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P60488

- RL13_THET8

UniProt

P60488 - RL13_THET8

Protein

50S ribosomal protein L13

Gene

rplM

Organism
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 98 (01 Oct 2014)
      Sequence version 2 (29 Mar 2005)
      Previous versions | rss
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    Functioni

    This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.UniRule annotation

    GO - Molecular functioni

    1. structural constituent of ribosome Source: InterPro

    GO - Biological processi

    1. translation Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Ribonucleoprotein, Ribosomal protein

    Enzyme and pathway databases

    BioCyciTTHE300852:GH8R-1501-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    50S ribosomal protein L13UniRule annotation
    Gene namesi
    Name:rplMUniRule annotation
    Ordered Locus Names:TTHA1465
    OrganismiThermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
    Taxonomic identifieri300852 [NCBI]
    Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus
    ProteomesiUP000000532: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. ribosome Source: UniProtKB-KW

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 14014050S ribosomal protein L13PRO_0000133754Add
    BLAST

    Interactioni

    Subunit structurei

    Part of the 50S ribosomal subunit.

    Protein-protein interaction databases

    STRINGi300852.TTHA1465.

    Structurei

    Secondary structure

    1
    140
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi13 – 175
    Beta strandi19 – 224
    Helixi25 – 3511
    Turni36 – 383
    Beta strandi39 – 413
    Turni44 – 463
    Beta strandi51 – 555
    Helixi57 – 593
    Beta strandi63 – 653
    Helixi66 – 694
    Beta strandi71 – 755
    Beta strandi78 – 803
    Beta strandi82 – 865
    Helixi87 – 937
    Helixi97 – 1059
    Helixi111 – 1188
    Beta strandi120 – 1223
    Beta strandi124 – 1263
    Helixi131 – 1333
    Beta strandi136 – 1383

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1GIYX-ray5.50M1-140[»]
    1YL3X-ray5.50M1-140[»]
    2B9PX-ray6.46N1-140[»]
    2HGJX-ray5.00M1-140[»]
    2HGQX-ray5.50M1-140[»]
    2HGUX-ray4.51M1-140[»]
    2J01X-ray2.80N1-140[»]
    2J03X-ray2.80N1-140[»]
    2V47X-ray3.80N1-140[»]
    2V49X-ray3.80N1-140[»]
    2WDIX-ray3.30N1-140[»]
    2WDJX-ray3.30N1-140[»]
    2WDLX-ray3.50N1-140[»]
    2WDNX-ray3.50N1-140[»]
    2WH2X-ray3.45N1-140[»]
    2WH4X-ray3.45N1-140[»]
    2WRJX-ray3.60N1-140[»]
    2WRLX-ray3.60N1-140[»]
    2WROX-ray3.60N1-140[»]
    2WRRX-ray3.60N1-140[»]
    2X9SX-ray3.10N1-140[»]
    2X9UX-ray3.10N1-140[»]
    2XG0X-ray3.20N1-140[»]
    2XG2X-ray3.20N1-140[»]
    2XQEX-ray3.10N1-140[»]
    2XTGelectron microscopy7.80N1-140[»]
    2XUXelectron microscopy7.60N1-140[»]
    2Y0VX-ray3.10N1-140[»]
    2Y0XX-ray3.10N1-140[»]
    2Y0ZX-ray3.10N1-140[»]
    2Y11X-ray3.10N1-140[»]
    2Y13X-ray3.10N1-140[»]
    2Y15X-ray3.10N1-140[»]
    2Y17X-ray3.10N1-140[»]
    2Y19X-ray3.10N1-140[»]
    3FINelectron microscopy6.40N1-139[»]
    3HUXX-ray3.10N1-140[»]
    3HUZX-ray3.10N1-140[»]
    3I8FX-ray3.10M1-140[»]
    3I8IX-ray3.10M1-140[»]
    3I9CX-ray3.50M1-140[»]
    3I9EX-ray3.50M1-140[»]
    3KIRX-ray3.30N1-140[»]
    3KITX-ray3.30N1-140[»]
    3KIWX-ray3.60N1-140[»]
    3KIYX-ray3.60N1-140[»]
    3KNIX-ray3.00N1-140[»]
    3KNKX-ray3.00N1-140[»]
    3KNMX-ray3.45N1-140[»]
    3KNOX-ray3.45N1-140[»]
    3OHZX-ray3.00N1-140[»]
    3OI3X-ray3.10N1-140[»]
    3OI5X-ray3.10N1-140[»]
    3TVEX-ray3.10M1-138[»]
    3TVHX-ray3.10M1-138[»]
    3UXQX-ray3.20N1-140[»]
    3UXRX-ray3.20N1-140[»]
    3UYEX-ray3.00M1-140[»]
    3UYGX-ray3.00M1-140[»]
    3UZ1X-ray3.30M1-140[»]
    3UZ2X-ray3.30M1-140[»]
    3UZ8X-ray3.00M1-140[»]
    3UZ9X-ray3.00M1-140[»]
    3UZFX-ray3.30M1-140[»]
    3UZHX-ray3.30M1-140[»]
    3UZKX-ray3.30M1-140[»]
    3UZNX-ray3.30M1-140[»]
    3V23X-ray3.00N1-140[»]
    3V25X-ray3.00N1-140[»]
    3V27X-ray3.10N1-140[»]
    3V29X-ray3.10N1-140[»]
    3V2DX-ray2.70N1-140[»]
    3V2FX-ray2.70N1-140[»]
    3V6WX-ray3.90N1-140[»]
    3V6XX-ray3.90N1-140[»]
    3ZN9X-ray3.10N1-140[»]
    3ZNEX-ray3.10N1-140[»]
    3ZVPX-ray3.80N1-140[»]
    4ABSX-ray3.10N1-140[»]
    4B8GX-ray3.70N1-140[»]
    4B8IX-ray3.70N1-140[»]
    4BTDX-ray2.95N1-140[»]
    4BYCX-ray3.35N1-140[»]
    4BYEX-ray3.35N1-140[»]
    4DHAX-ray3.20N1-140[»]
    4DHCX-ray3.20N1-140[»]
    4EJBX-ray3.52N1-140[»]
    4EJCX-ray3.52N1-140[»]
    4G5LX-ray3.30M1-140[»]
    4G5NX-ray3.30M1-140[»]
    4G5UX-ray3.10M1-140[»]
    4G5WX-ray3.10M1-140[»]
    4JUXX-ray2.86N1-140[»]
    4K0MX-ray3.30N1-138[»]
    4K0QX-ray3.30N1-138[»]
    4NVVX-ray3.00N1-140[»]
    4NVXX-ray3.00N1-140[»]
    4NVZX-ray3.10N1-140[»]
    4NW1X-ray3.10N1-140[»]
    ProteinModelPortaliP60488.
    SMRiP60488. Positions 2-140.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP60488.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the ribosomal protein L13P family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0102.
    HOGENOMiHOG000225286.
    KOiK02871.
    OMAiGIKETNF.
    OrthoDBiEOG628FBD.
    PhylomeDBiP60488.

    Family and domain databases

    Gene3Di3.90.1180.10. 1 hit.
    HAMAPiMF_01366. Ribosomal_L13.
    InterProiIPR005822. Ribosomal_L13.
    IPR005823. Ribosomal_L13_bac-type.
    IPR023563. Ribosomal_L13_CS.
    IPR023564. Ribosomal_L13_dom.
    [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.

    P60488-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKTYVPKQVE PRWVLIDAEG KTLGRLATKI ATLLRGKHRP DWTPNVAMGD    50
    FVVVVNADKI RVTGKKLEQK IYTRYSGYPG GLKKIPLEKM LATHPERVLE 100
    HAVKGMLPKG PLGRRLFKRL KVYAGPDHPH QAQRPEKLEV 140
    Length:140
    Mass (Da):15,895
    Last modified:March 29, 2005 - v2
    Checksum:i657212AE35E6F502
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti27 – 271A → H AA sequence (PubMed:11154066)Curated

    Mass spectrometryi

    Molecular mass is 15896 Da from positions 1 - 140. Determined by MALDI. 1 Publication

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP008226 Genomic DNA. Translation: BAD71288.1.
    RefSeqiWP_011173515.1. NC_006461.1.
    YP_144731.1. NC_006461.1.

    Genome annotation databases

    EnsemblBacteriaiBAD71288; BAD71288; BAD71288.
    GeneIDi3168485.
    KEGGittj:TTHA1465.
    PATRICi23957887. VBITheThe93045_1439.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP008226 Genomic DNA. Translation: BAD71288.1 .
    RefSeqi WP_011173515.1. NC_006461.1.
    YP_144731.1. NC_006461.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1GIY X-ray 5.50 M 1-140 [» ]
    1YL3 X-ray 5.50 M 1-140 [» ]
    2B9P X-ray 6.46 N 1-140 [» ]
    2HGJ X-ray 5.00 M 1-140 [» ]
    2HGQ X-ray 5.50 M 1-140 [» ]
    2HGU X-ray 4.51 M 1-140 [» ]
    2J01 X-ray 2.80 N 1-140 [» ]
    2J03 X-ray 2.80 N 1-140 [» ]
    2V47 X-ray 3.80 N 1-140 [» ]
    2V49 X-ray 3.80 N 1-140 [» ]
    2WDI X-ray 3.30 N 1-140 [» ]
    2WDJ X-ray 3.30 N 1-140 [» ]
    2WDL X-ray 3.50 N 1-140 [» ]
    2WDN X-ray 3.50 N 1-140 [» ]
    2WH2 X-ray 3.45 N 1-140 [» ]
    2WH4 X-ray 3.45 N 1-140 [» ]
    2WRJ X-ray 3.60 N 1-140 [» ]
    2WRL X-ray 3.60 N 1-140 [» ]
    2WRO X-ray 3.60 N 1-140 [» ]
    2WRR X-ray 3.60 N 1-140 [» ]
    2X9S X-ray 3.10 N 1-140 [» ]
    2X9U X-ray 3.10 N 1-140 [» ]
    2XG0 X-ray 3.20 N 1-140 [» ]
    2XG2 X-ray 3.20 N 1-140 [» ]
    2XQE X-ray 3.10 N 1-140 [» ]
    2XTG electron microscopy 7.80 N 1-140 [» ]
    2XUX electron microscopy 7.60 N 1-140 [» ]
    2Y0V X-ray 3.10 N 1-140 [» ]
    2Y0X X-ray 3.10 N 1-140 [» ]
    2Y0Z X-ray 3.10 N 1-140 [» ]
    2Y11 X-ray 3.10 N 1-140 [» ]
    2Y13 X-ray 3.10 N 1-140 [» ]
    2Y15 X-ray 3.10 N 1-140 [» ]
    2Y17 X-ray 3.10 N 1-140 [» ]
    2Y19 X-ray 3.10 N 1-140 [» ]
    3FIN electron microscopy 6.40 N 1-139 [» ]
    3HUX X-ray 3.10 N 1-140 [» ]
    3HUZ X-ray 3.10 N 1-140 [» ]
    3I8F X-ray 3.10 M 1-140 [» ]
    3I8I X-ray 3.10 M 1-140 [» ]
    3I9C X-ray 3.50 M 1-140 [» ]
    3I9E X-ray 3.50 M 1-140 [» ]
    3KIR X-ray 3.30 N 1-140 [» ]
    3KIT X-ray 3.30 N 1-140 [» ]
    3KIW X-ray 3.60 N 1-140 [» ]
    3KIY X-ray 3.60 N 1-140 [» ]
    3KNI X-ray 3.00 N 1-140 [» ]
    3KNK X-ray 3.00 N 1-140 [» ]
    3KNM X-ray 3.45 N 1-140 [» ]
    3KNO X-ray 3.45 N 1-140 [» ]
    3OHZ X-ray 3.00 N 1-140 [» ]
    3OI3 X-ray 3.10 N 1-140 [» ]
    3OI5 X-ray 3.10 N 1-140 [» ]
    3TVE X-ray 3.10 M 1-138 [» ]
    3TVH X-ray 3.10 M 1-138 [» ]
    3UXQ X-ray 3.20 N 1-140 [» ]
    3UXR X-ray 3.20 N 1-140 [» ]
    3UYE X-ray 3.00 M 1-140 [» ]
    3UYG X-ray 3.00 M 1-140 [» ]
    3UZ1 X-ray 3.30 M 1-140 [» ]
    3UZ2 X-ray 3.30 M 1-140 [» ]
    3UZ8 X-ray 3.00 M 1-140 [» ]
    3UZ9 X-ray 3.00 M 1-140 [» ]
    3UZF X-ray 3.30 M 1-140 [» ]
    3UZH X-ray 3.30 M 1-140 [» ]
    3UZK X-ray 3.30 M 1-140 [» ]
    3UZN X-ray 3.30 M 1-140 [» ]
    3V23 X-ray 3.00 N 1-140 [» ]
    3V25 X-ray 3.00 N 1-140 [» ]
    3V27 X-ray 3.10 N 1-140 [» ]
    3V29 X-ray 3.10 N 1-140 [» ]
    3V2D X-ray 2.70 N 1-140 [» ]
    3V2F X-ray 2.70 N 1-140 [» ]
    3V6W X-ray 3.90 N 1-140 [» ]
    3V6X X-ray 3.90 N 1-140 [» ]
    3ZN9 X-ray 3.10 N 1-140 [» ]
    3ZNE X-ray 3.10 N 1-140 [» ]
    3ZVP X-ray 3.80 N 1-140 [» ]
    4ABS X-ray 3.10 N 1-140 [» ]
    4B8G X-ray 3.70 N 1-140 [» ]
    4B8I X-ray 3.70 N 1-140 [» ]
    4BTD X-ray 2.95 N 1-140 [» ]
    4BYC X-ray 3.35 N 1-140 [» ]
    4BYE X-ray 3.35 N 1-140 [» ]
    4DHA X-ray 3.20 N 1-140 [» ]
    4DHC X-ray 3.20 N 1-140 [» ]
    4EJB X-ray 3.52 N 1-140 [» ]
    4EJC X-ray 3.52 N 1-140 [» ]
    4G5L X-ray 3.30 M 1-140 [» ]
    4G5N X-ray 3.30 M 1-140 [» ]
    4G5U X-ray 3.10 M 1-140 [» ]
    4G5W X-ray 3.10 M 1-140 [» ]
    4JUX X-ray 2.86 N 1-140 [» ]
    4K0M X-ray 3.30 N 1-138 [» ]
    4K0Q X-ray 3.30 N 1-138 [» ]
    4NVV X-ray 3.00 N 1-140 [» ]
    4NVX X-ray 3.00 N 1-140 [» ]
    4NVZ X-ray 3.10 N 1-140 [» ]
    4NW1 X-ray 3.10 N 1-140 [» ]
    ProteinModelPortali P60488.
    SMRi P60488. Positions 2-140.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 300852.TTHA1465.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAD71288 ; BAD71288 ; BAD71288 .
    GeneIDi 3168485.
    KEGGi ttj:TTHA1465.
    PATRICi 23957887. VBITheThe93045_1439.

    Phylogenomic databases

    eggNOGi COG0102.
    HOGENOMi HOG000225286.
    KOi K02871.
    OMAi GIKETNF.
    OrthoDBi EOG628FBD.
    PhylomeDBi P60488.

    Enzyme and pathway databases

    BioCyci TTHE300852:GH8R-1501-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei P60488.

    Family and domain databases

    Gene3Di 3.90.1180.10. 1 hit.
    HAMAPi MF_01366. Ribosomal_L13.
    InterProi IPR005822. Ribosomal_L13.
    IPR005823. Ribosomal_L13_bac-type.
    IPR023563. Ribosomal_L13_CS.
    IPR023564. Ribosomal_L13_dom.
    [Graphical view ]
    PANTHERi PTHR11545. PTHR11545. 1 hit.
    Pfami PF00572. Ribosomal_L13. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF002181. Ribosomal_L13. 1 hit.
    SUPFAMi SSF52161. SSF52161. 1 hit.
    TIGRFAMsi TIGR01066. rplM_bact. 1 hit.
    PROSITEi PS00783. RIBOSOMAL_L13. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequence of Thermus thermophilus HB8."
      Masui R., Kurokawa K., Nakagawa N., Tokunaga F., Koyama Y., Shibata T., Oshima T., Yokoyama S., Yasunaga T., Kuramitsu S.
      Submitted (NOV-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: HB8 / ATCC 27634 / DSM 579.
    2. "Identification of the 50S ribosomal proteins from the eubacterium Thermus thermophilus."
      Katsani K.R., Tsiboli P., Anagnostopoulos K., Urlaub H., Choli-Papadopoulou T.
      Biol. Chem. 381:1079-1087(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 1-39.
    3. "Extending ribosomal protein identifications to unsequenced bacterial strains using matrix-assisted laser desorption/ionization mass spectrometry."
      Suh M.-J., Hamburg D.M., Gregory S.T., Dahlberg A.E., Limbach P.A.
      Proteomics 5:4818-4831(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: MASS SPECTROMETRY.
    4. "The path of messenger RNA through the ribosome."
      Yusupova G.Z., Yusupov M.M., Cate J.H.D., Noller H.F.
      Cell 106:233-241(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (5.0 ANGSTROMS) OF THE RIBOSOME.
    5. Cited for: X-RAY CRYSTALLOGRAPHY (5.5 ANGSTROMS) OF THE RIBOSOME.

    Entry informationi

    Entry nameiRL13_THET8
    AccessioniPrimary (citable) accession number: P60488
    Secondary accession number(s): Q5SIA9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 1, 2004
    Last sequence update: March 29, 2005
    Last modified: October 1, 2014
    This is version 98 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, 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

    External Data

    Dasty 3