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Protein

50S ribosomal protein L4

Gene

rplD

Organism
Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
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.UniRule annotation
Forms part of the polypeptide exit tunnel.UniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

Keywords - Ligandi

RNA-binding, rRNA-binding

Enzyme and pathway databases

BioCyciTTHE262724:GCAT-1342-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
50S ribosomal protein L4UniRule annotation
Gene namesi
Name:rplDUniRule annotation
Ordered Locus Names:TT_C1327
OrganismiThermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
Taxonomic identifieri262724 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus
ProteomesiUP000000592 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 20520550S ribosomal protein L4PRO_0000242455Add
BLAST

Interactioni

Subunit structurei

Part of the 50S ribosomal subunit.

Structurei

Secondary structure

1
205
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 63Combined sources
Beta strandi13 – 153Combined sources
Helixi25 – 3814Combined sources
Beta strandi48 – 514Combined sources
Beta strandi52 – 543Combined sources
Beta strandi62 – 654Combined sources
Beta strandi73 – 753Combined sources
Beta strandi78 – 814Combined sources
Beta strandi83 – 853Combined sources
Helixi98 – 11518Combined sources
Beta strandi118 – 1214Combined sources
Turni125 – 1295Combined sources
Helixi131 – 1399Combined sources
Turni140 – 1423Combined sources
Beta strandi145 – 1473Combined sources
Beta strandi149 – 1524Combined sources
Helixi156 – 1649Combined sources
Beta strandi168 – 1714Combined sources
Helixi173 – 1753Combined sources
Helixi178 – 1814Combined sources
Beta strandi184 – 1907Combined sources
Helixi191 – 20010Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4V4IX-ray3.71D1-205[»]
4V4JX-ray3.83D1-205[»]
4V63X-ray3.21BF/DF1-205[»]
4V67X-ray3.00BF/DF1-205[»]
4V7PX-ray3.62BE/CE1-205[»]
4V83X-ray3.50BE/DE1-202[»]
4V84X-ray3.40BE/DE1-202[»]
4V9JX-ray3.86BF/DF1-203[»]
4V9KX-ray3.50BF/DF1-203[»]
4V9LX-ray3.50BF/DF1-203[»]
4V9MX-ray4.00BF/DF1-203[»]
4V9NX-ray3.40BF/DF1-202[»]
4V9QX-ray3.40AF/CF1-202[»]
4W29X-ray3.80BF/DF1-203[»]
4XEJX-ray3.80AL04/BL041-202[»]
ProteinModelPortaliQ72I05.
SMRiQ72I05. Positions 4-197.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ72I05.

Family & Domainsi

Sequence similaritiesi

Belongs to the ribosomal protein L4P family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0088.
KOiK02926.
OMAiHGPTPRN.
OrthoDBiEOG6M0T9G.

Family and domain databases

Gene3Di3.40.1370.10. 1 hit.
HAMAPiMF_01328_B. Ribosomal_L4_B.
InterProiIPR002136. Ribosomal_L4/L1e.
IPR023574. Ribosomal_L4_dom.
IPR013005. Ribosomal_uL4/L1e.
[Graphical view]
PANTHERiPTHR10746. PTHR10746. 1 hit.
PfamiPF00573. Ribosomal_L4. 1 hit.
[Graphical view]
SUPFAMiSSF52166. SSF52166. 1 hit.
TIGRFAMsiTIGR03953. rplD_bact. 1 hit.

Sequencei

Sequence statusi: Complete.

Q72I05-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MYQIPVLSPS GRRELAADLP AEINPHLLWE VVRWQLAKRR RGTASTKTRG
60 70 80 90 100
EVAYSGRKIW PQKHTGRARH GDIGAPIFVG GGVVFGPKPR DYSYTLPKKV
110 120 130 140 150
RKKGLAMAVA DRAREGKLLL VEAFAGVNGK TKEFLAWAKE AGLDGSESVL
160 170 180 190 200
LVTGNELVRR AARNLPWVVT LAPEGLNVYD IVRTERLVMD LDAWEVFQNR

IGGEA
Length:205
Mass (Da):22,708
Last modified:July 5, 2004 - v1
Checksum:iFC50A700F8CBC324
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017221 Genomic DNA. Translation: AAS81669.1.
RefSeqiWP_011173713.1. NC_005835.1.
YP_005296.1. NC_005835.1.

Genome annotation databases

EnsemblBacteriaiAAS81669; AAS81669; TT_C1327.
KEGGitth:TTC1327.
PATRICi23953061. VBITheThe54392_1319.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017221 Genomic DNA. Translation: AAS81669.1.
RefSeqiWP_011173713.1. NC_005835.1.
YP_005296.1. NC_005835.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4V4IX-ray3.71D1-205[»]
4V4JX-ray3.83D1-205[»]
4V63X-ray3.21BF/DF1-205[»]
4V67X-ray3.00BF/DF1-205[»]
4V7PX-ray3.62BE/CE1-205[»]
4V83X-ray3.50BE/DE1-202[»]
4V84X-ray3.40BE/DE1-202[»]
4V9JX-ray3.86BF/DF1-203[»]
4V9KX-ray3.50BF/DF1-203[»]
4V9LX-ray3.50BF/DF1-203[»]
4V9MX-ray4.00BF/DF1-203[»]
4V9NX-ray3.40BF/DF1-202[»]
4V9QX-ray3.40AF/CF1-202[»]
4W29X-ray3.80BF/DF1-203[»]
4XEJX-ray3.80AL04/BL041-202[»]
ProteinModelPortaliQ72I05.
SMRiQ72I05. Positions 4-197.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAS81669; AAS81669; TT_C1327.
KEGGitth:TTC1327.
PATRICi23953061. VBITheThe54392_1319.

Phylogenomic databases

eggNOGiCOG0088.
KOiK02926.
OMAiHGPTPRN.
OrthoDBiEOG6M0T9G.

Enzyme and pathway databases

BioCyciTTHE262724:GCAT-1342-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ72I05.

Family and domain databases

Gene3Di3.40.1370.10. 1 hit.
HAMAPiMF_01328_B. Ribosomal_L4_B.
InterProiIPR002136. Ribosomal_L4/L1e.
IPR023574. Ribosomal_L4_dom.
IPR013005. Ribosomal_uL4/L1e.
[Graphical view]
PANTHERiPTHR10746. PTHR10746. 1 hit.
PfamiPF00573. Ribosomal_L4. 1 hit.
[Graphical view]
SUPFAMiSSF52166. SSF52166. 1 hit.
TIGRFAMsiTIGR03953. rplD_bact. 1 hit.
ProtoNetiSearch...

Publicationsi

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

Entry informationi

Entry nameiRL4_THET2
AccessioniPrimary (citable) accession number: Q72I05
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: July 5, 2004
Last modified: May 27, 2015
This is version 75 of the entry and version 1 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.