gcvH:Gene Product(s): Difference between revisions

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touch the Product_phys_prop_table table.
touch table
 
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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
||
glycine cleavage complex lipoylprotein <ref name='LIB:Riley_2006'/>, Gcv <ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, B2904 <ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''glycine cleavage complex lipoylprotein <ref name='LIB:Riley_2006'/>, Gcv <ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, B2904 <ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK2899, JW2872, b2904''
|-
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!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="S46aac5afd0c40"  class=" tableEdit GO_table_product dataTable" 
|- {{table_heading_style}}
|- {{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!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-  
|-  
|
|


|
|
GO:0005960
GO:0019464
|
|
glycine cleavage complex
glycine decarboxylation via glycine cleavage system
|
|
GO_REF:0000002
PMID:1802033
|
|
IEA: Inferred from Electronic Annotation
ISS: Inferred from Sequence or Structural Similarity
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|
InterPro:IPR002930
UniProtKB:P11183
|
|
C
P
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
 
|
|
complete  
complete  
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GO:0006546
GO:0005739
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|
glycine catabolic process
mitochondrion
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GO_REF:0000002
GOA:interpro<br />GO_REF:0000002
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IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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InterPro:IPR002930
InterPro:IPR002930
|
|
P
C
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0019464
|
glycine decarboxylation via glycine cleavage system
|
GO_REF:0000020
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IEA: Inferred from Electronic Annotation
|
HAMAP:MF_00272
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
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|
complete  
complete  
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lipoic acid binding
lipoic acid binding
|
|
GO_REF:0000004
PMID:1802033
|
|
IEA: Inferred from Electronic Annotation
ISS: Inferred from Sequence or Structural Similarity
|
|
SP_KW:KW-0450
UniProtKB:P11183
|
|
F
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
 
|
|
complete  
complete  
|-
|
|
GO:0009063
|
amino acid catabolic process
|
|
|
|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
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required fields missing 
|-  
|-  
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|
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glycine cleavage complex
glycine cleavage complex
|
|
GO_REF:0000002
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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C
C
|
|
Seeded from EcoCyc
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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glycine catabolic process
glycine catabolic process
|
|
GO_REF:0000002
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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P
P
|
|
Seeded from EcoCyc
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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glycine decarboxylation via glycine cleavage system
glycine decarboxylation via glycine cleavage system
|
|
GO_REF:0000020
GOA:hamap<br />GO_REF:0000020
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|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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P
P
|
|
Seeded from EcoCyc
Seeded from [[EcoCyc]] (v14.0)
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|
complete  
complete  
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lipoic acid binding
lipoic acid binding
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GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
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|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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F
F
|
|
Seeded from EcoCyc
Seeded from [[EcoCyc]] (v14.0)
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complete  
complete  
|-
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GO:0009257
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10-formyltetrahydrofolate biosynthetic process
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P
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Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
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required fields missing 
|-  
|-  
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|


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GO:0019464
GO:0005737
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glycine decarboxylation via glycine cleavage system
cytoplasm
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PMID:1802033
PMID:15642479
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ISS: Inferred from Sequence or Structural Similarity
IDA: Inferred from Direct Assay
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UniProtKB:P11183
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P
|
|


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complete
C
|-
|
 
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GO:0031405
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lipoic acid binding
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PMID:1802033
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ISS: Inferred from Sequence or Structural Similarity
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UniProtKB:P11183
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F
|
|


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complete  
complete  


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!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence
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!|Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes


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{| {{Prettytable}}  id="A46aac5b8c1d17" class=" tableEdit Product_phys_prop_table"
 
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!align=left {{table heading style}} |Name
||


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25,440 - 25,565 (calc based on 6 Y, 3 W, and 1 C residues)
25,440 - 25,565 (calc based on 6 Y, 3 W, and 1 C residues)


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|- {{table heading style}}
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!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-
|
Initiator Methionine
|
1
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Removed
|
[http://www.uniprot.org/uniprot/P0A6T9#section_features UniProt:P0A6T9]
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|-
|
Domain
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8..129
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[http://pfam.janelia.org/family/PF01597 PF01597  Glycine cleavage H-protein]
|


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PMID:19920124
 
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</table>
</table>


<span id="Structure"></span><big>'''Structure'''</big>
<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
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{|   id="B46a85b5f3d624" class=" tableEdit Product_structure_table"


|-
|-
!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
||
||
<beststructure>gcvH
<beststructure>
562</beststructure>
gene=gcvH
 
taxon=562,83333
</beststructure>
|-
|-
!align=left {{table heading style}} |Models
!align=left {{table heading style}} |Models
||
||
View models at:
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=gcvH&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P0A6T9 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=gcvH&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P0A6T9 PSI-PRED (P0A6T9)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P0A6T9 Genomes TO Protein (P0A6T9)] (GTOP)
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)


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<!--Structure_notes--></protect>
</td><td></protect>
==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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===Notes===
===Notes===


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!|Resource type!!Source!!Notes/Reference
!|Resource type!!Source!!Notes/Reference


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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="U46aac5ba68152"  class=" tableEdit Gene_accessions_table"   
|- {{table_heading_style}}
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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/16130806 GI:16130806]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/NP_417380.1 GeneID:947393]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
ASAP:ABE-0009534
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=DIHYDROLIPOYL-GCVH EcoCyc:DIHYDROLIPOYL-GCVH]
[http://www.uniprot.org/uniprot/P0A6T9 UniProtKB/Swiss-Prot:P0A6T9]
|
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[EcoCyc]]
|
EcoCyc:EG10371
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EcoGene]]
|
EcoGene:EG10371
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
|
|
[http://pfam.sanger.ac.uk/family?acc=PF01597 PFAM:PF01597]
[http://www.ncbi.nlm.nih.gov/gene?term=947393 GeneID:947393]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[RegulonDB]]
|
|
[[uniprot:P23884|UniProt:P23884]]
RegulonDB:ECK120000364
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://salilab.org/modbase/searchbyid?databaseID=P23884 ModBase:P23884]
EchoBASE:EB0366
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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==References==
==References==
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===Categories===
===Categories===
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[[Category:Proteins]]
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0009063_!_amino acid catabolic process]][[Category:GO:0009257_!_10-formyltetrahydrofolate biosynthetic process]]
[[Category:RefGenome_Annotated_Gene]]

Latest revision as of 20:57, 17 February 2015

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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

GcvH

Synonyms

glycine cleavage complex lipoylprotein [1], Gcv [2][1], B2904 [2][1] , ECK2899, JW2872, b2904

Product description

H-protein-(dihydrolipoyl)lysine[2][3], H-protein-S-(aminomethyldihydrolipoyl)lysine[2][3]


Glycine cleavage, carrier of aminomethyl group[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 Evidence Code with/from Aspect Notes Status
GO:0019464

glycine decarboxylation via glycine cleavage system

PMID:1802033[5]

ISS: Inferred from Sequence or Structural Similarity

UniProtKB:P11183

P

complete

GO:0005739

mitochondrion

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002930

C

Seeded from EcoCyc (v14.0)

complete

GO:0031405

lipoic acid binding

PMID:1802033[5]

ISS: Inferred from Sequence or Structural Similarity

UniProtKB:P11183

F

complete

GO:0005960

glycine cleavage complex

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002930

C

Seeded from EcoCyc (v14.0)

complete

GO:0006546

glycine catabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002930

P

Seeded from EcoCyc (v14.0)

complete

GO:0019464

glycine decarboxylation via glycine cleavage system

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00272

P

Seeded from EcoCyc (v14.0)

complete

GO:0031405

lipoic acid binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0450

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

PMID:15642479[6]

IDA: Inferred from Direct Assay

C

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

GcvT

Cross-linking of purified GcvT and GcvH in the presence of folate substrates. Cross-linking was done with 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide.

PMID:10491090[7]


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

Name
Sequence 
MRITIILVAP ARAENIGAAA RAMKTMGFSD LRIVDSQAHL EPATRWVAHG SGDIIDNIKV
FPTLAESLHD VDFTVATTAR SRAKYHYYAT PVELVPLLEE KSSWMSHAAL VFGREDSGLT
NEELALADVL TGVPMVADYP SLNLGQAVMV YCYQLATLIQ QPAKSDATAD QHQLQALRER
AMTLLTTLAV ADDIKLVDWL QQRLGLLEQR DTAMLHRLLH DIEKNITK
Length

228

Mol. Wt

25.259 kDa

pI

5.9 (calculated)

Extinction coefficient

25,440 - 25,565 (calc based on 6 Y, 3 W, and 1 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

Initiator Methionine

1

Removed

UniProt:P0A6T9

Domain

8..129

PF01597 Glycine cleavage H-protein

PMID:19920124[8]

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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=gcvH 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

NCBI (Protein) (EcoliWiki Page)

GI:16130806

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947393

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009534

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A6T9

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10371

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10371

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947393

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000364

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0366

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. ↑ 1.0 1.1 1.2 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 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 Stauffer, LT et al. (1991) An Escherichia coli protein with homology to the H-protein of the glycine cleavage enzyme complex from pea and chicken liver. DNA Seq. 2 13-7 PubMed
  6. ↑ Nesbitt, NM et al. (2005) Expression, purification, and physical characterization of Escherichia coli lipoyl(octanoyl)transferase. Protein Expr. Purif. 39 269-82 PubMed
  7. ↑ Okamura-Ikeda, K et al. (1999) The amino-terminal region of the Escherichia coli T-protein of the glycine cleavage system is essential for proper association with H-protein. Eur. J. Biochem. 264 446-53 PubMed
  8. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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