ade:Gene Product(s): Difference between revisions

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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
||
cryptic adenine deaminase<ref name='LIB:Riley_2006'/>, B3665<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Adu<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Ade<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YicP<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''cryptic adenine deaminase<ref name='LIB:Riley_2006'/>, B3665<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Adu<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Ade<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YicP<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , adeC, adu, ECK3656, JW3640, yicP, b3665''
|-
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!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.2 3.5.4.2]<ref name='LIB:Riley_2006'/>
* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.2 3.5.4.2]<ref name='LIB:Riley_2006'/>


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|- {{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:0030145
GO:0005737
|
cytoplasm
|
 
|
 
|
 
|
C
|
Seeded from Riley et  al 2006 <ref name='LIB:Riley_2006'/>.
|
Missing: evidence, reference
|-
|
 
|
GO:0000034
|
adenine deaminase activity
|
GOA:hamap<br />GO_REF:0000020
|
IEA: Inferred from Electronic Annotation
|
HAMAP:MF_01518
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0000034
|
|
manganese ion binding
adenine deaminase activity
|
|
GO_REF:0000004
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0464
InterPro:IPR006679
|
|
F
F
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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adenine deaminase activity
adenine deaminase activity
|
|
GO_REF:0000002<br />GO_REF:0000003<br />GO_REF:0000020
GOA:spec<br />GO_REF:0000003
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR006679<br />EC:3.5.4.2<br />HAMAP:MF_01518
EC:3.5.4.2
|
|
F
F
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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adenine catabolic process
adenine 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 <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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hydrolase activity
hydrolase activity
|
|
GO_REF:0000002<br />GO_REF:0000004
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR006680<br />SP_KW:KW-0378
InterPro:IPR006680
|
|
F
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
|-  
|-  
|
|
 
|
|
GO:0005737
GO:0016787
|
|
cytoplasm
hydrolase activity
|
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0378
|
|
C
F
|
|
Seeded from Riley et  al 2006 <ref name='LIB:Riley_2006'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
required fields missing 
complete
|-  
|-  
|
|
 
|
|
GO:0008152
GO:0016810
|
|
metabolic process
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
|
|
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR011059
|
|
P
F
|
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
required fields missing 
complete
|-  
|-  
|
|


|
|
GO:0016810
GO:0030145
|
|
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
manganese ion binding
|
|
GO_REF:0000002
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR011059
SP_KW:KW-0464
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0000034
|
adenine deaminase activity
|
PMID:11440125
|
IMP: Inferred from Mutant Phenotype
|
 
|
F
|
 
|
complete
|-
|
 
|
GO:0005625
|
soluble fraction
|
PMID:11440125
|
IDA: Inferred from Direct Assay
|
 
|
C
|
 
|
complete
|-
|
 
|
GO:0006146
|
adenine catabolic process
|
PMID:11440125
|
IMP: Inferred from Mutant Phenotype
|
 
|
P
|
 
|
complete
|-
|
 
|
GO:0042803
|
protein homodimerization activity
|
PMID:11440125
|
IDA: Inferred from Direct Assay
|
 
|
F
|
 
|
complete
|-
|
 
|
GO:0030145
|
manganese ion binding
|
PMID:11440125
|
IDA: Inferred from Direct Assay
|
 
|
|
F
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
 
|
|
complete  
complete  
|-
|


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GO:0046101
|
hypoxanthine biosynthetic process
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PMID:11440125
|
IMP: Inferred from Mutant Phenotype
|
 
|
P
|
 
|
complete
 
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!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence
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Experiment(s):EBI-1146450<br />  
Experiment(s):EBI-1146450<br />  


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!|Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes


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!align=left {{table heading style}} |Name
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IGRSAEEMAL AVNQVIQDGG GLCVVRNGQV QSHLPLPIAG LMSTDTAQSL AEQIDALKAA
IGRSAEEMAL AVNQVIQDGG GLCVVRNGQV QSHLPLPIAG LMSTDTAQSL AEQIDALKAA
ARECGPLPDE PFIQMAFLSL PVIPALKLTS QGLFDGEKFA FTTLEVTE</pre>  
ARECGPLPDE PFIQMAFLSL PVIPALKLTS QGLFDGEKFA FTTLEVTE</pre>  
|-
!align=left {{table heading style}} |Length
||
588
|-
|-
!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
63.74 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
63.739 kDa
|-
|-
!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
||
5.2 (calculated)
|-
|-
!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
||
41370 - 42745 (calc based on 13 Y, 4 W, and 11 C residues)  
41,370 - 42,745 (calc based on 13 Y, 4 W, and 11 C residues)


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<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span>
<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span><table>
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|- {{table heading style}}
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-
|
Domain
|
81..347
|
[http://pfam.janelia.org/family/PF01979 PF01979  Amidohydrolase family]
|
 
|
PMID:19920124


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<td>
<!-- motifs column 2-->
<motif_map/>
</td>
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</table>


 
<table><tr valign='top'><td>
<span id="Structure"></span><big>'''Structure'''</big>
<span id='Structure'></span><big>'''Structure'''</big><br />
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|-
|-
!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
||
||
<beststructure>ade
<beststructure>
562</beststructure>
gene=ade
 
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=ade&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P31441 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=ade&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P31441 PSI-PRED (P31441)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P31441 Genomes TO Protein (P31441)] (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 ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
<protect><!--          ***** PLEASE DO NOT EDIT BELOW THIS LINE *****        -->
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===Notes===
===Notes===


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


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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/16131535 GI:16131535]
|
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_418121.1 GeneID:948210]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG11692-MONOMER EcoCyc:EG11692-MONOMER]
Escherichia coli str. K-12 substr. MG1655
|-  
|
|
[[ASAP]]
|
ASAP:ABE-0011979
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
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[http://www.uniprot.org/uniprot/P31441 UniProtKB/Swiss-Prot:P31441]
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Escherichia coli str. K-12 substr. MG1655
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[[EcoCyc]]
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EcoCyc:EG11692
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[EcoGene]]
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[[uniprot:P31441|UniProt:P31441]]
EcoGene:EG11692
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
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[http://pfam.sanger.ac.uk/family?acc=PF01979 PFAM:PF01979]
[http://www.ncbi.nlm.nih.gov/gene?term=948210 GeneID:948210]
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Escherichia coli str. K-12 substr. MG1655
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[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
[[RegulonDB]]
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[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_418121 RefSeq:NP_418121]
RegulonDB:ECK120001635
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
[[EchoBASE]]
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[http://salilab.org/modbase/searchbyid?databaseID=P31441 ModBase:P31441]
EchoBASE:EB1643
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
 
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0005737_!_cytoplasm]][[Category:GO:0008152_!_metabolic process]][[Category:Complex:cryptic adenine deaminase]]

Latest revision as of 21:06, 17 February 2015

{{#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

Ade

Synonyms

cryptic adenine deaminase[1], B3665[2][1], Adu[2][1], Ade[2][1], YicP[2][1] , adeC, adu, ECK3656, JW3640, yicP, b3665

Product description

cryptic adenine deaminase[2][3];

Component of cryptic adenine deaminase[3]

Cryptic (or inducer-unknown) adenine deaminase; can be activated by hns mutation or IS elements; adenine aminohydrolase[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:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0000034

adenine deaminase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01518

F

Seeded from EcoCyc (v14.0)

complete

GO:0000034

adenine deaminase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006679

F

Seeded from EcoCyc (v14.0)

complete

GO:0000034

adenine deaminase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:3.5.4.2

F

Seeded from EcoCyc (v14.0)

complete

GO:0006146

adenine catabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006679

P

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006680

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc (v14.0)

complete

GO:0016810

hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011059

F

Seeded from EcoCyc (v14.0)

complete

GO:0030145

manganese ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0464

F

Seeded from EcoCyc (v14.0)

complete

GO:0000034

adenine deaminase activity

PMID:11440125[5]

IMP: Inferred from Mutant Phenotype

F

complete

GO:0005625

soluble fraction

PMID:11440125[5]

IDA: Inferred from Direct Assay

C

complete

GO:0006146

adenine catabolic process

PMID:11440125[5]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0042803

protein homodimerization activity

PMID:11440125[5]

IDA: Inferred from Direct Assay

F

complete

GO:0030145

manganese ion binding

PMID:11440125[5]

IDA: Inferred from Direct Assay

F

complete

GO:0046101

hypoxanthine biosynthetic process

PMID:11440125[5]

IMP: Inferred from Mutant Phenotype

P

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

Subunits of cryptic adenine deaminase

could be indirect

Protein

nadE

PMID:16606699[6]

Experiment(s):EBI-1146450

Protein

nagC

PMID:16606699[6]

Experiment(s):EBI-1146450

Protein

rimJ

PMID:16606699[6]

Experiment(s):EBI-1146450

Protein

rplB

PMID:16606699[6]

Experiment(s):EBI-1146450

Protein

yfaS

PMID:16606699[6]

Experiment(s):EBI-1146450

Protein

rpoB

PMID:16606699[6]

Experiment(s):EBI-1146450

Protein

ymfD

PMID:16606699[6]

Experiment(s):EBI-1146450
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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

at EcoCyc 

MNNSINHKFH HISRAEYQEL LAVSRGDAVA DYIIDNVSIL DLINGGEISG PIVIKGRYIA
GVGAEYTDAP ALQRIDARGA TAVPGFIDAH LHIESSMMTP VTFETATLPR GLTTVICDPH
EIVNVMGEAG FAWFARCAEQ ARQNQYLQVS SCVPALEGCD VNGASFTLEQ MLAWRDHPQV
TGLAEMMDYP GVISGQNALL DKLDAFRHLT LDGHCPGLGG KELNAYITAG IENCHESYQL
EEGRRKLQLG MSLMIREGSA ARNLNALAPL INEFNSPQCM LCTDDRNPWE IAHEGHIDAL
IRRLIEQHNV PLHVAYRVAS WSTARHFGLN HLGLLAPGKQ ADIVLLSDAR KVTVQQVLVK
GEPIDAQTLQ AEESARLAQS APPYGNTIAR QPVSASDFAL QFTPGKRYRV IDVIHNELIT
HSHSSVYSEN GFDRDDVSFI AVLERYGQRL APACGLLGGF GLNEGALAAT VSHDSHNIVV
IGRSAEEMAL AVNQVIQDGG GLCVVRNGQV QSHLPLPIAG LMSTDTAQSL AEQIDALKAA
ARECGPLPDE PFIQMAFLSL PVIPALKLTS QGLFDGEKFA FTTLEVTE
Length

588

Mol. Wt

63.739 kDa

pI

5.2 (calculated)

Extinction coefficient

41,370 - 42,745 (calc based on 13 Y, 4 W, and 11 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

Domain

81..347

PF01979 Amidohydrolase family

PMID:19920124[7]

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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=ade 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:16131535

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948210

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011979

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P31441

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11692

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11692

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948210

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001635

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1643

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 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 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 5.2 5.3 5.4 5.5 Matsui, H et al. (2001) Adenine deaminase activity of the yicP gene product of Escherichia coli. Biosci. Biotechnol. Biochem. 65 1112-8 PubMed
  6. ↑ 6.0 6.1 6.2 6.3 6.4 6.5 6.6 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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