sad:Gene Product(s): Difference between revisions

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|-
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!align=left {{table heading style}} |Standard name
!align=left {{table heading style}} |Standard name
||
||
YneI
Sad
|-
|-
!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
||
predicted aldehyde dehydrogenase<ref name='LIB:Riley_2006'/>, B1525<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YneI<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''predicted aldehyde dehydrogenase<ref name='LIB:Riley_2006'/>, B1525<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YneI<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK1518, JW5247, yneI, b1525''
|-
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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="B46aa6db08b73a"  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:0005737
GO:0009013
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|
cytoplasm
succinate-semialdehyde dehydrogenase (NAD(P)+) activity
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|
PMID:7011797
PMID:17873044
|
|
IDA: Inferred from Direct Assay
IDA: Inferred from Direct Assay
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|
|
C
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
 
|
|
complete  
complete  
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|
|
GO:0006527
GO:0009013
|
|
arginine catabolic process
succinate-semialdehyde dehydrogenase (NAD(P)+) activity
|
|
PMID:17873044
PMID:7011797
|
|
IMP: Inferred from Mutant Phenotype
IDA: Inferred from Direct Assay
|
|


|
|
P
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
 
|
|
complete  
complete  
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|
|
GO:0006807
GO:0004777
|
|
nitrogen compound metabolic process
succinate-semialdehyde dehydrogenase activity
|
|
PMID:17873044
PMID:17873044
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|
|
P
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
|
GO:0008152
GO:0009450
|
|
metabolic process
gamma-aminobutyric acid catabolic process
|
|
GO_REF:0000002<br />GO_REF:0000002<br />GO_REF:0000002<br />GO_REF:0000002
PMID:17873044
|
|
IEA: Inferred from Electronic Annotation
IMP: Inferred from Mutant Phenotype
|
|
InterPro:IPR015590<br />InterPro:IPR016160<br />InterPro:IPR016161<br />InterPro:IPR016162
 
|
|
P
P
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
 
|
|
complete  
complete  
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|
|
GO:0009447
GO:0006807
|
|
putrescine catabolic process
nitrogen compound metabolic process
|
|
PMID:17873044
PMID:17873044
|
|
IMP: Inferred from Mutant Phenotype
IDA: Inferred from Direct Assay
|
|


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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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|
|
GO:0016491
GO:0009450
|
|
oxidoreductase activity
gamma-aminobutyric acid catabolic process
|
|
GO_REF:0000002<br />GO_REF:0000002<br />GO_REF:0000002<br />GO_REF:0000002<br />GO_REF:0000004
PMID:7011797
|
|
IEA: Inferred from Electronic Annotation
IMP: Inferred from Mutant Phenotype
|
InterPro:IPR015590<br />InterPro:IPR016160<br />InterPro:IPR016161<br />InterPro:IPR016162<br />SP_KW:KW-0560
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F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
|


|
|
GO:0009013
P
|
succinate-semialdehyde dehydrogenase (NAD(P)+) activity
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PMID:17873044
|
IDA: Inferred from Direct Assay
|
 
|
F
|
|


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GO:0004777
GO:0055114
|
|
succinate-semialdehyde dehydrogenase activity
oxidation reduction
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PMID:17873044
GOA:interpro<br />GO_REF:0000002
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|
IDA: Inferred from Direct Assay
IEA: Inferred from Electronic Annotation
|
|
 
InterPro:IPR015590
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|
F
P
|
|
 
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
|
GO:0009013
GO:0055114
|
|
succinate-semialdehyde dehydrogenase (NAD(P)+) activity
oxidation reduction
|
|
PMID:7011797
GOA:interpro<br />GO_REF:0000002
|
|
IDA: Inferred from Direct Assay
IEA: Inferred from Electronic Annotation
|
|
 
InterPro:IPR016160
|
|
F
P
|
|
 
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
|
GO:0009450
GO:0055114
|
|
gamma-aminobutyric acid catabolic process
oxidation reduction
|
|
PMID:17873044
GOA:interpro<br />GO_REF:0000002
|
|
IMP: Inferred from Mutant Phenotype
IEA: Inferred from Electronic Annotation
|
|
 
InterPro:IPR016161
|
|
P
P
|
|
 
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
|
GO:0009450
GO:0055114
|
|
gamma-aminobutyric acid catabolic process
oxidation reduction
|
|
PMID:7011797
GOA:interpro<br />GO_REF:0000002
|
|
IMP: Inferred from Mutant Phenotype
IEA: Inferred from Electronic Annotation
|
|
 
InterPro:IPR016162
|
|
P
P
|
|
 
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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oxidation reduction
oxidation reduction
|
|
GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
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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|- {{table heading style}}
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!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence
|-
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Protein
|
rlmI
|


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PMID:19402753
|
LCMS(ID Probability):99.6
 
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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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ANVTPEMTAF REEMFGPVAA ITIAKDAEHA LELANDSEFG LSATIFTTDE TQARQMAARL
ANVTPEMTAF REEMFGPVAA ITIAKDAEHA LELANDSEFG LSATIFTTDE TQARQMAARL
ECGGVFINGY CASDARVAFG GVKKSGFGRE LSHFGLHEFC NIQTVWKDRI</pre>  
ECGGVFINGY CASDARVAFG GVKKSGFGRE LSHFGLHEFC NIQTVWKDRI</pre>  
|-
!align=left {{table heading style}} |Length
||
470
|-
|-
!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
49.72 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
50.586 kDa
|-
|-
!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
||
5.6 (calculated)
|-
|-
!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
||
51910 - 52785 (calc based on 9 Y, 7 W, and 7 C residues)  
51,910 - 52,785 (calc based on 9 Y, 7 W, and 7 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
|
4..457
|
[http://pfam.janelia.org/family/PF00171 PF00171  Aldehyde dehydrogenase family]
|
 
|
PMID:19920124


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<td>
<!-- motifs column 2-->
<motif_map/>
</td>
</tr>
</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>yneI
<beststructure>
562</beststructure>
gene=sad
 
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=yneI&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P76149 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=yneI&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P76149 PSI-PRED (P76149)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P76149 Genomes TO Protein (P76149)] (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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|- {{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/90111288 GI:90111288]
|
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_416042.2 GeneID:947440]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
ASAP:ABE-0005092
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.uniprot.org/uniprot/P76149 UniProtKB/Swiss-Prot:P76149]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G6811-MONOMER EcoCyc:G6811-MONOMER]
Escherichia coli str. K-12 substr. MG1655
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[[EcoCyc]]
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EcoCyc:G6811
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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:P76149|UniProt:P76149]]
EcoGene:EG13817
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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=PF00171 PFAM:PF00171]
[http://www.ncbi.nlm.nih.gov/gene?term=947440 GeneID:947440]
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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_416042 RefSeq:NP_416042]
RegulonDB:ECK120003400
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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=P76149 ModBase:P76149]
EchoBASE:EB3578
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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==References==
==References==
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__NOTOC__
__NOTOC__
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===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:Pfam:PF00171_!_Aldehyde dehydrogenase family]]

Latest revision as of 20:39, 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

Sad

Synonyms

predicted aldehyde dehydrogenase[1], B1525[2][1], YneI[2][1] , ECK1518, JW5247, yneI, b1525

Product description

G6811[2][3]

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:0009013

succinate-semialdehyde dehydrogenase (NAD(P)+) activity

PMID:17873044[4]

IDA: Inferred from Direct Assay

F

complete

GO:0009013

succinate-semialdehyde dehydrogenase (NAD(P)+) activity

PMID:7011797[5]

IDA: Inferred from Direct Assay

F

complete

GO:0004777

succinate-semialdehyde dehydrogenase activity

PMID:17873044[4]

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0009450

gamma-aminobutyric acid catabolic process

PMID:17873044[4]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0006807

nitrogen compound metabolic process

PMID:17873044[4]

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0009450

gamma-aminobutyric acid catabolic process

PMID:7011797[5]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015590

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016160

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016161

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016162

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

P

Seeded from EcoCyc (v14.0)

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

rlmI

PMID:19402753[6]

LCMS(ID Probability):99.6

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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 

MTHKGDTPMT ITPATHAISI NPATGEQLSV LPWAGADDIE NALQLAAAGF RDWRETNIDY
RAEKLRDIGK ALRARSEEMA QMITREMGKP INQARAEVAK SANLCDWYAE HGPAMLKAEP
TLVENQQAVI EYRPLGTILA IMPWNFPLWQ VMRGAVPIIL AGNGYLLKHA PNVMGCAQLI
AQVFKDAGIP QGVYGWLNAD NDGVSQMIKD SRIAAVTVTG SVRAGAAIGA QAGAALKKCV
LELGGSDPFI VLNDADLELA VKAAVAGRYQ NTGQVCAAAK RFIIEEGIAS AFTERFVAAA
AALKMGDPRD EENALGPMAR FDLRDELHHQ VEKTLAQGAR LLLGGEKMAG AGNYYPPTVL
ANVTPEMTAF REEMFGPVAA ITIAKDAEHA LELANDSEFG LSATIFTTDE TQARQMAARL
ECGGVFINGY CASDARVAFG GVKKSGFGRE LSHFGLHEFC NIQTVWKDRI
Length

470

Mol. Wt

50.586 kDa

pI

5.6 (calculated)

Extinction coefficient

51,910 - 52,785 (calc based on 9 Y, 7 W, and 7 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

4..457

PF00171 Aldehyde dehydrogenase 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=sad 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:90111288

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947440

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005092

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P76149

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6811

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13817

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947440

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003400

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3578

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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 4.3 Fuhrer, T et al. (2007) Computational prediction and experimental verification of the gene encoding the NAD+/NADP+-dependent succinate semialdehyde dehydrogenase in Escherichia coli. J. Bacteriol. 189 8073-8 PubMed
  5. ↑ 5.0 5.1 Donnelly, MI & Cooper, RA (1981) Succinic semialdehyde dehydrogenases of Escherichia coli: their role in the degradation of p-hydroxyphenylacetate and gamma-aminobutyrate. Eur. J. Biochem. 113 555-61 PubMed
  6. ↑ Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  7. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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