Reviewed, UniProtKB/Swiss-Prot P0A7V3 (RS3_ECOLI)

Names and origin

Protein names

Recommended name:
    30S ribosomal protein S3

Gene names

Name:	rpsC
Ordered Locus Names:	b3314, JW3276

Organism

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

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia

Protein attributes

Sequence length	233 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation By similarity. Plays a role in mRNA unwinding by the ribosome, possibly by forming part of a processivity clamp. Ref.7
Subunit structure	Part of the 30S ribosomal subunit. Forms a tight complex with proteins S10 and S14 By similarity. With proteins S4 and S5 encircles the mRNA as it enters the ribosome, which may play a role in mRNA helicase processivity. Some nascent polypeptide chains are able to cross-link to this protein in situ.
Sequence similarities	Belongs to the ribosomal protein S3P family. Contains 1 KH type-2 domain.
Mass spectrometry	Molecular mass is 25851.9 Da from positions 2 - 233. Determined by MALDI. Ref.8

Ontologies

Keywords
Ligand	RNA-binding rRNA-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	small ribosomal subunit Inferred from electronic annotation. Source: InterPro
Molecular function	protein binding Inferred from physical interaction. Source: IntAct rRNA binding Inferred from electronic annotation. Source: UniProtKB-KW structural constituent of ribosome Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
iclR	P16528	1	EBI-544851,EBI-552904

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Initiator methionine

1

1

Removed Ref.4

Chain

2 – 233

232

30S ribosomal protein S3 HAMAP MF_01309

PRO_0000130113

Regions

Domain

39 – 107

69

KH type-2

Experimental info

Mutagenesis

131 – 135

5

RRAMK → AAAMA: Decreases mRNA unwinding ability of the ribosome. HAMAP MF_01309

Secondary structure

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233

Helix Strand Turn

Details...

Helix

9 – 11

3

Beta strand

12 – 15

4

Helix

26 – 45

20

Turn

46 – 51

6

Beta strand

52 – 56

5

Beta strand

59 – 62

4

Beta strand

67 – 71

5

Helix

74 – 76

3

Beta strand

79 – 81

3

Helix

82 – 90

9

Turn

91 – 95

5

Beta strand

102 – 105

4

Helix

113 – 124

12

Turn

125 – 127

3

Helix

130 – 139

10

Helix

140 – 142

3

Helix

178 – 180

3

Beta strand

183 – 187

5

Beta strand

192 – 195

4

Beta strand

198 – 202

5

Sequences

	Sequence		Length	Mass (Da)
	P0A7V3-1 [UniParc]. Last modified January 23, 2007. Version 2. Checksum: 6D0131A285B7AAB3	FASTA	233	25,983
	10 20 30 40 50 60 MGQKVHPNGI RLGIVKPWNS TWFANTKEFA DNLDSDFKVR QYLTKELAKA SVSRIVIERP 70 80 90 100 110 120 AKSIRVTIHT ARPGIVIGKK GEDVEKLRKV VADIAGVPAQ INIAEVRKPE LDAKLVADSI 130 140 150 160 170 180 TSQLERRVMF RRAMKRAVQN AMRLGAKGIK VEVSGRLGGA EIARTEWYRE GRVPLHTLRA 190 200 210 220 230 DIDYNTSEAH TTYGVIGVKV WIFKGEILGG MAAVEQPEKP AAQPKKQQRK GRK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Structure of the Escherichia coli S10 ribosomal protein operon." Zurawski G., Zurawski S.M. Nucleic Acids Res. 13:4521-4526(1985) [PubMed: 3892488] [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 S3 from the small ribosomal subunit of Escherichia coli." Brauer D., Roming R. FEBS Lett. 106:352-357(1979) [PubMed: 387449] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-233. 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 39-49 AND 87-108, CROSS-LINKING TO RRNA. Strain: MRE-600.
[6]	"Flexibility of the nascent polypeptide chain within the ribosome --contacts from the peptide N-terminus to a specific region of the 30S subunit." Choi K.M., Atkins J.F., Gesteland R.F., Brimacombe R. Eur. J. Biochem. 255:409-413(1998) [PubMed: 9716382] [Abstract] Cited for: CROSS-LINKING TO NASCENT POLYPEPTIDE CHAINS.
[7]	"mRNA helicase activity of the ribosome." Takyar S., Hickerson R.P., Noller H.F. Cell 120:49-58(2005) [PubMed: 15652481] [Abstract] Cited for: ROLE IN MRNA HELICASE ACTIVITY, MUTAGENESIS. Strain: MRE-600.
[8]	"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.
[9]	"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.
[10]	"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.
[11]	"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.

Cross-references

Sequence databases

EMBLGenBankDDBJ

X02613 Genomic DNA. Translation: CAA26466.1.
U18997 Genomic DNA. Translation: AAA58111.1.
U00096 Genomic DNA. Translation: AAC76339.1.
AP009048 Genomic DNA. Translation: BAE77977.1.

PIR

R3EC3. H23129.

RefSeq

AP_004476.1.
NP_417773.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1M5G	model	-	C	2-207	[»]
1P6G	electron microscopy	12.30	C	2-233	[»]
1P87	electron microscopy	11.50	C	2-233	[»]
1VS5	X-ray	3.46	C	1-233	[»]
1VS7	X-ray	3.46	C	1-233	[»]
2AVY	X-ray	3.46	C	2-233	[»]
2AW7	X-ray	3.46	C	2-233	[»]
2GY9	electron microscopy	-	C	2-206	[»]
2GYB	electron microscopy	-	C	2-206	[»]
2I2P	X-ray	3.22	C	2-232	[»]
2I2U	X-ray	3.22	C	2-232	[»]
2QAL	X-ray	3.21	C	2-233	[»]
2QAN	X-ray	3.21	C	2-233	[»]
2QB9	X-ray	3.54	C	2-233	[»]
2QBB	X-ray	3.54	C	2-233	[»]
2QBD	X-ray	3.30	C	2-233	[»]
2QBF	X-ray	3.30	C	2-233	[»]
2QBH	X-ray	4.00	C	2-233	[»]
2QBJ	X-ray	4.00	C	2-233	[»]
2QOU	X-ray	3.93	C	2-233	[»]
2QOW	X-ray	3.93	C	2-233	[»]
2QOY	X-ray	3.50	C	2-233	[»]
2QP0	X-ray	3.50	C	2-233	[»]
2VHO	X-ray	3.74	C	2-233	[»]
2VHP	X-ray	3.74	C	2-233	[»]
2Z4K	X-ray	4.45	C	2-233	[»]
2Z4M	X-ray	4.45	C	2-233	[»]
3DF1	X-ray	3.50	C	2-232	[»]
3DF3	X-ray	3.50	C	2-232	[»]
3FIH	electron microscopy	-	C	2-207	[»]

ModBase

Search...

Protein-protein interaction databases

IntAct

P0A7V3. 184 interactions.

Genome annotation databases

GeneID

947814.

GenomeReviews

Gene locus JW3276 in contig AP009048_GR.
Gene locus b3314 in contig U00096_GR.

KEGG

ecj:JW3276.
eco:b3314.

Organism-specific databases

EchoBASE

EB0895.

EcoGene

EG10902. rpsC.

CMR

Search...

Phylogenomic databases

HOGENOM

P0A7V3.

OMA

P0A7V3. KPEIDAT.

Enzyme and pathway databases

BioCyc

EcoCyc:EG10902-MON.

Family and domain databases

HAMAP

MF_01309.
[Tree]

InterPro

IPR004087. KH.
IPR015946. KH-like_a/b.
IPR004044. KH_type_2.
IPR005704. Ribosomal_S3_bac.
IPR001351. Ribosomal_S3_C.
IPR018280. Ribosomal_S3_CS.
IPR008282. Ribosomal_S3_N.
[Graphical view]

Gene3D

G3DSA:3.30.300.20. KH_prok. 1 hit.
G3DSA:3.30.1140.32. Ribosomal_S3_C. 1 hit.

Pfam

PF07650. KH_2. 1 hit.
PF00189. Ribosomal_S3_C. 1 hit.
PF00417. Ribosomal_S3_N. 1 hit.
[Graphical view]

SMART

SM00322. KH. 1 hit.
[Graphical view]

TIGRFAMs

TIGR01009. rpsC_bact. 1 hit.

PROSITE

PS50823. KH_TYPE_2. 1 hit.
PS00548. RIBOSOMAL_S3. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

RS3_ECOLI

Accession

Primary (citable) accession number: P0A7V3
Secondary accession number(s): P02352, Q2M6X9

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 21, 1986
Last sequence update:	January 23, 2007
Last modified:	June 16, 2009
This is version 53 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)