cspD:Gene Product(s): Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
Data loaded by TableEdit_Loader.
touch table
 
(161 intermediate revisions by 3 users not shown)
Line 34: Line 34:
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Product_nomenclature_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  
{|   id="B46aa48c2a22fc" class=" tableEdit Product_nomenclature_table"


|-
|-
!align=left {{table heading style}} |Standard name
!align=left {{table heading style}} |Standard name
||
||
CspD product
CspD  
|-
|-
!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
||
cold shock protein homolog product<ref name='LIB:Riley_2006'/>, B0880 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YbjA product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, CspD product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''cold shock protein homolog<ref name='LIB:Riley_2006'/>, B0880<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YbjA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, CspD<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , cspH, ECK0871, JW0864, ybjA, b0880''
|-
|-
!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
Line 50: Line 50:
DNA replication inhibitor<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;  
DNA replication inhibitor<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;  


Component of ; [[:Category:Complex:cold shock protein homolog|cold shock protein homolog]]<ref name='LIB:EcoCyc11.1'/>
Component of [[:Category:Complex:cold shock protein homolog|cold shock protein homolog]]<ref name='LIB:EcoCyc11.1'/>


Inhibitor of DNA replication; cold shock protein homolog, not cold shock inducible; stationary phase and starvation inducible; lethal when overproduced<ref name='LIB:EcoGene'/>
|-
|-
!align=left {{table heading style}} |EC number (for enzymes)
!align=left {{table heading style}} |EC number (for enzymes)
||
||
*


|-class='sortbottom'
 
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.B46aa48c2a22fc&page=21586&pagename={{FULLPAGENAMEE}}&type=1&template=Product_nomenclature_table edit table] ||
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.B46aa48c2a22fc&page=21586&pagename={{FULLPAGENAMEE}}&type=1&template=Product_nomenclature_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.B46aa48c2a22fc-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.B46aa48c2a22fc-->
{{Product_nomenclature_help}}
 
<protect><!--Nomenclature_notes--></protect>
<protect><!--Nomenclature_notes--></protect>
===Notes===
===Notes===
Line 69: Line 70:
{{BacktoTop}}
{{BacktoTop}}
<protect>
<protect>
<big>'''Gene Ontology'''</big><br />{{Product_GO_help}}<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.D46aa48c40a05b-->
<big>'''Gene Ontology'''</big><br /><!--box uid=421aa90e079fa326b6494f812ad13e79.21586.D46aa48c40a05b-->
<!--
<!--
******************************************************************************************
******************************************************************************************
Line 75: Line 76:
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Product_GO_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="D46aa48c40a05b"  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:0003676
|
nucleic acid binding
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011129
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-  
|-  
|
|


|
|
[[Category:GO:0006355_!_regulation_of_transcription,_DNA-dependent]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0006355_!_regulation_of_transcription,_DNA-dependent GO:0006355]
GO:0003676
|
|
regulation of transcription, DNA-dependent
nucleic acid binding
|
|
[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000002 GO_REF:0000002]<br />GO_REF:0000002
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR002059 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR002059 InterPro:IPR002059]]<br />[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 InterPro:IPR012751]]]]
InterPro:IPR012156
|
|
P
F
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 102: Line 122:


|
|
[[Category:GO:0005737_!_cytoplasm]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0005737_!_cytoplasm GO:0005737]
GO:0003676
|
|
cytoplasm
nucleic acid binding
|
|
[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000002 GO_REF:0000002]<br />GO_REF:0000004
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 InterPro:IPR012751]]]]<br />[http://www.uniprot.org/keywords/KW-0963 SP_KW:KW-0963]
InterPro:IPR012751
|
|
C
F
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 121: Line 141:


|
|
[[Category:GO:0003723_!_RNA_binding]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0003723_!_RNA_binding GO:0003723]
GO:0003677
|
|
RNA binding
DNA binding
|
|
[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000004 GO_REF:0000004]
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
[http://www.uniprot.org/keywords/KW-0694 SP_KW:KW-0694]
InterPro:IPR002059
|
|
F
F
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 140: Line 160:


|
|
[[Category:GO:0003677_!_DNA_binding]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0003677_!_DNA_binding GO:0003677]
GO:0003677
|
|
DNA binding
DNA binding
|
|
[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000002 GO_REF:0000002]<br />GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR002059 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR002059 InterPro:IPR002059]]<br />[http://www.uniprot.org/keywords/KW-0238 SP_KW:KW-0238]
SP_KW:KW-0238
|
|
F
F
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 159: Line 179:


|
|
[[Category:GO:0003676_!_nucleic_acid_binding]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0003676_!_nucleic_acid_binding GO:0003676]
GO:0003723
|
|
nucleic acid binding
RNA binding
|
|
[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000002 GO_REF:0000002]<br />GO_REF:0000002<br />GO_REF:0000002
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR011129 InterPro:IPR011129]<br />[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012156 InterPro:IPR012156]<br />[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 InterPro:IPR012751]]]]
SP_KW:KW-0694
|
|
F
F
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005737
|
cytoplasm
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR012751
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005737
|
cytoplasm
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0963
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
|-  
|-  
|
|
 
|
GO:0005737
|
cytoplasm
|
GO_REF:0000023
|
IEA: Inferred from Electronic Annotation
|
SP_SL:SL-0086
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0006355
|
regulation of transcription, DNA-dependent
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR002059
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
|
[[Category:GO:0006261_!_DNA-dependent_DNA_replication]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0006261_!_DNA-dependent_DNA_replication GO:0006261]
GO:0006355
|
|
DNA-dependent DNA replication
regulation of transcription, DNA-dependent
|
|
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR012751
|
|
P  
P
|
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
required fields missing 
complete
|-  
|-  
|
|


|
|
[[Category:GO:0006950_!_response_to_stress]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0006950_!_response_to_stress GO:0006950]
GO:0006950
|
|
response to stress
response to stress
|
|
[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000002 GO_REF:0000002]
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR012751
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-  
|
 
|
GO:0008156
|
negative regulation of DNA replication
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR012751 InterPro:IPR012751]]]]
SP_KW:KW-0236
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0003697
|
single-stranded DNA binding
|
PMID:11260474
|
IDA: Inferred from Direct Assay
|
 
|
F
|
Figure 4
|
complete
|-
|
 
|
GO:0042594
|
response to starvation
|
PMID:9260955
|
IDA: Inferred from Direct Assay
|
 
|
|
P
P
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Figure 4
|
|
complete  
complete  


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.D46aa48c40a05b&page=21586&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table] || || || || || || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.D46aa48c40a05b&page=21586&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table]</span> || || || || || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.D46aa48c40a05b-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.D46aa48c40a05b-->
Line 225: Line 378:
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Product_interactions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="H46aa48cad16c3"  class=" tableEdit Product_interactions_table dataTable"   
|- {{table heading style}}
|- {{table heading style}}
!|Partner Type!!Partner!!Notes
!|Partner Type!!Partner!!Notes!!References!!Evidence
|-  
|-  
|
|
Line 235: Line 388:
Subunits of [[:Category:Complex:cold shock protein homolog|cold shock protein homolog]]  
Subunits of [[:Category:Complex:cold shock protein homolog|cold shock protein homolog]]  
|
|
could be indirect   
could be indirect  
|
 
|
   
|-
|
Protein
|
aceE<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
cspC<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539, EBI-883767, EBI-883980<br />
|-
|
Protein
|
cspE<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
deaD<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
pnp<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
rho<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
rplA<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
rplB<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
rplC<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539, EBI-883767<br />
|-
|
Protein
|
rpsA<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
rpsB<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539, EBI-883767<br />
|-
|
Protein
|
rpsC<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
rpsE<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539, EBI-883767<br />
|-
|
Protein
|
rpsG<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539, EBI-883767<br />
|-
|
Protein
|
rpsM<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
tehB<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
rnr<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
ycbY<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
rluC<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
rluB<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
accA<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539<br />
|-
|
Protein
|
rpsD<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-879539, EBI-883767<br />
|-
|
Protein
|
acrD<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
aspA<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
ddpB<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
ddlA<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
dppD<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
skp<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
hupA<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
rplM<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
rplS<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
rplX<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
rpsJ<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
rpsN<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
rpsT<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
rpsU<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
ydiA<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
yfiF<br />
|
 
|
PMID:15690043
|
Experiment(s):EBI-883767<br />
|-
|
Protein
|
rho
|
 
|
PMID:19402753
|
MALDI(Z-score):37.446310
|-
|
Protein
|
ddlA
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.0
|-
|
Protein
|
rpsJ
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):5.368742
|-
|
Protein
|
skp
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
|-
|
Protein
|
rpsN
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
|-
|
Protein
|
rpsT
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
|-
|
Protein
|
rpsA
|
 
|
PMID:19402753
|
MALDI(Z-score):24.834488
|-
|
Protein
|
rplS
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.0 MALDI(Z-score):4.578737
|-
|
Protein
|
rpsU
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
|-
|
Protein
|
rplM
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):5.962325
|-
|
Protein
|
rpsC
|
 
|
PMID:19402753
|
MALDI(Z-score):25.075789
|-
|
Protein
|
aspA
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.0
|-
|
Protein
|
rpsM
|
 
|
PMID:19402753
|
MALDI(Z-score):26.386877
|-
|
Protein
|
rplX
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
|-
|
Protein
|
rplB
|
 
|
PMID:19402753
|
MALDI(Z-score):29.727578
|-
|
Protein
|
rpsD
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.0 MALDI(Z-score):35.563879
|-
|
Protein
|
ppsR
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.0
|-
|
Protein
|
rplA
|
 
|
PMID:19402753
|
LCMS(ID Probability):95.4 MALDI(Z-score):31.394353
|-
|
Protein
|
rlmL
|
 
|
PMID:19402753
|
MALDI(Z-score):20.841640
|-
|
Protein
|
acrD
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.0
|-
|
Protein
|
cspE
|
 
|
PMID:19402753
|
LCMS(ID Probability):97.9 MALDI(Z-score):17.053160
|-
|
Protein
|
yfiF
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.0 MALDI(Z-score):19.466810
|-
|
Protein
|
rnr
|
 
|
PMID:19402753
|
MALDI(Z-score):23.323615
|-
|
Protein
|
rluC
|
 
|
PMID:19402753
|
MALDI(Z-score):26.672161
|-
|
Protein
|
deaD
|
 
|
PMID:19402753
|
MALDI(Z-score):25.179680
|-
|
Protein
|
rluB
|
 
|
PMID:19402753
|
MALDI(Z-score):35.756062
|-
|
Protein
|
cspC
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):17.053160
|-
|
Protein
|
dppD
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.0
|-
|
Protein
|
ddpB
|


|-class='sortbottom'
|
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.H46aa48cad16c3&page=21586&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table] || ||
PMID:19402753
|
LCMS(ID Probability):99.0
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.H46aa48cad16c3&page=21586&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.H46aa48cad16c3-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.H46aa48cad16c3-->
{{Product_interactions_help}}
 
<!--Function_notes--></protect>
<!--Function_notes--></protect>
===Notes===
===Notes===
Line 253: Line 1,147:
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Product_localization_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="R46a7da9037587"  class=" tableEdit Product_localization_table"   
|- {{table heading style}}
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
|-
|
Nucleoid
|
 
|
 
|
PMID:11520610
|


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.R46a7da9037587&page=21586&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.R46a7da9037587&page=21586&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.R46a7da9037587-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.R46a7da9037587-->
{{Product_localization_help}}
 
<protect><!--Localization_notes--></protect>
<protect><!--Localization_notes--></protect>


Line 278: Line 1,183:
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Product_physical_properties_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
{|   id="S46aa48ccf1018" class=" tableEdit Product_phys_prop_table"
 
|-
!align=left {{table heading style}} |Name
||


|-
|-
Line 287: Line 1,196:
<pre>MEKGTVKWFN NAKGFGFICP EGGGEDIFAH YSTIQMDGYR TLKAGQSVQF DVHQGPKGNH
<pre>MEKGTVKWFN NAKGFGFICP EGGGEDIFAH YSTIQMDGYR TLKAGQSVQF DVHQGPKGNH
ASVIVPVEVE AAVA</pre>  
ASVIVPVEVE AAVA</pre>  
|-
!align=left {{table heading style}} |Length
||
74
|-
|-
!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
7.97 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
7.968 kDa
|-
|-
!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
||
6.2 (calculated)
|-
|-
!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
||
8480 - 8605 (calc based on 2 Y, 1 W, and 1 C residues)  
8,480 - 8,605 (calc based on 2 Y, 1 W, and 1 C residues)


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.S46aa48ccf1018&page=21586&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table] ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.S46aa48ccf1018&page=21586&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.S46aa48ccf1018-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.S46aa48ccf1018-->
{{Product_physical_properties_help}}


<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span>
 
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.R46aa48cd58bb5-->
<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span><table>
<tr align="left" valign="top">
<td><!--box uid=421aa90e079fa326b6494f812ad13e79.21586.R46aa48cd58bb5-->
<!--
<!--
******************************************************************************************
******************************************************************************************
Line 313: Line 1,227:
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Product_domains_motifs_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="R46aa48cd58bb5"  class=" tableEdit Product_motif_table dataTable"   
|- {{table heading style}}
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-  
|-  
|
|
Domain
Domain
|
|
4 - 64
1..67
|
[http://pfam.janelia.org/family/PF00313 PF00313  'Cold-shock' DNA-binding domain]
|
|
[[interpro:IPR011129|CSD]]
 
|
|
[http://www.uniprot.org/uniprot/P0A968#section_features UniProt:P0A968]
PMID:19920124


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.R46aa48cd58bb5&page=21586&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table] || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.R46aa48cd58bb5&page=21586&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.R46aa48cd58bb5-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.R46aa48cd58bb5--></td>
{{Product_domains_motifs_help}}
<td>
<!-- motifs column 2-->
<motif_map/>
</td>
</tr>
</table>


<span id="Structure"></span><big>'''Structure'''</big>
<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.V46a7da91d08ef-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.V46a7da91d08ef-->
<!--
<!--
Line 340: Line 1,263:
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Product_structure_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  
{|   id="V46a7da91d08ef" class=" tableEdit Product_structure_table"


|-
|-
!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
||
||
<beststructure>cspD
<beststructure>
562</beststructure>
gene=cspD
 
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=cspD&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P0A968 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=cspD&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P0A968 PSI-PRED (P0A968)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P0A968 Genomes TO Protein (P0A968)] (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)


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.V46a7da91d08ef&page=21586&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table] ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.V46a7da91d08ef&page=21586&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.V46a7da91d08ef-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.V46a7da91d08ef-->
{{Product_structure_help}}
 
<!--Structure_notes--></protect>
</td><td></protect>
==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
<protect><!--          ***** PLEASE DO NOT EDIT BELOW THIS LINE *****        -->
</td><tr><table><!--Structure_notes--></protect>
===Notes===
===Notes===


Line 377: Line 1,319:
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Product_resources_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Z46aa48cdf261c"  class=" tableEdit Product_resource_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference
!|Resource type!!Source!!Notes/Reference


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.Z46aa48cdf261c&page=21586&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.Z46aa48cdf261c&page=21586&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.Z46aa48cdf261c-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.Z46aa48cdf261c-->
{{Product_resources_help}}
 
<protect><!--Resources_notes--></protect>
<protect><!--Resources_notes--></protect>
===Notes===
===Notes===
Line 399: Line 1,341:
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Gene_accessions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Z46aa48ce4b0eb"  class=" tableEdit Gene_accessions_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|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/16128848 GI:16128848]
|
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_415401.1 GeneID:945669]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG11111-MONOMER EcoCyc:EG11111-MONOMER]
ASAP:ABE-0002991
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.uniprot.org/uniprot/P0A968 UniProtKB/Swiss-Prot:P0A968]
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://swissmodel.expasy.org/repository/ SwissModel] ([[SwissModel|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://swissmodel.expasy.org/repository/smr.php?job=2&sptr_ac=P0A968 SwissModel:P0A968]
EcoCyc:EG11111
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[EcoGene]]
|
|
[[uniprot:P0A968|UniProt:P0A968]]
EcoGene:EG11111
|
|
''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=PF00313 PFAM:PF00313]
[http://www.ncbi.nlm.nih.gov/gene?term=945669 GeneID:945669]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_415401 RefSeq:NP_415401]
RegulonDB:ECK120001097
|
|
''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=P0A968 ModBase:P0A968]
EchoBASE:EB1102
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.Z46aa48ce4b0eb&page=21586&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.Z46aa48ce4b0eb&page=21586&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.Z46aa48ce4b0eb-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.Z46aa48ce4b0eb-->
{{Product_accessions_help}}
 
<protect><!--Accessions_notes--></protect>
<protect><!--Accessions_notes--></protect>
===Notes===
===Notes===
Line 464: Line 1,427:
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Q46a7da9622574"  class=" tableEdit Links_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Name!!URL!!Comments
!|Name!!URL!!Comments


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.Q46a7da9622574&page=21586&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.21586.Q46a7da9622574&page=21586&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.Q46a7da9622574-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.21586.Q46a7da9622574-->
{{Links_help}}
 




Line 480: Line 1,443:
{{BacktoTop}}
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0006261_!_DNA-dependent DNA replication]][[Category:GO:0005737_!_cytoplasm]][[Category:Complex:cold shock protein homolog]]
[[Category:RefGenome_Annotated_Gene]]

Latest revision as of 20:31, 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

CspD

Synonyms

cold shock protein homolog[1], B0880[2][1], YbjA[2][1], CspD[2][1] , cspH, ECK0871, JW0864, ybjA, b0880

Product description

DNA replication inhibitor[2][3];

Component of cold shock protein homolog[3]

Inhibitor of DNA replication; cold shock protein homolog, not cold shock inducible; stationary phase and starvation inducible; lethal when overproduced[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 Evidence Code with/from Aspect Notes Status
GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011129

F

Seeded from EcoCyc (v14.0)

complete

GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012156

F

Seeded from EcoCyc (v14.0)

complete

GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012751

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002059

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0694

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012751

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0086

C

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002059

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012751

P

Seeded from EcoCyc (v14.0)

complete

GO:0006950

response to stress

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012751

P

Seeded from EcoCyc (v14.0)

complete

GO:0008156

negative regulation of DNA replication

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0236

P

Seeded from EcoCyc (v14.0)

complete

GO:0003697

single-stranded DNA binding

PMID:11260474[5]

IDA: Inferred from Direct Assay

F

Figure 4

complete

GO:0042594

response to starvation

PMID:9260955[6]

IDA: Inferred from Direct Assay

P

Figure 4

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

Subunits of cold shock protein homolog

could be indirect

Protein

aceE

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

cspC

PMID:15690043[7]

Experiment(s):EBI-879539, EBI-883767, EBI-883980

Protein

cspE

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

deaD

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

pnp

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

rho

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

rplA

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

rplB

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

rplC

PMID:15690043[7]

Experiment(s):EBI-879539, EBI-883767

Protein

rpsA

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

rpsB

PMID:15690043[7]

Experiment(s):EBI-879539, EBI-883767

Protein

rpsC

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

rpsE

PMID:15690043[7]

Experiment(s):EBI-879539, EBI-883767

Protein

rpsG

PMID:15690043[7]

Experiment(s):EBI-879539, EBI-883767

Protein

rpsM

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

tehB

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

rnr

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

ycbY

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

rluC

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

rluB

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

accA

PMID:15690043[7]

Experiment(s):EBI-879539

Protein

rpsD

PMID:15690043[7]

Experiment(s):EBI-879539, EBI-883767

Protein

acrD

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

aspA

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

ddpB

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

ddlA

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

dppD

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

skp

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

hupA

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

rplM

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

rplS

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

rplX

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

rpsJ

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

rpsN

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

rpsT

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

rpsU

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

ydiA

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

yfiF

PMID:15690043[7]

Experiment(s):EBI-883767

Protein

rho

PMID:19402753[8]

MALDI(Z-score):37.446310

Protein

ddlA

PMID:19402753[8]

LCMS(ID Probability):99.0

Protein

rpsJ

PMID:19402753[8]

LCMS(ID Probability):99.6 MALDI(Z-score):5.368742

Protein

skp

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

rpsT

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

rpsA

PMID:19402753[8]

MALDI(Z-score):24.834488

Protein

rplS

PMID:19402753[8]

LCMS(ID Probability):99.0 MALDI(Z-score):4.578737

Protein

rpsU

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

rplM

PMID:19402753[8]

LCMS(ID Probability):99.6 MALDI(Z-score):5.962325

Protein

rpsC

PMID:19402753[8]

MALDI(Z-score):25.075789

Protein

aspA

PMID:19402753[8]

LCMS(ID Probability):99.0

Protein

rpsM

PMID:19402753[8]

MALDI(Z-score):26.386877

Protein

rplX

PMID:19402753[8]

LCMS(ID Probability):99.6

Protein

rplB

PMID:19402753[8]

MALDI(Z-score):29.727578

Protein

rpsD

PMID:19402753[8]

LCMS(ID Probability):99.0 MALDI(Z-score):35.563879

Protein

ppsR

PMID:19402753[8]

LCMS(ID Probability):99.0

Protein

rplA

PMID:19402753[8]

LCMS(ID Probability):95.4 MALDI(Z-score):31.394353

Protein

rlmL

PMID:19402753[8]

MALDI(Z-score):20.841640

Protein

acrD

PMID:19402753[8]

LCMS(ID Probability):99.0

Protein

cspE

PMID:19402753[8]

LCMS(ID Probability):97.9 MALDI(Z-score):17.053160

Protein

yfiF

PMID:19402753[8]

LCMS(ID Probability):99.0 MALDI(Z-score):19.466810

Protein

rnr

PMID:19402753[8]

MALDI(Z-score):23.323615

Protein

rluC

PMID:19402753[8]

MALDI(Z-score):26.672161

Protein

deaD

PMID:19402753[8]

MALDI(Z-score):25.179680

Protein

rluB

PMID:19402753[8]

MALDI(Z-score):35.756062

Protein

cspC

PMID:19402753[8]

LCMS(ID Probability):99.6 MALDI(Z-score):17.053160

Protein

dppD

PMID:19402753[8]

LCMS(ID Probability):99.0

Protein

ddpB

PMID:19402753[8]

LCMS(ID Probability):99.0

edit table


Notes

Localization

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

Compartment Description Evidence Reference/Source Notes

Nucleoid

PMID:11520610[9]


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.

Name
Sequence

at EcoCyc 

MEKGTVKWFN NAKGFGFICP EGGGEDIFAH YSTIQMDGYR TLKAGQSVQF DVHQGPKGNH
ASVIVPVEVE AAVA
Length

74

Mol. Wt

7.968 kDa

pI

6.2 (calculated)

Extinction coefficient

8,480 - 8,605 (calc based on 2 Y, 1 W, and 1 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

Domain

1..67

PF00313 'Cold-shock' DNA-binding domain

PMID:19920124[10]

edit table

<motif_map/>

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

Structures

<beststructure> gene=cspD 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

NCBI (Protein) (EcoliWiki Page)

GI:16128848

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945669

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002991

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A968

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11111

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11111

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945669

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001097

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1102

Escherichia coli str. K-12 substr. MG1655

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 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. ↑ Yamanaka, K et al. (2001) CspD, a novel DNA replication inhibitor induced during the stationary phase in Escherichia coli. Mol. Microbiol. 39 1572-84 PubMed
  6. ↑ Yamanaka, K & Inouye, M (1997) Growth-phase-dependent expression of cspD, encoding a member of the CspA family in Escherichia coli. J. Bacteriol. 179 5126-30 PubMed
  7. ↑ 7.00 7.01 7.02 7.03 7.04 7.05 7.06 7.07 7.08 7.09 7.10 7.11 7.12 7.13 7.14 7.15 7.16 7.17 7.18 7.19 7.20 7.21 7.22 7.23 7.24 7.25 7.26 7.27 7.28 7.29 7.30 7.31 7.32 7.33 7.34 7.35 7.36 7.37 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  8. ↑ 8.00 8.01 8.02 8.03 8.04 8.05 8.06 8.07 8.08 8.09 8.10 8.11 8.12 8.13 8.14 8.15 8.16 8.17 8.18 8.19 8.20 8.21 8.22 8.23 8.24 8.25 8.26 8.27 8.28 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  9. ↑ Giangrossi, M et al. (2001) Different in vivo localization of the Escherichia coli proteins CspD and CspA. FEMS Microbiol. Lett. 202 171-6 PubMed
  10. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=cspD:Gene_Product(s)&oldid=1492863"