30S ribosomal protein S9 - Escherichia coli (strain K12)

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Reviewed, UniProtKB/Swiss-Prot P0A7X3 (RS9_ECOLI)

Last modified June 16, 2009. Version 49. History...

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Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Binary interactions · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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Names and origin

Protein names

Recommended name:
30S ribosomal protein S9

Gene names

Name:	rpsI
Ordered Locus Names:	b3230, JW3199

Organism

Escherichia coli (strain K12) [Complete proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia

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Protein attributes

Sequence length	130 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

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General annotation (Comments)

Function	The C-terminal tail plays a role in the affinity of the 30S P site for different tRNAs. Mutations that decrease this affinity are suppressed in the 70S ribosome. Ref.8
Subunit structure	Part of the 30S ribosomal subunit. Cross-links to the P site tRNA and weakly to the A site tRNA. HAMAP MF_00532
Sequence similarities	Belongs to the ribosomal protein S9P family.
Mass spectrometry	Molecular mass is 14723.3 Da from positions 2 - 130. Determined by MALDI. Ref.9

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Ontologies

Keywords
Ligand	RNA-binding tRNA-binding
Molecular function	Ribonucleoprotein Ribosomal protein
Technical term	3D-structure Complete proteome Direct protein sequencing
Gene Ontology (GO)
Biological process	translation Inferred from electronic annotation. Source: HAMAP
Cellular component	ribosome Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	protein binding Inferred from physical interaction. Source: IntAct structural constituent of ribosome Inferred from electronic annotation. Source: InterPro tRNA binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

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Binary interactions

With	Entry	#Exp.	IntAct	Notes
frvA	P32155	1	EBI-546072,EBI-1133990

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Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Initiator methionine

Removed Ref.4

Chain

2 – 130

129

30S ribosomal protein S9 HAMAP MF_00532

PRO_0000111354

Experimental info

Mutagenesis

105 – 130

Missing: Cold sensitive for growth at 30 degrees Celsius. 350-fold reduced affinity of the 30S subunit P site for certain tRNAs in vitro. HAMAP MF_00532

Mutagenesis

128 – 130

Missing: Very cold sensitive for growth at 30 degrees Celsius. Almost no P site binding of certain tRNAs in vitro. HAMAP MF_00532

Sequence conflict

D → N AA sequence Ref.4

Sequence conflict

124

Missing AA sequence Ref.4

Sequence conflict

126

Q → E AA sequence Ref.4

Secondary structure

130

Helix Strand Turn

Details...

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Sequences

Sequence

Length

Mass (Da)

Tools

P0A7X3-1 [UniParc].

Last modified January 23, 2007. Version 2.
Checksum: 757D599168812806
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FASTA

130

14,856

        10         20         30         40         50         60 
MAENQYYGTG RRKSSAARVF IKPGNGKIVI NQRSLEQYFG RETARMVVRQ PLELVDMVEK 

        70         80         90        100        110        120 
LDLYITVKGG GISGQAGAIR HGITRALMEY DESLRSELRK AGFVTRDARQ VERKKVGLRK 

       130 
ARRRPQFSKR

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References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Cloning and nucleotide sequencing of the genes for ribosomal proteins S9 (rpsI) and L13 (rplM) of Escherichia coli." Isono S., Thamm S., Kitakawa M., Isono K. Mol. Gen. Genet. 198:279-282(1985) [PubMed: 3884974] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed: 9278503] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[3]	"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T. Mol. Syst. Biol. 2:E1-E5(2006) [PubMed: 16738553] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[4]	"The primary structure of protein S9 from the 30S subunit of Escherichia coli ribosomes." Chen R., Wittmann-Liebold B. FEBS Lett. 52:139-140(1975) [PubMed: 1091515] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-130. Strain: K.
[5]	"Protein-rRNA binding features and their structural and functional implications in ribosomes as determined by cross-linking studies." Urlaub H., Kruft V., Bischof O., Mueller E.-C., Wittmann-Liebold B. EMBO J. 14:4578-4588(1995) [PubMed: 7556101] [Abstract] Cited for: PROTEIN SEQUENCE OF 121-130, CROSS-LINKING TO RRNA. Strain: MRE-600.
[6]	"Requirement of proteins S5 and S9 from 30S subunits for the ribosome-dependent GTPase activity of elongation factor G." Marsh R.C., Parmeggiani A. Proc. Natl. Acad. Sci. U.S.A. 70:151-155(1973) [PubMed: 4346030] [Abstract] Cited for: INVOLVEMENT IN FORMATION OF THE EF-G/RIBOSOME COMPLEX. Strain: B/2.
[7]	"The ribosomal neighbourhood of the central fold of tRNA: cross-links from position 47 of tRNA located at the A, P or E site." Osswald M., Doering T., Brimacombe R. Nucleic Acids Res. 23:4635-4641(1995) [PubMed: 8524654] [Abstract] Cited for: CROSS-LINKING TO THE TRNA CENTRAL FOLD. Strain: MRE-600.
[8]	"Creating ribosomes with an all-RNA 30S subunit P site." Hoang L., Fredrick K., Noller H.F. Proc. Natl. Acad. Sci. U.S.A. 101:12439-12443(2004) [PubMed: 15308780] [Abstract] Cited for: ROLE IN P SITE TRNA BINDING, MUTAGENESIS. Strain: CSH142.
[9]	"Observation of Escherichia coli ribosomal proteins and their posttranslational modifications by mass spectrometry." Arnold R.J., Reilly J.P. Anal. Biochem. 269:105-112(1999) [PubMed: 10094780] [Abstract] Cited for: MASS SPECTROMETRY. Strain: K12 / ATCC 25404 / DSM 5698 / NCIMB 11290.
[10]	"All-atom homology model of the Escherichia coli 30S ribosomal subunit." Tung C.-S., Joseph S., Sanbonmatsu K.Y. Nat. Struct. Biol. 9:750-755(2002) [PubMed: 12244297] [Abstract] Cited for: 3D-STRUCTURE MODELING.
[11]	"Study of the structural dynamics of the E. coli 70S ribosome using real-space refinement." Gao H., Sengupta J., Valle M., Korostelev A., Eswar N., Stagg S.M., Van Roey P., Agrawal R.K., Harvey S.C., Sali A., Chapman M.S., Frank J. Cell 113:789-801(2003) [PubMed: 12809609] [Abstract] Cited for: STRUCTURE BY ELECTRON MICROSCOPY (11.50 ANGSTROMS). Strain: MRE-600.
[12]	"Structures of the bacterial ribosome at 3.5 A resolution." Schuwirth B.S., Borovinskaya M.A., Hau C.W., Zhang W., Vila-Sanjurjo A., Holton J.M., Cate J.H.D. Science 310:827-834(2005) [PubMed: 16272117] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (3.46 ANGSTROMS) OF 2 DIFFERENT RIBOSOME STRUCTURES. Strain: MRE-600.
+	Additional computationally mapped references.

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Cross-references

Sequence databases

X02130 Genomic DNA. Translation: CAA26042.1.
U18997 Genomic DNA. Translation: AAA58032.1.
U00096 Genomic DNA. Translation: AAC76262.1.
AP009048 Genomic DNA. Translation: BAE77273.1.

PIR

R3EC9. H65114.

RefSeq

AP_003772.1.
NP_417697.1.

3D structure databases

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1M5G	model	-	I	4-130	[»]
1P6G	electron microscopy	12.30	I	2-130	[»]
1P87	electron microscopy	11.50	I	2-130	[»]
1VS5	X-ray	3.46	I	1-130	[»]
1VS7	X-ray	3.46	I	1-130	[»]
2AVY	X-ray	3.46	I	2-130	[»]
2AW7	X-ray	3.46	I	2-130	[»]
2GY9	electron microscopy	-	I	5-129	[»]
2GYB	electron microscopy	-	I	5-129	[»]
2I2P	X-ray	3.22	I	2-129	[»]
2I2U	X-ray	3.22	I	2-129	[»]
2QAL	X-ray	3.21	I	2-130	[»]
2QAN	X-ray	3.21	I	2-130	[»]
2QB9	X-ray	3.54	I	2-130	[»]
2QBB	X-ray	3.54	I	2-130	[»]
2QBD	X-ray	3.30	I	2-130	[»]
2QBF	X-ray	3.30	I	2-130	[»]
2QBH	X-ray	4.00	I	2-130	[»]
2QBJ	X-ray	4.00	I	2-130	[»]
2QOU	X-ray	3.93	I	2-130	[»]
2QOW	X-ray	3.93	I	2-130	[»]
2QOY	X-ray	3.50	I	2-130	[»]
2QP0	X-ray	3.50	I	2-130	[»]
2VHO	X-ray	3.74	I	2-130	[»]
2VHP	X-ray	3.74	I	2-130	[»]
2Z4K	X-ray	4.45	I	2-130	[»]
2Z4M	X-ray	4.45	I	2-130	[»]
3DF1	X-ray	3.50	I	2-129	[»]
3DF3	X-ray	3.50	I	2-129	[»]
3FIH	electron microscopy	-	I	4-130	[»]

ModBase

Search...

Protein-protein interaction databases

IntAct

P0A7X3. 147 interactions.

2-D gel databases

ECO2DBASE

I014.6. 6TH EDITION.

Genome annotation databases

GeneID

949000.

GenomeReviews

Gene locus JW3199 in contig AP009048_GR.
Gene locus b3230 in contig U00096_GR.

KEGG

ecj:JW3199.
eco:b3230.

Organism-specific databases

EchoBASE

EB0901.

EcoGene

EG10908. rpsI.

CMR

Search...

Phylogenomic databases

HOGENOM

P0A7X3.

OMA

P0A7X3. VYFARPV.

Enzyme and pathway databases

BioCyc

EcoCyc:EG10908-MON.

Family and domain databases

HAMAP

MF_00532.
[Tree]

InterPro

IPR014721. Ribosomal_S5_D2-type_fold.
IPR000754. Ribosomal_S9.
[Graphical view]

Gene3D

G3DSA:3.30.230.10. Ribosomal_S5_D2-type_fold. 1 hit.

PANTHER

PTHR21569. Ribosomal_S9. 1 hit.

Pfam

PF00380. Ribosomal_S9. 1 hit.
[Graphical view]

ProDom

PD001627. Ribosomal_S9. 1 hit.
[Graphical view] [Entries sharing at least one domain]

PROSITE

PS00360. RIBOSOMAL_S9. 1 hit.
[Graphical view]

ProtoNet

Search...

Other Resources

DrugBank

DB00453. Clomocycline.
DB00618. Demeclocycline.
DB00254. Doxycycline.
DB00256. Lymecycline.
DB01017. Minocycline.
DB00595. Oxytetracycline.
DB00759. Tetracycline.
DB00560. Tigecycline.

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Entry information

Entry name

RS9_ECOLI

Accession

Primary (citable) accession number: P0A7X3
Secondary accession number(s): P02363, Q2M8Y3

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 21, 1986
Last sequence update:	January 23, 2007
Last modified:	June 16, 2009
This is version 49 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)

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Relevant documents

Escherichia coli

Escherichia coli (strain K12): entries and cross-references to EcoGene

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

Ribosomal proteins

Ribosomal proteins families and list of entries

SIMILARITY comments

Index of protein domains and families

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Experimental info

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

2-D gel databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Family and domain databases

Other Resources

Entry information

Relevant documents