Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

30S ribosomal protein S4

Gene

rpsD

Organism
Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-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.By similarity

Cofactori

Zn2+By similarityNote: Binds 1 zinc ion per subunit.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi9 – 91ZincBy similarity
Metal bindingi12 – 121ZincBy similarity
Metal bindingi26 – 261ZincBy similarity
Metal bindingi31 – 311ZincBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri9 – 3123C4-typeAdd
BLAST

GO - Molecular functioni

  1. metal ion binding Source: UniProtKB-KW
  2. rRNA binding Source: UniProtKB-HAMAP
  3. structural constituent of ribosome Source: InterPro

GO - Biological processi

  1. translation Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

Keywords - Ligandi

Metal-binding, RNA-binding, rRNA-binding, Zinc

Enzyme and pathway databases

BioCyciTTHE262724:GCAT-1316-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
30S ribosomal protein S4
Gene namesi
Name:rpsD
Synonyms:rps4
Ordered Locus Names:TT_C1301
OrganismiThermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
Taxonomic identifieri262724 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus
ProteomesiUP000000592 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

  1. small ribosomal subunit Source: InterPro
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11RemovedBy similarity
Chaini2 – 20920830S ribosomal protein S4PRO_0000132482Add
BLAST

Interactioni

Subunit structurei

Part of the 30S ribosomal subunit. Contacts protein S5. The interaction surface between S4 and S5 is involved in control of translational fidelity (By similarity).By similarity

Protein-protein interaction databases

STRINGi262724.TTC1301.

Structurei

Secondary structure

1
209
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni9 – 113Combined sources
Helixi12 – 154Combined sources
Helixi24 – 274Combined sources
Turni33 – 353Combined sources
Turni41 – 433Combined sources
Beta strandi44 – 463Combined sources
Helixi53 – 6816Combined sources
Helixi72 – 8413Combined sources
Beta strandi85 – 873Combined sources
Helixi89 – 9911Combined sources
Helixi101 – 1077Combined sources
Beta strandi109 – 1135Combined sources
Helixi114 – 1229Combined sources
Beta strandi126 – 1327Combined sources
Beta strandi145 – 1484Combined sources
Helixi150 – 1534Combined sources
Helixi156 – 1638Combined sources
Beta strandi165 – 1673Combined sources
Beta strandi174 – 1774Combined sources
Turni178 – 1814Combined sources
Beta strandi182 – 1854Combined sources
Helixi191 – 1933Combined sources
Helixi200 – 2067Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4KVBX-ray4.20D1-209[»]
4V4IX-ray3.71e1-209[»]
4V4JX-ray3.83e1-209[»]
4V63X-ray3.21AD/CD1-209[»]
4V67X-ray3.00AD/CD1-209[»]
4V7PX-ray3.62AD/DD2-209[»]
4V83X-ray3.50AD/CD2-209[»]
4V84X-ray3.40AD/CD2-209[»]
4V9JX-ray3.86AD/CD2-209[»]
4V9KX-ray3.50AD/CD2-209[»]
4V9LX-ray3.50AD/CD2-209[»]
4V9MX-ray4.00AD/CD2-209[»]
4V9NX-ray3.40AD/CD2-209[»]
4V9QX-ray3.40BD/DD2-209[»]
4W29X-ray3.80AD/CD2-209[»]
ProteinModelPortaliP62664.
SMRiP62664. Positions 2-209.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP62664.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini100 – 16263S4 RNA-bindingAdd
BLAST

Sequence similaritiesi

Belongs to the ribosomal protein S4P family.Curated
Contains 1 S4 RNA-binding domain.Curated

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri9 – 3123C4-typeAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiCOG0522.
KOiK02986.
OMAiTHGHILV.
OrthoDBiEOG6N3CXM.

Family and domain databases

Gene3Di1.10.1050.10. 1 hit.
3.10.290.10. 1 hit.
HAMAPiMF_01306_B. Ribosomal_S4_B.
InterProiIPR022801. Ribosomal_S4/S9.
IPR001912. Ribosomal_S4/S9_N.
IPR005709. Ribosomal_S4_bac-type.
IPR018079. Ribosomal_S4_CS.
IPR002942. S4_RNA-bd.
[Graphical view]
PANTHERiPTHR11831. PTHR11831. 1 hit.
PfamiPF00163. Ribosomal_S4. 1 hit.
PF01479. S4. 1 hit.
[Graphical view]
SMARTiSM00363. S4. 1 hit.
[Graphical view]
TIGRFAMsiTIGR01017. rpsD_bact. 1 hit.
PROSITEiPS00632. RIBOSOMAL_S4. 1 hit.
PS50889. S4. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P62664-1 [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 22, 2007 - v2
Checksum:i0FF3911816971236
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017221 Genomic DNA. Translation: AAS81643.1.
RefSeqiYP_005270.1. NC_005835.1.

Genome annotation databases

EnsemblBacteriaiAAS81643; AAS81643; TT_C1301.
KEGGitth:TTC1301.
PATRICi23953009. VBITheThe54392_1293.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017221 Genomic DNA. Translation: AAS81643.1.
RefSeqiYP_005270.1. NC_005835.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4KVBX-ray4.20D1-209[»]
4V4IX-ray3.71e1-209[»]
4V4JX-ray3.83e1-209[»]
4V63X-ray3.21AD/CD1-209[»]
4V67X-ray3.00AD/CD1-209[»]
4V7PX-ray3.62AD/DD2-209[»]
4V83X-ray3.50AD/CD2-209[»]
4V84X-ray3.40AD/CD2-209[»]
4V9JX-ray3.86AD/CD2-209[»]
4V9KX-ray3.50AD/CD2-209[»]
4V9LX-ray3.50AD/CD2-209[»]
4V9MX-ray4.00AD/CD2-209[»]
4V9NX-ray3.40AD/CD2-209[»]
4V9QX-ray3.40BD/DD2-209[»]
4W29X-ray3.80AD/CD2-209[»]
ProteinModelPortaliP62664.
SMRiP62664. Positions 2-209.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi262724.TTC1301.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAS81643; AAS81643; TT_C1301.
KEGGitth:TTC1301.
PATRICi23953009. VBITheThe54392_1293.

Phylogenomic databases

eggNOGiCOG0522.
KOiK02986.
OMAiTHGHILV.
OrthoDBiEOG6N3CXM.

Enzyme and pathway databases

BioCyciTTHE262724:GCAT-1316-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP62664.

Family and domain databases

Gene3Di1.10.1050.10. 1 hit.
3.10.290.10. 1 hit.
HAMAPiMF_01306_B. Ribosomal_S4_B.
InterProiIPR022801. Ribosomal_S4/S9.
IPR001912. Ribosomal_S4/S9_N.
IPR005709. Ribosomal_S4_bac-type.
IPR018079. Ribosomal_S4_CS.
IPR002942. S4_RNA-bd.
[Graphical view]
PANTHERiPTHR11831. PTHR11831. 1 hit.
PfamiPF00163. Ribosomal_S4. 1 hit.
PF01479. S4. 1 hit.
[Graphical view]
SMARTiSM00363. S4. 1 hit.
[Graphical view]
TIGRFAMsiTIGR01017. rpsD_bact. 1 hit.
PROSITEiPS00632. RIBOSOMAL_S4. 1 hit.
PS50889. S4. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: HB27 / ATCC BAA-163 / DSM 7039.

Entry informationi

Entry nameiRS4_THET2
AccessioniPrimary (citable) accession number: P62664
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 18, 2004
Last sequence update: January 22, 2007
Last modified: March 31, 2015
This is version 82 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome

Documents

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

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.