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Protein

50S ribosomal protein L13

Gene

rplM

Organism
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

This protein is one of the early assembly proteins of the 50S ribosomal subunit (By similarity). Binds to the 23S rRNA.By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

Keywords - Ligandi

RNA-binding, rRNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
50S ribosomal protein L13
Gene namesi
Name:rplM
Ordered Locus Names:DR_0174
OrganismiDeinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
Taxonomic identifieri243230 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciDeinococcalesDeinococcaceaeDeinococcus
Proteomesi
  • UP000002524 Componenti: Chromosome I

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001337331 – 17450S ribosomal protein L13Add BLAST174

Interactioni

Subunit structurei

Part of the 50S ribosomal subunit. Contacts proteins L3 and L20.6 Publications

Protein-protein interaction databases

STRINGi243230.DR_0174.

Structurei

Secondary structure

1174
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi41 – 45Combined sources5
Beta strandi47 – 50Combined sources4
Helixi51 – 63Combined sources13
Beta strandi72 – 74Combined sources3
Beta strandi79 – 83Combined sources5
Helixi85 – 87Combined sources3
Helixi94 – 97Combined sources4
Beta strandi99 – 102Combined sources4
Beta strandi111 – 114Combined sources4
Helixi115 – 121Combined sources7
Helixi124 – 133Combined sources10
Helixi139 – 145Combined sources7
Beta strandi148 – 150Combined sources3
Beta strandi154 – 156Combined sources3
Helixi159 – 161Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1GS2model-H30-171[»]
1NKWX-ray3.10H1-174[»]
1NWXX-ray3.50H1-174[»]
1NWYX-ray3.30H1-174[»]
1SM1X-ray3.42H1-174[»]
1XBPX-ray3.50H1-174[»]
2ZJPX-ray3.70G1-174[»]
2ZJQX-ray3.30G1-174[»]
2ZJRX-ray2.91G1-174[»]
3CF5X-ray3.30G1-174[»]
3DLLX-ray3.50G1-174[»]
3PIOX-ray3.25G1-174[»]
3PIPX-ray3.45G1-174[»]
4IO9X-ray3.20G1-174[»]
4IOAX-ray3.20G1-174[»]
4IOCX-ray3.60G1-174[»]
4U67X-ray3.65G1-174[»]
4V49X-ray8.70H29-171[»]
4V4AX-ray9.50H29-171[»]
4V4GX-ray11.50K29-171[»]
4WFNX-ray3.54G1-174[»]
5DM6X-ray2.90G30-171[»]
5DM7X-ray3.00G30-171[»]
ProteinModelPortaliQ9RXY1.
SMRiQ9RXY1.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9RXY1.

Family & Domainsi

Sequence similaritiesi

Belongs to the ribosomal protein L13P family.Curated

Phylogenomic databases

eggNOGiENOG4108UM5. Bacteria.
COG0102. LUCA.
HOGENOMiHOG000225286.
InParanoidiQ9RXY1.
KOiK02871.
OMAiFHEGHIN.
OrthoDBiPOG091H013T.

Family and domain databases

CDDicd00392. Ribosomal_L13. 1 hit.
Gene3Di3.90.1180.10. 1 hit.
HAMAPiMF_01366. Ribosomal_L13. 1 hit.
InterProiIPR005822. Ribosomal_L13.
IPR005823. Ribosomal_L13_bac-type.
IPR023563. Ribosomal_L13_CS.
[Graphical view]
PANTHERiPTHR11545. PTHR11545. 1 hit.
PfamiPF00572. Ribosomal_L13. 1 hit.
[Graphical view]
PIRSFiPIRSF002181. Ribosomal_L13. 1 hit.
SUPFAMiSSF52161. SSF52161. 1 hit.
TIGRFAMsiTIGR01066. rplM_bact. 1 hit.
PROSITEiPS00783. RIBOSOMAL_L13. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9RXY1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAFPDTDVSP PRGGPSSPAK SPLLRSFKVK TYIPKNDEQN WVVVDASGVP
60 70 80 90 100
LGRLATLIAS RIRGKHRPDF TPNMIQGDFV VVINAAQVAL TGKKLDDKVY
110 120 130 140 150
TRYTGYQGGL KTETAREALS KHPERVIEHA VFGMLPKGRQ GRAMHTRLKV
160 170
YAGETHPHSA QKPQVLKTQP LEVK
Length:174
Mass (Da):19,190
Last modified:May 1, 2000 - v1
Checksum:i9F7B977882CB715E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000513 Genomic DNA. Translation: AAF09760.1.
PIRiE75552.
RefSeqiNP_293898.2. NC_001263.1.

Genome annotation databases

EnsemblBacteriaiAAF09760; AAF09760; DR_0174.
GeneIDi1799575.
KEGGidra:DR_0174.
PATRICi21627831. VBIDeiRad64572_0338.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000513 Genomic DNA. Translation: AAF09760.1.
PIRiE75552.
RefSeqiNP_293898.2. NC_001263.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1GS2model-H30-171[»]
1NKWX-ray3.10H1-174[»]
1NWXX-ray3.50H1-174[»]
1NWYX-ray3.30H1-174[»]
1SM1X-ray3.42H1-174[»]
1XBPX-ray3.50H1-174[»]
2ZJPX-ray3.70G1-174[»]
2ZJQX-ray3.30G1-174[»]
2ZJRX-ray2.91G1-174[»]
3CF5X-ray3.30G1-174[»]
3DLLX-ray3.50G1-174[»]
3PIOX-ray3.25G1-174[»]
3PIPX-ray3.45G1-174[»]
4IO9X-ray3.20G1-174[»]
4IOAX-ray3.20G1-174[»]
4IOCX-ray3.60G1-174[»]
4U67X-ray3.65G1-174[»]
4V49X-ray8.70H29-171[»]
4V4AX-ray9.50H29-171[»]
4V4GX-ray11.50K29-171[»]
4WFNX-ray3.54G1-174[»]
5DM6X-ray2.90G30-171[»]
5DM7X-ray3.00G30-171[»]
ProteinModelPortaliQ9RXY1.
SMRiQ9RXY1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243230.DR_0174.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAF09760; AAF09760; DR_0174.
GeneIDi1799575.
KEGGidra:DR_0174.
PATRICi21627831. VBIDeiRad64572_0338.

Phylogenomic databases

eggNOGiENOG4108UM5. Bacteria.
COG0102. LUCA.
HOGENOMiHOG000225286.
InParanoidiQ9RXY1.
KOiK02871.
OMAiFHEGHIN.
OrthoDBiPOG091H013T.

Miscellaneous databases

EvolutionaryTraceiQ9RXY1.

Family and domain databases

CDDicd00392. Ribosomal_L13. 1 hit.
Gene3Di3.90.1180.10. 1 hit.
HAMAPiMF_01366. Ribosomal_L13. 1 hit.
InterProiIPR005822. Ribosomal_L13.
IPR005823. Ribosomal_L13_bac-type.
IPR023563. Ribosomal_L13_CS.
[Graphical view]
PANTHERiPTHR11545. PTHR11545. 1 hit.
PfamiPF00572. Ribosomal_L13. 1 hit.
[Graphical view]
PIRSFiPIRSF002181. Ribosomal_L13. 1 hit.
SUPFAMiSSF52161. SSF52161. 1 hit.
TIGRFAMsiTIGR01066. rplM_bact. 1 hit.
PROSITEiPS00783. RIBOSOMAL_L13. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRL13_DEIRA
AccessioniPrimary (citable) accession number: Q9RXY1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 15, 2004
Last sequence update: May 1, 2000
Last modified: November 2, 2016
This is version 114 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, Direct protein sequencing, 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

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 one 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.