_GO_help}}
{|   id="Z46aa58e4767b5"  class=" tableEdit GO_table_product dataTable"   
{| {{Prettytable}}  id="Z46aa58e4767b5"  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
|-  
|-  
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*  
*  
****************************************************************************************** -->{{Product_interactions_help}}
****************************************************************************************** -->{{Product_interactions_help}}
{|  id="M46aa58f31fc83"  class=" tableEdit Product_interactions_table"   
{|  id="M46aa58f31fc83"  class=" tableEdit Product_interactions_table dataTable"   
|-
|- {{table heading style}}
!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence
|-  
|-  
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****************************************************************************************** -->{{Product_localization_help}}
****************************************************************************************** -->{{Product_localization_help}}
{|  id="E46a7ebe18453c"  class=" tableEdit Product_localization_table"   
{|  id="E46a7ebe18453c"  class=" tableEdit Product_localization_table"   
|-
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Source!!Notes
!|Compartment!!Description!!Evidence!!Source!!Notes


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|-
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!align=left |Sequence
!align=left {{table heading style}} |Sequence
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[http://biocyc.org/ECOLI/sequence-aa?object=ISOCITDEH-SUBUNIT at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=ISOCITDEH-SUBUNIT at EcoCyc]  
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EMMLRHMGWT EAADLIVKGM EGAINAKTVT YDFERLMDGA KLLKCSEFGD AIIENM</pre>  
EMMLRHMGWT EAADLIVKGM EGAINAKTVT YDFERLMDGA KLLKCSEFGD AIIENM</pre>  
|-
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!align=left |Length
!align=left {{table heading style}} |Length
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416
416
|-
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!align=left |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
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45.757 kDa
45.757 kDa
|-
|-
!align=left |pI
!align=left {{table heading style}} |pI
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5.0 (calculated)
5.0 (calculated)
|-
|-
!align=left |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
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55,350 - 56,100 (calc based on 15 Y, 6 W, and 6 C residues)
55,350 - 56,100 (calc based on 15 Y, 6 W, and 6 C residues)
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*  
*  
****************************************************************************************** -->{{Product_domains_motifs_help}}
****************************************************************************************** -->{{Product_domains_motifs_help}}
{|  id="T46aa58f59edb0"  class=" tableEdit Product_motif_table"   
{|  id="T46aa58f59edb0"  class=" tableEdit Product_motif_table dataTable"   
|-
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References


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|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.22184.T46aa58f59edb0&page=22184&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table]</span> || || || ||
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|-
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!align=left |Structures
!align=left {{table heading style}} |Structures
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<beststructure>
<beststructure>
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</beststructure>
</beststructure>
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!align=left |Models
!align=left {{table heading style}} |Models
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View models at:
View models at:
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****************************************************************************************** -->{{Product_resources_help}}
****************************************************************************************** -->{{Product_resources_help}}
{|  id="P46aa590ed0838"  class=" tableEdit Product_resource_table"   
{|  id="P46aa590ed0838"  class=" tableEdit Product_resource_table"   
|-
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference
!|Resource type!!Source!!Notes/Reference


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****************************************************************************************** -->{{Gene_accessions_help}}
****************************************************************************************** -->{{Gene_accessions_help}}
{|  id="A46aa590f2996e"  class=" tableEdit Gene_accessions_table"   
{|  id="A46aa590f2996e"  class=" tableEdit Gene_accessions_table"   
|-
|- {{table_heading_style}}
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
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{|  id="Y46a7ec0601cf4"  class=" tableEdit Links_table"   
{|  id="Y46a7ec0601cf4"  class=" tableEdit Links_table"   
|-
|- {{table_heading_style}}
!|Name!!URL!!Comments
!|Name!!URL!!Comments


Revision as of 20:11, 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

Icd

Synonyms

e14 prophage; isocitrate dehydrogenase, specific for NADP+[1], B1136[2][1], Icd[2][1], IcdE[2][1], IcdA[2][1]

Product description

Icd[2][3];

Component of isocitrate dehydrogenase[2][3]

Isocitrate dehydrogenase, NADP+-specific; e14 attachment site[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:0000287

magnesium ion binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0460

F

Seeded from EcoCyc [5]

complete

GO:0004450

isocitrate dehydrogenase (NADP+) activity

GO_REF:0000002
GO_REF:0000003

IEA: Inferred from Electronic Annotation

InterPro:IPR004439
EC:1.1.1.42

F

Seeded from EcoCyc [5]

complete

GO:0006097

glyoxylate cycle

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0329

P

Seeded from EcoCyc [5]

complete

GO:0006099

tricarboxylic acid cycle

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR004439
SP_KW:KW-0816

P

Seeded from EcoCyc 12.5 [6]

complete

GO:0008152

metabolic process

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001804

P

Seeded from EcoCyc [5]

complete

GO:0016491

oxidoreductase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

F

Seeded from EcoCyc [5]

complete

GO:0016616

oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001804

F

Seeded from EcoCyc [5]

complete

GO:0030145

manganese ion binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0464

F

Seeded from EcoCyc [5]

complete

GO:0046872

metal ion binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

Seeded from EcoCyc [5]

complete

GO:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

required fields missing

GO:0055114

oxidation reduction

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

P

Seeded from EcoCyc [5]

complete

GO:0009061

anaerobic respiration

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 isocitrate dehydrogenase

could be indirect

Protein

yneG

PMID:16606699[7]

Experiment(s):EBI-1138992

Protein

yibL

PMID:16606699[7]

Experiment(s):EBI-1138992

Protein

yfdS

PMID:16606699[7]

Experiment(s):EBI-1138992

Protein

nadE

PMID:16606699[7]

Experiment(s):EBI-1138992
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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 

MESKVVVPAQ GKKITLQNGK LNVPENPIIP YIEGDGIGVD VTPAMLKVVD AAVEKAYKGE
RKISWMEIYT GEKSTQVYGQ DVWLPAETLD LIREYRVAIK GPLTTPVGGG IRSLNVALRQ
ELDLYICLRP VRYYQGTPSP VKHPELTDMV IFRENSEDIY AGIEWKADSA DAEKVIKFLR
EEMGVKKIRF PEHCGIGIKP CSEEGTKRLV RAAIEYAIAN DRDSVTLVHK GNIMKFTEGA
FKDWGYQLAR EEFGGELIDG GPWLKVKNPN TGKEIVIKDV IADAFLQQIL LRPAEYDVIA
CMNLNGDYIS DALAAQVGGI GIAPGANIGD ECALFEATHG TAPKYAGQDK VNPGSIILSA
EMMLRHMGWT EAADLIVKGM EGAINAKTVT YDFERLMDGA KLLKCSEFGD AIIENM
Length

416

Mol. Wt

45.757 kDa

pI

5.0 (calculated)

Extinction coefficient

55,350 - 56,100 (calc based on 15 Y, 6 W, and 6 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
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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=icd 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:MONOMER0-2778

UniProt (EcoliWiki Page)

UniProt:P08200

PFAM (EcoliWiki Page)

PFAM:PF00180

RefSeq (EcoliWiki Page)

RefSeq:NP_415654


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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 1.4 1.5 1.6 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 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 5.4 5.5 5.6 5.7 5.8 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  6. ↑ EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  7. ↑ 7.0 7.1 7.2 7.3 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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