rpsD:Gene Product(s)

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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

RpsD

Synonyms

30S ribosomal subunit protein S4[1], B3296[2][1], RamA[2][1], RpsD[2][1] , ECK3283, JW3258, ramA, sud, b3296

Product description

30S ribosomal subunit protein S4[2][3];

Component of 30S ribosomal subunit[2][3]; ribosome[2][3]

30S ribosomal subunit protein S4; NusA-like antitermination factor[4]

EC number (for enzymes)


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Notes

Function

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<protect> 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:0003735

structural constituent of ribosome

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005709

F

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc (v14.0)

complete

GO:0006353

transcription termination

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0806

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01306

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005709

P

Seeded from EcoCyc (v14.0)

complete

GO:0022626

cytosolic ribosome

C

Missing: evidence, reference

GO:0006417

regulation of translation

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0810

P

Seeded from EcoCyc (v14.0)

complete

GO:0019843

rRNA binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01306

F

Seeded from EcoCyc (v14.0)

complete

GO:0019843

rRNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001912

F

Seeded from EcoCyc (v14.0)

complete

GO:0019843

rRNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018079

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

GO:0046677

response to antibiotic

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0046

P

Seeded from EcoCyc (v14.0)

complete

GO:0019843

rRNA binding

PMID:4912319[5]

IDA: Inferred from Direct Assay

F

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

ybeA

PMID:16606699[6]

Experiment(s):EBI-1145434

Protein

nusG

PMID:16606699[6]

Experiment(s):EBI-1145434

Protein

ydfK

PMID:16606699[6]

Experiment(s):EBI-1145434

Protein

rpsM

PMID:16606699[6]

Experiment(s):EBI-1145434, EBI-1145459

Protein

rpsC

PMID:16606699[6]

Experiment(s):EBI-1145434

Protein

rplB

PMID:16606699[6]

Experiment(s):EBI-1145434, EBI-1145434, EBI-1145550

Protein

rpsG

PMID:16606699[6]

Experiment(s):EBI-1145434, EBI-1145434, EBI-1145603

Protein

yghW

PMID:16606699[6]

Experiment(s):EBI-1145434

Protein

ynaE

PMID:16606699[6]

Experiment(s):EBI-1145434

Protein

sxy

PMID:16606699[6]

Experiment(s):EBI-1145434

Protein

rpsE

PMID:16606699[6]

Experiment(s):EBI-1145434, EBI-1145472

Protein

rplA

PMID:16606699[6]

Experiment(s):EBI-1145434

Protein

cybC

PMID:16606699[6]

Experiment(s):EBI-1145434

Protein

yafO

PMID:16606699[6]

Experiment(s):EBI-1145434

Protein

rpsD

PMID:16606699[6]

Experiment(s):EBI-1145434

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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<protect> 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 

MARYLGPKLK LSRREGTDLF LKSGVRAIDT KCKIEQAPGQ HGARKPRLSD YGVQLREKQK
VRRIYGVLER QFRNYYKEAA RLKGNTGENL LALLEGRLDN VVYRMGFGAT RAEARQLVSH
KAIMVNGRVV NIASYQVSPN DVVSIREKAK KQSRVKAALE LAEQREKPTW LEVDAGKMEG
TFKRKPERSD LSADINEHLI VELYSK
Length

206

Mol. Wt

23.469 kDa

pI

10.4 (calculated)

Extinction coefficient

17,420 - 17,545 (calc based on 8 Y, 1 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:P0A7V8

Domain

96..143

PF01479 S4 domain

PMID:19920124[7]

Domain

2..95

PF00163 Ribosomal protein S4/S9 N-terminal domain

PMID:19920124[7]

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

Structures

<beststructure> gene=rpsD taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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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:16131175

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947793

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010805

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A7V8

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10903

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10903

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947793

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000894

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0896

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 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 2.5 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 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. ↑ Mizushima, S & Nomura, M (1970) Assembly mapping of 30S ribosomal proteins from E. coli. Nature 226 1214 PubMed
  6. ↑ 6.00 6.01 6.02 6.03 6.04 6.05 6.06 6.07 6.08 6.09 6.10 6.11 6.12 6.13 6.14 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ 7.0 7.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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