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Protein

50S ribosomal protein L4

Gene

rplD

Organism
Staphylococcus aureus (strain NCTC 8325)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Functioni

One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome.
Forms part of the polypeptide exit tunnel.

GO - Molecular functioni

GO - Biological processi

Keywordsi

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

Names & Taxonomyi

Protein namesi
Recommended name:
50S ribosomal protein L4
Gene namesi
Name:rplD
Ordered Locus Names:SAOUHSC_02511
OrganismiStaphylococcus aureus (strain NCTC 8325)
Taxonomic identifieri93061 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcaceaeStaphylococcus
Proteomesi
  • UP000008816 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000525081 – 20750S ribosomal protein L4Add BLAST207

Interactioni

Subunit structurei

Part of the 50S ribosomal subunit.

Protein-protein interaction databases

STRINGi93061.SAOUHSC_02511.

Structurei

Secondary structure

1207
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi4 – 8Combined sources5
Beta strandi10 – 12Combined sources3
Beta strandi16 – 18Combined sources3
Turni21 – 23Combined sources3
Beta strandi24 – 26Combined sources3
Helixi30 – 44Combined sources15
Turni54 – 56Combined sources3
Beta strandi57 – 59Combined sources3
Beta strandi67 – 72Combined sources6
Beta strandi88 – 90Combined sources3
Helixi103 – 119Combined sources17
Beta strandi122 – 125Combined sources4
Helixi138 – 141Combined sources4
Beta strandi146 – 148Combined sources3
Beta strandi149 – 151Combined sources3
Beta strandi152 – 154Combined sources3
Turni157 – 161Combined sources5
Beta strandi165 – 167Combined sources3
Beta strandi173 – 175Combined sources3
Helixi180 – 183Combined sources4
Beta strandi185 – 189Combined sources5
Helixi192 – 200Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4WCEX-ray3.53C1-207[»]
4WF9X-ray3.43C1-207[»]
4WFAX-ray3.39C1-207[»]
4WFBX-ray3.43C1-207[»]
5HKVX-ray3.66C1-207[»]
5HL7X-ray3.55C1-207[»]
5LI0electron microscopy3.80F3-201[»]
5ND8electron microscopy3.70F1-207[»]
5ND9electron microscopy3.70F1-207[»]
5NRGX-ray3.44C1-207[»]
5TCUelectron microscopy3.90LJ3-207[»]
ProteinModelPortaliQ2FW07.
SMRiQ2FW07.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the universal ribosomal protein uL4 family.

Phylogenomic databases

eggNOGiENOG4106U5A. Bacteria.
COG0088. LUCA.
HOGENOMiHOG000248767.
KOiK02926.
OMAiDYSFKLN.

Family and domain databases

Gene3Di3.40.1370.10. 2 hits.
HAMAPiMF_01328_B. Ribosomal_L4_B. 1 hit.
InterProiView protein in InterPro
IPR002136. Ribosomal_L4/L1e.
IPR023574. Ribosomal_L4_dom_sf.
IPR013005. Ribosomal_uL4/L1e.
PANTHERiPTHR10746. PTHR10746. 1 hit.
PfamiView protein in Pfam
PF00573. Ribosomal_L4. 1 hit.
SUPFAMiSSF52166. SSF52166. 1 hit.
TIGRFAMsiTIGR03953. rplD_bact. 1 hit.

Sequencei

Sequence statusi: Complete.

Q2FW07-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MANYDVLKLD GTKSGSIELS DAVFGIEPNN SVLFEAINLQ RASLRQGTHA
60 70 80 90 100
VKNRSAVSGG GRKPWKQKGT GRARQGTIRA PQWRGGGIVF GPTPRSYAYK
110 120 130 140 150
MPKKMRRLAL RSALSFKAQE NGLTVVDAFN FEAPKTKEFK NVLSTLEQPK
160 170 180 190 200
KVLVVTENED VNVELSARNI PGVQVTTAQG LNVLDITNAD SLVITEAAAK

KVEEVLG
Length:207
Mass (Da):22,465
Last modified:March 21, 2006 - v1
Checksum:i43A13417F457C6CC
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000253 Genomic DNA. Translation: ABD31529.1.
RefSeqiWP_000024827.1. NC_007795.1.
YP_500978.1. NC_007795.1.

Genome annotation databases

EnsemblBacteriaiABD31529; ABD31529; SAOUHSC_02511.
GeneIDi31214983.
3920887.
KEGGisao:SAOUHSC_02511.
PATRICifig|93061.5.peg.2266.

Similar proteinsi

Entry informationi

Entry nameiRL4_STAA8
AccessioniPrimary (citable) accession number: Q2FW07
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: March 21, 2006
Last modified: November 22, 2017
This is version 82 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference 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