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Protein

30S ribosomal protein S4

Gene

rpsD

Organism
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it helps nucleate assembly of the body and platform of the 30S subunit. Binds mRNA in the 70S ribosome, positioning it for translation.1 Publication

Cofactori

Zn2+1 Publication, [4Fe-4S] cluster2 PublicationsNote: Binds 1 zinc ion per subunit (PubMed:11866529). In a number of structures (e.g. 4Y4O, 5FDV) a 4Fe-4S cluster is seen in place of the zinc cofactor (PubMed:25775268, PubMed:26792896).3 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi9Zinc1 Publication1
Metal bindingi12Zinc1 Publication1
Metal bindingi26Zinc1 Publication1
Metal bindingi31Zinc1 Publication1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionRibonucleoprotein, Ribosomal protein, RNA-binding, rRNA-binding
LigandMetal-binding, Zinc

Enzyme and pathway databases

BioCyciTTHE300852:G1GKC-1671-MONOMER

Names & Taxonomyi

Protein namesi
Recommended name:
30S ribosomal protein S4
Gene namesi
Name:rpsD
Synonyms:rps4
Ordered Locus Names:TTHA1665
OrganismiThermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
Taxonomic identifieri300852 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus
Proteomesi
  • UP000000532 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Pathology & Biotechi

Chemistry databases

DrugBankiDB08185 2-METHYLTHIO-N6-ISOPENTENYL-ADENOSINE-5'-MONOPHOSPHATE

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00001324832 – 20930S ribosomal protein S4Add BLAST208

Proteomic databases

PRIDEiP80373

Interactioni

Subunit structurei

Part of the 30S ribosomal subunit (PubMed:11014182, PubMed:11007480, PubMed:11163189, PubMed:11014183, PubMed:11511350, PubMed:11296217, PubMed:11228145, PubMed:11228145, PubMed:11283358, PubMed:11340196, PubMed:11866529, PubMed:25775268, PubMed:26792896). Contacts protein S5 (PubMed:11340196). The interaction surface between S4 and S5 is involved in control of translational fidelity.12 Publications

Protein-protein interaction databases

STRINGi300852.TTHA1665

Structurei

Secondary structure

1209
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliP80373
SMRiP80373
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP80373

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini99 – 161S4 RNA-bindingAdd BLAST63

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4105G6W Bacteria
COG0522 LUCA
HOGENOMiHOG000221004
KOiK02986
OMAiNVVFRMG
PhylomeDBiP80373

Family and domain databases

CDDicd00165 S4, 1 hit
Gene3Di3.10.290.10, 1 hit
HAMAPiMF_01306_B Ribosomal_S4_B, 1 hit
InterProiView protein in InterPro
IPR022801 Ribosomal_S4/S9
IPR001912 Ribosomal_S4/S9_N
IPR005709 Ribosomal_S4_bac-type
IPR018079 Ribosomal_S4_CS
IPR002942 S4_RNA-bd
IPR036986 S4_RNA-bd_sf
PANTHERiPTHR11831 PTHR11831, 1 hit
PTHR11831:SF4 PTHR11831:SF4, 1 hit
PfamiView protein in Pfam
PF00163 Ribosomal_S4, 1 hit
PF01479 S4, 1 hit
SMARTiView protein in SMART
SM01390 Ribosomal_S4, 1 hit
SM00363 S4, 1 hit
TIGRFAMsiTIGR01017 rpsD_bact, 1 hit
PROSITEiView protein in PROSITE
PS00632 RIBOSOMAL_S4, 1 hit
PS50889 S4, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P80373-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MGRYIGPVCR LCRREGVKLY LKGERCYSPK CAMERRPYPP GQHGQKRARR
60 70 80 90 100
PSDYAVRLRE KQKLRRIYGI SERQFRNLFE EASKKKGVTG SVFLGLLESR
110 120 130 140 150
LDNVVYRLGF AVSRRQARQL VRHGHITVNG RRVDLPSYRV RPGDEIAVAE
160 170 180 190 200
KSRNLELIRQ NLEAMKGRKV GPWLSLDVEG MKGKFLRLPD REDLALPVNE

QLVIEFYSR
Length:209
Mass (Da):24,324
Last modified:January 23, 2007 - v3
Checksum:i0FF3911816971236
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti12C → S AA sequence (PubMed:7957245).Curated1
Sequence conflicti26C → D AA sequence (PubMed:7957245).Curated1

Mass spectrometryi

Molecular mass is 24192 Da from positions 2 - 209. Determined by MALDI. 1 Publication

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB024328 Genomic DNA Translation: BAA75548.1
AP008226 Genomic DNA Translation: BAD71488.1
RefSeqiWP_011173699.1, NC_006461.1
YP_144931.1, NC_006461.1

Genome annotation databases

EnsemblBacteriaiBAD71488; BAD71488; BAD71488
GeneIDi3168006
KEGGittj:TTHA1665
PATRICifig|300852.9.peg.1635

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB024328 Genomic DNA Translation: BAA75548.1
AP008226 Genomic DNA Translation: BAD71488.1
RefSeqiWP_011173699.1, NC_006461.1
YP_144931.1, NC_006461.1

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1FJGX-ray3.00D1-209[»]
1FKAX-ray3.30D1-209[»]
1HNWX-ray3.40D1-209[»]
1HNXX-ray3.40D1-209[»]
1HNZX-ray3.30D1-209[»]
1HR0X-ray3.20D1-209[»]
1I94X-ray3.20D2-209[»]
1I95X-ray4.50D2-209[»]
1I96X-ray4.20D2-209[»]
1I97X-ray4.50D2-209[»]
1IBKX-ray3.31D1-209[»]
1IBLX-ray3.11D1-209[»]
1IBMX-ray3.31D1-209[»]
1J5EX-ray3.05D2-209[»]
1JGOX-ray5.60G1-209[»]
1JGPX-ray7.00G1-209[»]
1JGQX-ray5.00G1-209[»]
1L1Umodel-D1-209[»]
1ML5electron microscopy14.00G1-209[»]
1N32X-ray3.00D2-209[»]
1N33X-ray3.35D2-209[»]
1N34X-ray3.80D2-209[»]
1N36X-ray3.65D2-209[»]
1QD7X-ray5.50C60-155[»]
1TWTmodel-G2-209[»]
1VVJX-ray3.44QD/XD1-209[»]
1VY4X-ray2.60AD/CD1-209[»]
1VY5X-ray2.55AD/CD1-209[»]
1VY6X-ray2.90AD/CD1-209[»]
1VY7X-ray2.80AD/CD1-209[»]
1XMOX-ray3.25D1-209[»]
1XMQX-ray3.00D1-209[»]
1XNQX-ray3.05D1-209[»]
1XNRX-ray3.10D1-209[»]
2E5LX-ray3.30D2-209[»]
2F4VX-ray3.80D1-209[»]
2HHHX-ray3.35D1-209[»]
2UU9X-ray3.10D2-209[»]
2UUAX-ray2.90D2-209[»]
2UUBX-ray2.80D2-209[»]
2UUCX-ray3.10D2-209[»]
2UXBX-ray3.10D2-209[»]
2UXCX-ray2.90D2-209[»]
2UXDX-ray3.20D2-209[»]
2VQEX-ray2.50D1-209[»]
2VQFX-ray2.90D1-209[»]
2ZM6X-ray3.30D2-209[»]
3OTOX-ray3.69D1-209[»]
3T1HX-ray3.11D1-209[»]
3T1YX-ray2.80D1-209[»]
4AQYX-ray3.50D2-209[»]
4B3MX-ray2.90D2-209[»]
4B3RX-ray3.00D2-209[»]
4B3SX-ray3.15D2-209[»]
4B3TX-ray3.00D2-209[»]
4DR1X-ray3.60D1-209[»]
4DR2X-ray3.25D1-209[»]
4DR3X-ray3.35D1-209[»]
4DR4X-ray3.97D1-209[»]
4DR5X-ray3.45D1-209[»]
4DR6X-ray3.30D1-209[»]
4DR7X-ray3.75D1-209[»]
4DUYX-ray3.39D1-209[»]
4DUZX-ray3.65D1-209[»]
4DV0X-ray3.85D1-209[»]
4DV1X-ray3.85D1-209[»]
4DV2X-ray3.65D1-209[»]
4DV3X-ray3.55D1-209[»]
4DV4X-ray3.65D1-209[»]
4DV5X-ray3.68D1-209[»]
4DV6X-ray3.30D1-209[»]
4DV7X-ray3.29D1-209[»]
4GKJX-ray3.30D2-209[»]
4GKKX-ray3.20D2-209[»]
4JI0X-ray3.49D1-209[»]
4JI1X-ray3.14D1-209[»]
4JI2X-ray3.64D1-209[»]
4JI3X-ray3.35D1-209[»]
4JI4X-ray3.69D1-209[»]
4JI5X-ray3.85D1-209[»]
4JI6X-ray3.55D1-209[»]
4JI7X-ray3.50D1-209[»]
4JI8X-ray3.74D1-209[»]
4JV5X-ray3.16D2-209[»]
4JYAX-ray3.10D2-209[»]
4K0KX-ray3.40D2-209[»]
4KHPX-ray3.10D2-209[»]
4L47X-ray3.22QD/XD1-209[»]
4L71X-ray3.90QD/XD1-209[»]
4LELX-ray3.90QD/XD1-209[»]
4LF4X-ray3.34D1-209[»]
4LF5X-ray3.75D1-209[»]
4LF6X-ray3.31D1-209[»]
4LF7X-ray3.15D1-209[»]
4LF8X-ray3.15D1-209[»]
4LF9X-ray3.28D1-209[»]
4LFAX-ray3.65D1-209[»]
4LFBX-ray3.01D1-209[»]
4LFCX-ray3.60D1-209[»]
4LFZX-ray3.92QD/XD1-209[»]
4LNTX-ray2.94QD/XD1-209[»]
4LSKX-ray3.48QD/XD1-209[»]
4LT8X-ray3.14QD/XD1-209[»]
4NXMX-ray3.65D1-209[»]
4NXNX-ray3.54D1-209[»]
4OX9X-ray3.80D2-209[»]
4P6FX-ray3.60QD/XD1-209[»]
4P70X-ray3.68QD/XD1-209[»]
4TUAX-ray3.60QD/XD1-209[»]
4TUBX-ray3.60QD/XD1-209[»]
4TUCX-ray3.60QD/XD1-209[»]
4TUDX-ray3.60QD/XD1-209[»]
4TUEX-ray3.50QD/XD1-209[»]
4V42X-ray5.50AG1-209[»]
4V49X-ray8.70D2-209[»]
4V4AX-ray9.50D2-209[»]
4V4IX-ray3.71e1-209[»]
4V4PX-ray5.50BG1-209[»]
4V4RX-ray5.90AD1-209[»]
4V4SX-ray6.76AD1-209[»]
4V4TX-ray6.46AD1-209[»]
4V4XX-ray5.00AG1-209[»]
4V4YX-ray5.50AG1-209[»]
4V4ZX-ray4.51AG1-209[»]
4V51X-ray2.80AD/CD2-209[»]
4V5AX-ray3.50AD/CD2-209[»]
4V5CX-ray3.30AD/CD1-209[»]
4V5DX-ray3.50AD/CD1-209[»]
4V5EX-ray3.45AD/CD1-209[»]
4V5FX-ray3.60AD/CD1-209[»]
4V5GX-ray3.60AD/CD1-209[»]
4V5JX-ray3.10AD/CD1-209[»]
4V5KX-ray3.20AD/CD1-209[»]
4V5LX-ray3.10AD1-209[»]
4V5Melectron microscopy7.80AD1-209[»]
4V5Nelectron microscopy7.60AD1-209[»]
4V5PX-ray3.10AD/CD1-209[»]
4V5QX-ray3.10AD/CD1-209[»]
4V5RX-ray3.10AD/CD1-209[»]
4V5SX-ray3.10AD/CD1-209[»]
4V68electron microscopy6.40AD2-209[»]
4V6AX-ray3.10AD/CD1-209[»]
4V6FX-ray3.10BG/CG1-209[»]
4V6GX-ray3.50AG/CG1-209[»]
4V7JX-ray3.30Ad/Bd1-209[»]
4V7KX-ray3.60Ad/Bd1-209[»]
4V7LX-ray3.00AD/CD1-209[»]
4V7MX-ray3.45AD/CD1-209[»]
4V7WX-ray3.00AD/CD1-209[»]
4V7XX-ray3.00AD/CD1-209[»]
4V7YX-ray3.00AD/CD1-209[»]
4V7ZX-ray3.10AD/CD1-209[»]
4V87X-ray3.10BG/CG2-209[»]
4V8AX-ray3.20CD/DD1-209[»]
4V8BX-ray3.00AG/CG2-209[»]
4V8CX-ray3.30CG/DG2-209[»]
4V8DX-ray3.00AG/CG2-209[»]
4V8EX-ray3.30BG/DG2-209[»]
4V8FX-ray3.30BG/CG2-209[»]
4V8GX-ray3.00AD/CD1-209[»]
4V8HX-ray3.10AD/CD1-209[»]
4V8IX-ray2.70AD/CD1-209[»]
4V8JX-ray3.90AD/CD1-209[»]
4V8NX-ray3.10AD/CD1-209[»]
4V8OX-ray3.80AD1-209[»]
4V8QX-ray3.10BD1-209[»]
4V8UX-ray3.70AD/CD1-209[»]
4V8XX-ray3.35AD/CD1-209[»]
4V90X-ray2.95AD1-209[»]
4V95X-ray3.20AD/CD1-209[»]
4V97X-ray3.52AD/CD1-209[»]
4V9AX-ray3.30AG/CG2-209[»]
4V9BX-ray3.10AG/CG2-209[»]
4V9HX-ray2.86AD2-209[»]
4V9IX-ray3.30AD/CD2-209[»]
4V9RX-ray3.00AD/CD1-209[»]
4V9SX-ray3.10AD/CD1-209[»]
4W2EX-ray2.90d1-209[»]
4W2FX-ray2.40AD/CD1-209[»]
4W2GX-ray2.55AD/CD1-209[»]
4W2HX-ray2.70AD/CD1-209[»]
4W2IX-ray2.70AD/CD1-209[»]
4W4GX-ray3.30QD/XD1-209[»]
4WPOX-ray2.80BD/DD1-209[»]
4WQ1X-ray3.1032/3E2-209[»]
4WQFX-ray2.80BD/DD1-209[»]
4WQRX-ray3.1532/3E1-209[»]
4WQUX-ray2.80BD/DD1-209[»]
4WQYX-ray2.80BD/DD1-209[»]
4WR6X-ray3.0532/3E1-209[»]
4WRAX-ray3.0532/3E1-209[»]
4WROX-ray3.0532/3E1-209[»]
4WSDX-ray2.9532/3E1-209[»]
4WSMX-ray3.3032/3E1-209[»]
4WT1X-ray3.0532/3E1-209[»]
4WT8X-ray3.40AD/BD2-209[»]
4WU1X-ray3.2032/3E1-209[»]
4WZDX-ray3.1032/3E1-209[»]
4WZOX-ray3.3032/3E1-209[»]
4X62X-ray3.45D2-209[»]
4X64X-ray3.35D2-209[»]
4X65X-ray3.35D2-209[»]
4X66X-ray3.45D2-209[»]
4Y4OX-ray2.301d/2d1-209[»]
4Y4PX-ray2.501d/2d1-209[»]
4YHHX-ray3.42D2-209[»]
4YPBX-ray3.40QD/XD1-209[»]
4YY3X-ray3.60D1-209[»]
4YZVX-ray3.10QD/XD1-209[»]
4Z3SX-ray2.651d/2d1-209[»]
4Z8CX-ray2.901d/2d1-209[»]
4ZERX-ray3.101d/2d2-209[»]
4ZSNX-ray3.60QD/XD1-209[»]
5A9Zelectron microscopy4.70BH2-209[»]
5AA0electron microscopy5.00BH2-209[»]
5BR8X-ray3.40D1-209[»]
5CZPX-ray3.30QD/XD1-209[»]
5D8BX-ray3.63AC/EA1-209[»]
5DFEX-ray3.10QD/XD1-209[»]
5DOXX-ray3.101d/2d1-209[»]
5DOYX-ray2.601d/2d1-209[»]
5E7KX-ray3.2032/3E1-209[»]
5E81X-ray2.9532/3E1-209[»]
5EL4X-ray3.1532/3E1-209[»]
5EL5X-ray3.1532/3E1-209[»]
5EL6X-ray3.1032/3E1-209[»]
5EL7X-ray3.1532/3E1-209[»]
5F8KX-ray2.801d/2d2-209[»]
5FDUX-ray2.901d/2d2-209[»]
5FDVX-ray2.801d/2d2-209[»]
5HAUX-ray3.001d/2d1-209[»]
5HCPX-ray2.891d/2d1-209[»]
5HCQX-ray2.801d/2d1-209[»]
5HCRX-ray2.801d/2d1-209[»]
5HD1X-ray2.701d/2d1-209[»]
5IB7X-ray2.9932/3E1-209[»]
5IB8X-ray3.1332/3E1-209[»]
5IBBX-ray2.9632/3E1-209[»]
5IMQelectron microscopy3.80H1-209[»]
5IMRelectron microscopy-H1-209[»]
5IWAX-ray3.50D2-209[»]
5J30X-ray3.20QD/XD1-209[»]
5J3CX-ray3.04QD/XD1-209[»]
5J4BX-ray2.601d/2d1-209[»]
5J4CX-ray2.801d/2d1-209[»]
5J8BX-ray2.60d1-209[»]
5LMNelectron microscopy3.55D1-209[»]
5LMOelectron microscopy4.30D1-209[»]
5LMPelectron microscopy5.35D1-209[»]
5LMQelectron microscopy4.20D1-209[»]
5LMRelectron microscopy4.45D1-209[»]
5LMSelectron microscopy5.10D1-209[»]
5LMTelectron microscopy4.15D1-209[»]
5LMUelectron microscopy4.00D1-209[»]
5LMVelectron microscopy4.90D1-209[»]
5NDJX-ray3.1532/3E1-209[»]
5NDKX-ray2.9532/3E1-209[»]
5OT7electron microscopy3.80C2-209[»]
5UQ7electron microscopy3.50d2-209[»]
5UQ8electron microscopy3.20d2-209[»]
5VP2X-ray2.801d/2d1-209[»]
5VPOX-ray3.34QD/XD1-209[»]
5VPPX-ray3.90QD/XD1-209[»]
5W4KX-ray2.701d/2d1-209[»]
5WISX-ray2.701d/2d1-209[»]
5WITX-ray2.601d/2d1-209[»]
5WNPX-ray3.30D2-209[»]
5WNQX-ray3.50D2-209[»]
5WNRX-ray3.50D2-209[»]
5WNSX-ray3.50D2-209[»]
5WNTX-ray3.30D2-209[»]
5WNUX-ray3.40D2-209[»]
5WNVX-ray3.30D2-209[»]
5ZLUelectron microscopy3.60J1-209[»]
6CAEX-ray2.601d/2d1-209[»]
6CAOX-ray3.45D2-209[»]
6CAPX-ray3.40D2-209[»]
6CAQX-ray3.40D2-209[»]
6CARX-ray3.40D2-209[»]
6CASX-ray3.50D2-209[»]
6FKRX-ray3.201d/2d2-209[»]
6GSJX-ray2.9632/3E1-209[»]
6GSKX-ray3.3632/3E1-209[»]
6GSLX-ray3.1632/3E1-209[»]
ProteinModelPortaliP80373
SMRiP80373
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi300852.TTHA1665

Chemistry databases

DrugBankiDB08185 2-METHYLTHIO-N6-ISOPENTENYL-ADENOSINE-5'-MONOPHOSPHATE

Proteomic databases

PRIDEiP80373

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAD71488; BAD71488; BAD71488
GeneIDi3168006
KEGGittj:TTHA1665
PATRICifig|300852.9.peg.1635

Phylogenomic databases

eggNOGiENOG4105G6W Bacteria
COG0522 LUCA
HOGENOMiHOG000221004
KOiK02986
OMAiNVVFRMG
PhylomeDBiP80373

Enzyme and pathway databases

BioCyciTTHE300852:G1GKC-1671-MONOMER

Miscellaneous databases

EvolutionaryTraceiP80373

Family and domain databases

CDDicd00165 S4, 1 hit
Gene3Di3.10.290.10, 1 hit
HAMAPiMF_01306_B Ribosomal_S4_B, 1 hit
InterProiView protein in InterPro
IPR022801 Ribosomal_S4/S9
IPR001912 Ribosomal_S4/S9_N
IPR005709 Ribosomal_S4_bac-type
IPR018079 Ribosomal_S4_CS
IPR002942 S4_RNA-bd
IPR036986 S4_RNA-bd_sf
PANTHERiPTHR11831 PTHR11831, 1 hit
PTHR11831:SF4 PTHR11831:SF4, 1 hit
PfamiView protein in Pfam
PF00163 Ribosomal_S4, 1 hit
PF01479 S4, 1 hit
SMARTiView protein in SMART
SM01390 Ribosomal_S4, 1 hit
SM00363 S4, 1 hit
TIGRFAMsiTIGR01017 rpsD_bact, 1 hit
PROSITEiView protein in PROSITE
PS00632 RIBOSOMAL_S4, 1 hit
PS50889 S4, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiRS4_THET8
AccessioniPrimary (citable) accession number: P80373
Secondary accession number(s): Q5SHR5, Q9Z9H7
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: January 23, 2007
Last modified: November 7, 2018
This is version 169 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Ribosomal proteins
    Ribosomal proteins families and list of entries
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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