rpsM:Gene Product(s): Difference between revisions

Standard name	RpsM
Synonyms	30S ribosomal subunit protein S13^[1], B3298^[2]^[1], RpsM^[2]^[1] , ECK3285, JW3260, b3298
Product description	30S ribosomal subunit protein S13^[2]^[3]; Component of 30S ribosomal subunit^[2]^[3]; ribosome^[2]^[3] 30S ribosomal subunit protein S13^[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:0000049	tRNA binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0820	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003676	nucleic acid binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR010979	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003723	RNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001892	F	Seeded from EcoCyc (v14.0)	complete
	GO:0022627	cytosolic small ribosomal subunit	PMID:4587209^[5]	IDA: Inferred from Direct Assay		C		complete
	GO:0003723	RNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018269	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003723	RNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR019980	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:0003735	structural constituent of ribosome	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001892	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003735	structural constituent of ribosome	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018269	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003735	structural constituent of ribosome	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR019980	F	Seeded from EcoCyc (v14.0)	complete
	GO:0006412	translation	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01315	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006412	translation	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001892	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006412	translation	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018269	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006412	translation	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR019980	P	Seeded from EcoCyc (v14.0)	complete
	GO:0019843	rRNA binding	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01315	F	Seeded from EcoCyc (v14.0)	complete
	GO:0019843	rRNA binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0699	F	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	Subunits of 30S ribosomal subunit	could be indirect
Protein	rpsG		PMID:16606699^[6]	Experiment(s):EBI-1145459, EBI-1145603
Protein	ycgE		PMID:16606699^[6]	Experiment(s):EBI-1145459
Protein	rplB		PMID:16606699^[6]	Experiment(s):EBI-1145459
Protein	rpsC		PMID:16606699^[6]	Experiment(s):EBI-1145459
Protein	Subunits of ribosome	could be indirect
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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 MARIAGINIP DHKHAVIALT SIYGVGKTRS KAILAAAGIA EDVKISELSE GQIDTLRDEV AKFVVEGDLR REISMSIKRL MDLGCYRGLR HRRGLPVRGQ RTKTNARTRK GPRKPIKK
Length	118
Mol. Wt	13.099 kDa
pI	11.2 (calculated)
Extinction coefficient	2,980 - 3,105 (calc based on 2 Y, 0 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:P0A7S9
Domain	3..108	PF00416 Ribosomal protein S13/S18		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=rpsM 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:16131177	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947791	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010809	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A7S9	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10912	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10912	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947791	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000903	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0905	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.0 ^1.1 ^1.2 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^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
↑ ^3.0 ^3.1 ^3.2 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ Wittmann-Liebold, B (1973) Studies on the primary structure of 20 proteins from Escherichia coli ribosomes by means of an improved protein sequenator. FEBS Lett. 36 247-9 PubMed
↑ ^6.0 ^6.1 ^6.2 ^6.3 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

rpsM:Gene Product(s): Difference between revisions

Latest revision as of 21:01, 17 February 2015

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

Categories

Navigation menu

@@ Line 44: / Line 44: @@
 !align=left {{table heading style}} |Synonyms
 ||
-S ribosomal subunit protein S13<ref name='LIB:Riley_2006'/>, B3298<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RpsM<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>
+''30S ribosomal subunit protein S13<ref name='LIB:Riley_2006'/>, B3298<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RpsM<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK3285, JW3260, b3298''
 |-
 !align=left {{table heading style}} |Product description
@@ Line 77: / Line 77: @@
 *
 ****************************************************************************************** -->{{Product_GO_help}}
-{|   id="C46aadeb9bce0b"  class=" tableEdit GO_table_product dataTable"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="C46aadeb9bce0b"  class=" tableEdit GO_table_product dataTable"
 |- {{table_heading_style}}
-!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
+!|Qualifier!!GO ID!!GO term name!!Reference!!Evidence Code!!with/from!!Aspect!!Notes!!Status
-|-
-|
-|
-GO:0022627
-|
-cytosolic small ribosomal subunit
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-PMID:4587209
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-IDA: Inferred from Direct Assay
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-C
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+complete
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+complete
+|-
+|
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+GO:0022627
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+cytosolic small ribosomal subunit
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+PMID:4587209
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+IDA: Inferred from Direct Assay
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+C
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+complete
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+complete
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+complete
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+complete
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+complete
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+complete
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+complete
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+complete
 |- class="tableEdit_footer"
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 *
 ****************************************************************************************** -->{{Product_interactions_help}}
-{|   id="A46aadecd64569"  class=" tableEdit Product_interactions_table dataTable"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="A46aadecd64569"  class=" tableEdit Product_interactions_table dataTable"
 |- {{table heading style}}
 !|Partner Type!!Partner!!Notes!!References!!Evidence
@@ Line 485: / Line 485: @@
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 ****************************************************************************************** -->{{Product_localization_help}}
-{|   id="Q46a8708162fb5"  class=" tableEdit Product_localization_table"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Q46a8708162fb5"  class=" tableEdit Product_localization_table"
 |- {{table heading style}}
-!|Compartment!!Description!!Evidence!!Source!!Notes
+!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
 |- class="tableEdit_footer"
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 ****************************************************************************************** -->{{Product_physical_properties_help}}
 {|   id="Z46aaded08ee66"  class=" tableEdit Product_phys_prop_table"
+|-
+!align=left {{table heading style}} |Name
+||
 |-
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 !align=left {{table heading style}} |Extinction coefficient
 ||
-,980 - 3,105 (calc based on 2 Y,  W, and 1 C residues)
+,980 - 3,105 (calc based on 2 Y, 0 W, and 1 C residues)
 |- class="tableEdit_footer"
@@ Line 550: / Line 554: @@
 *
 ****************************************************************************************** -->{{Product_domains_motifs_help}}
-{|   id="F46aaded10e314"  class=" tableEdit Product_motif_table dataTable"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="F46aaded10e314"  class=" tableEdit Product_motif_table dataTable"
 |- {{table heading style}}
 !|Type!!Residues!!Description!!Notes!!References
@@ Line 564: / Line 568: @@
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+|-
+|
+Domain
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+..108
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+[http://pfam.janelia.org/family/PF00416 PF00416  Ribosomal protein S13/S18]
+|
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+PMID:19920124
 |- class="tableEdit_footer"
@@ Line 599: / Line 614: @@
 ||
 View models at:
-* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
+* [http://www.proteinmodelportal.org/query/uniprot/P0A7S9 Protein Model Portal]
-* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=recA&organism=562&organismtext= ModBase]
+* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P0A7S9 PSI-PRED (P0A7S9)]
-* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
+* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P0A7S9 Genomes TO Protein (P0A7S9)] (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="tableEdit_footer"
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 ****************************************************************************************** -->{{Product_resources_help}}
-{|   id="C46aaded1d38c3"  class=" tableEdit Product_resource_table"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="C46aaded1d38c3"  class=" tableEdit Product_resource_table"
 |- {{table_heading_style}}
 !|Resource type!!Source!!Notes/Reference
@@ Line 666: / Line 679: @@
 *
 ****************************************************************************************** -->{{Gene_accessions_help}}
-{|   id="C46aaded2416c8"  class=" tableEdit Gene_accessions_table"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="C46aaded2416c8"  class=" tableEdit Gene_accessions_table"
 |- {{table_heading_style}}
 !|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/16131177 GI:16131177]
+|
+Escherichia coli str. K-12 substr. MG1655
+|-
 |
-[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10912-MONOMER EcoCyc:EG10912-MONOMER]
+[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
 |
+[http://www.ncbi.nlm.nih.gov/protein/NP_417757.1 GeneID:947791]
+|
+Escherichia coli str. K-12 substr. MG1655
+|-
+|
+[[ASAP]]
+|
+ASAP:ABE-0010809
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
+|
+[http://www.uniprot.org/uniprot/P0A7S9 UniProtKB/Swiss-Prot:P0A7S9]
+|
+Escherichia coli str. K-12 substr. MG1655
+|-
+|
+[[EcoCyc]]
+|
+EcoCyc:EG10912
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
+|-
+|
+[[EcoGene]]
+|
+EcoGene:EG10912
+|
+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 |-
 |
-[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
+[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
 |
-[[uniprot:P0A7S9|UniProt:P0A7S9]]
+[http://www.ncbi.nlm.nih.gov/gene?term=947791 GeneID:947791]
 |
+Escherichia coli str. K-12 substr. MG1655
 |-
 |
-[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
+[[RegulonDB]]
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-[http://pfam.sanger.ac.uk/family?acc=PF00416 PFAM:PF00416]
+RegulonDB:ECK120000903
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+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 |-
 |
-[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
+[[EchoBASE]]
 |
-[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_417757 RefSeq:NP_417757]
+EchoBASE:EB0905
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+''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
 |- class="tableEdit_footer"
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 *
 ****************************************************************************************** -->
-{|   id="Y46a87085bc188"  class=" tableEdit Links_table"
+{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Y46a87085bc188"  class=" tableEdit Links_table"
 |- {{table_heading_style}}
 !|Name!!URL!!Comments
@@ Line 737: / Line 785: @@
 {{BacktoTop}}
 [[Category:Proteins]]
-[[Category:GO:0009281_!_cytosolic ribosome (sensu Bacteria)]][[Category:GO:0006412_!_translation]][[Category:GO:0003735_!_structural constituent of ribosome]][[Category:GO:0005737_!_cytoplasm]][[Category:Complex:30S ribosomal subunit]][[Category:Complex:ribosome]]

rpsM:Gene Product(s): Difference between revisions

Latest revision as of 21:01, 17 February 2015

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

Categories

Navigation menu

Search