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Q5SHQ3

- RL6_THET8

UniProt

Q5SHQ3 - RL6_THET8

Protein

50S ribosomal protein L6

Gene

rplF

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 87 (01 Oct 2014)
      Sequence version 3 (23 Jan 2007)
      Previous versions | rss
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    Functioni

    This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center.

    GO - Molecular functioni

    1. rRNA binding Source: UniProtKB-HAMAP
    2. structural constituent of ribosome Source: InterPro

    GO - Biological processi

    1. translation Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Ribonucleoprotein, Ribosomal protein

    Keywords - Ligandi

    RNA-binding, rRNA-binding

    Enzyme and pathway databases

    BioCyciTTHE300852:GH8R-1716-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    50S ribosomal protein L6UniRule annotation
    Gene namesi
    Name:rplFUniRule annotation
    Ordered Locus Names:TTHA1677
    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
    Initiator methioninei1 – 11Removed1 Publication
    Chaini2 – 18017950S ribosomal protein L6PRO_0000131072Add
    BLAST

    Interactioni

    Subunit structurei

    Part of the 50S ribosomal subunit.

    Protein-protein interaction databases

    STRINGi300852.TTHA1677.

    Structurei

    Secondary structure

    1
    180
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Turni4 – 63
    Beta strandi13 – 153
    Beta strandi16 – 205
    Beta strandi23 – 275
    Beta strandi28 – 314
    Beta strandi32 – 365
    Beta strandi41 – 466
    Beta strandi49 – 535
    Helixi59 – 8022
    Beta strandi83 – 919
    Beta strandi95 – 995
    Beta strandi102 – 1065
    Beta strandi108 – 1114
    Beta strandi113 – 1153
    Beta strandi119 – 1213
    Beta strandi122 – 1243
    Beta strandi126 – 1294
    Beta strandi130 – 1367
    Helixi138 – 15114
    Beta strandi156 – 1594
    Beta strandi161 – 1644

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1GIYX-ray5.50H26-177[»]
    1YL3X-ray5.50H24-177[»]
    2HGJX-ray5.00H1-180[»]
    2HGQX-ray5.50H1-180[»]
    2HGUX-ray4.51H1-180[»]
    2J01X-ray2.80H2-180[»]
    2J03X-ray2.80H2-180[»]
    2V47X-ray3.50H2-180[»]
    2V49X-ray3.50H2-180[»]
    2WDIX-ray3.30H1-180[»]
    2WDJX-ray3.30H1-180[»]
    2WDLX-ray3.50H1-180[»]
    2WDNX-ray3.50H1-180[»]
    2WH2X-ray3.45H1-180[»]
    2WH4X-ray3.45H1-180[»]
    2WRJX-ray3.60H1-180[»]
    2WRLX-ray3.60H1-180[»]
    2WROX-ray3.60H1-180[»]
    2WRRX-ray3.60H1-180[»]
    2X9SX-ray3.10H1-180[»]
    2X9UX-ray3.10H1-180[»]
    2XG0X-ray3.20H1-180[»]
    2XG2X-ray3.20H1-180[»]
    2XQEX-ray3.10H1-180[»]
    2XTGelectron microscopy7.80H1-180[»]
    2XUXelectron microscopy7.60H1-180[»]
    2Y0VX-ray3.10H1-180[»]
    2Y0XX-ray3.10H1-180[»]
    2Y0ZX-ray3.10H1-180[»]
    2Y11X-ray3.10H1-180[»]
    2Y13X-ray3.10H1-180[»]
    2Y15X-ray3.10H1-180[»]
    2Y17X-ray3.10H1-180[»]
    2Y19X-ray3.10H1-180[»]
    3FINelectron microscopy6.40H12-171[»]
    3HUXX-ray3.10H1-180[»]
    3HUZX-ray3.10H1-180[»]
    3I8FX-ray3.10H1-180[»]
    3I8IX-ray3.10H1-180[»]
    3I9CX-ray3.50H1-180[»]
    3I9EX-ray3.50H1-180[»]
    3KIRX-ray3.30H1-180[»]
    3KITX-ray3.30H1-180[»]
    3KIWX-ray3.60H1-180[»]
    3KIYX-ray3.60H1-180[»]
    3KNIX-ray3.00H1-180[»]
    3KNKX-ray3.00H1-180[»]
    3KNMX-ray3.45H1-180[»]
    3KNOX-ray3.45H1-180[»]
    3TVEX-ray3.10H2-171[»]
    3TVHX-ray3.10H2-171[»]
    3UXQX-ray3.20H1-180[»]
    3UXRX-ray3.20H1-180[»]
    3UYEX-ray3.00H1-180[»]
    3UYGX-ray3.00H1-180[»]
    3UZ1X-ray3.30H1-180[»]
    3UZ2X-ray3.30H1-180[»]
    3UZ8X-ray3.00H1-180[»]
    3UZ9X-ray3.00H1-180[»]
    3UZFX-ray3.30H1-180[»]
    3UZHX-ray3.30H1-180[»]
    3UZKX-ray3.30H1-180[»]
    3UZNX-ray3.30H1-180[»]
    3V23X-ray3.00H1-180[»]
    3V25X-ray3.00H1-180[»]
    3V27X-ray3.10H1-180[»]
    3V29X-ray3.10H1-180[»]
    3V2DX-ray2.70H1-180[»]
    3V2FX-ray2.70H1-180[»]
    3V6WX-ray3.90H1-180[»]
    3V6XX-ray3.90H1-180[»]
    3ZN9X-ray3.10H1-180[»]
    3ZNEX-ray3.10H1-180[»]
    3ZVPX-ray3.80H1-180[»]
    4ABSX-ray3.10H1-180[»]
    4B8GX-ray3.70H1-180[»]
    4B8IX-ray3.70H1-180[»]
    4BTDX-ray2.95H1-180[»]
    4BYCX-ray3.35H1-180[»]
    4BYEX-ray3.35H1-180[»]
    4DHAX-ray3.20H1-180[»]
    4DHCX-ray3.20H1-180[»]
    4EJBX-ray3.52H1-180[»]
    4EJCX-ray3.52H1-180[»]
    4G5LX-ray3.30H1-180[»]
    4G5NX-ray3.30H1-180[»]
    4G5UX-ray3.10H1-180[»]
    4G5WX-ray3.10H1-180[»]
    4JUXX-ray2.86H1-180[»]
    4K0MX-ray3.30H12-170[»]
    4K0QX-ray3.30H12-170[»]
    4NVVX-ray3.00H1-180[»]
    4NVXX-ray3.00H1-180[»]
    4NVZX-ray3.10H1-180[»]
    4NW1X-ray3.10H1-180[»]
    ProteinModelPortaliQ5SHQ3.
    SMRiQ5SHQ3. Positions 4-177.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ5SHQ3.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the ribosomal protein L6P family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0097.
    HOGENOMiHOG000039903.
    KOiK02933.
    OMAiAANKNAR.
    OrthoDBiEOG67DPRD.
    PhylomeDBiQ5SHQ3.

    Family and domain databases

    Gene3Di3.90.930.12. 2 hits.
    HAMAPiMF_01365_B. Ribosomal_L6_B.
    InterProiIPR000702. Ribosomal_L6.
    IPR020040. Ribosomal_L6_a/b-dom.
    IPR019906. Ribosomal_L6_bac-type.
    [Graphical view]
    PANTHERiPTHR11655. PTHR11655. 1 hit.
    PfamiPF00347. Ribosomal_L6. 2 hits.
    [Graphical view]
    PIRSFiPIRSF002162. Ribosomal_L6. 1 hit.
    PRINTSiPR00059. RIBOSOMALL6.
    SUPFAMiSSF56053. SSF56053. 2 hits.
    TIGRFAMsiTIGR03654. L6_bact. 1 hit.

    Sequencei

    Sequence statusi: Complete.

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

    Q5SHQ3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSRIGRLPIP VPKGVSVEVA PGRVKVKGPK GELEVPVSPE MRVVVEEGVV    50
    RVERPSDERR HKSLHGLTRT LIANAVKGVS EGYSKELLIK GIGYRARLVG 100
    RALELTVGFS HPVVVEPPEG ITFEVPEPTR VRVSGIDKQK VGQVAANIRA 150
    IRKPSAYHEK GIYYAGEPVR LKPGKAGAKK 180
    Length:180
    Mass (Da):19,532
    Last modified:January 23, 2007 - v3
    Checksum:i1913833C0C30E95D
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti16 – 161S → Q(PubMed:2029902)Curated
    Sequence conflicti18 – 181E → Q(PubMed:2029902)Curated
    Sequence conflicti19 – 202VA → AV AA sequence (PubMed:11154066)Curated
    Sequence conflicti20 – 201A → S(PubMed:2029902)Curated
    Sequence conflicti23 – 231R → L(PubMed:2029902)Curated
    Sequence conflicti25 – 251K → L AA sequence (PubMed:11154066)Curated
    Sequence conflicti27 – 271K → Y AA sequence (PubMed:11154066)Curated
    Sequence conflicti34 – 341E → S in CAA39899. (PubMed:2029902)Curated
    Sequence conflicti41 – 422MR → LK in CAA39899. (PubMed:2029902)Curated
    Sequence conflicti48 – 481G → N in CAA39899. (PubMed:2029902)Curated
    Sequence conflicti62 – 621K → R in CAA39899. (PubMed:2029902)Curated
    Sequence conflicti84 – 841S → V in CAA39899. (PubMed:2029902)Curated
    Sequence conflicti102 – 1032AL → SI in CAA39899. (PubMed:2029902)Curated
    Sequence conflicti131 – 1311V → I in CAA39899. (PubMed:2029902)Curated

    Mass spectrometryi

    Molecular mass is 19401 Da from positions 2 - 180. Determined by MALDI. 1 Publication

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP008226 Genomic DNA. Translation: BAD71500.1.
    X56552 Genomic DNA. Translation: CAA39899.1.
    PIRiS15442.
    RefSeqiWP_011173704.1. NC_006461.1.
    YP_144943.1. NC_006461.1.

    Genome annotation databases

    EnsemblBacteriaiBAD71500; BAD71500; BAD71500.
    GeneIDi3169807.
    KEGGittj:TTHA1677.
    PATRICi23958309. VBITheThe93045_1647.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP008226 Genomic DNA. Translation: BAD71500.1 .
    X56552 Genomic DNA. Translation: CAA39899.1 .
    PIRi S15442.
    RefSeqi WP_011173704.1. NC_006461.1.
    YP_144943.1. 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 H 26-177 [» ]
    1YL3 X-ray 5.50 H 24-177 [» ]
    2HGJ X-ray 5.00 H 1-180 [» ]
    2HGQ X-ray 5.50 H 1-180 [» ]
    2HGU X-ray 4.51 H 1-180 [» ]
    2J01 X-ray 2.80 H 2-180 [» ]
    2J03 X-ray 2.80 H 2-180 [» ]
    2V47 X-ray 3.50 H 2-180 [» ]
    2V49 X-ray 3.50 H 2-180 [» ]
    2WDI X-ray 3.30 H 1-180 [» ]
    2WDJ X-ray 3.30 H 1-180 [» ]
    2WDL X-ray 3.50 H 1-180 [» ]
    2WDN X-ray 3.50 H 1-180 [» ]
    2WH2 X-ray 3.45 H 1-180 [» ]
    2WH4 X-ray 3.45 H 1-180 [» ]
    2WRJ X-ray 3.60 H 1-180 [» ]
    2WRL X-ray 3.60 H 1-180 [» ]
    2WRO X-ray 3.60 H 1-180 [» ]
    2WRR X-ray 3.60 H 1-180 [» ]
    2X9S X-ray 3.10 H 1-180 [» ]
    2X9U X-ray 3.10 H 1-180 [» ]
    2XG0 X-ray 3.20 H 1-180 [» ]
    2XG2 X-ray 3.20 H 1-180 [» ]
    2XQE X-ray 3.10 H 1-180 [» ]
    2XTG electron microscopy 7.80 H 1-180 [» ]
    2XUX electron microscopy 7.60 H 1-180 [» ]
    2Y0V X-ray 3.10 H 1-180 [» ]
    2Y0X X-ray 3.10 H 1-180 [» ]
    2Y0Z X-ray 3.10 H 1-180 [» ]
    2Y11 X-ray 3.10 H 1-180 [» ]
    2Y13 X-ray 3.10 H 1-180 [» ]
    2Y15 X-ray 3.10 H 1-180 [» ]
    2Y17 X-ray 3.10 H 1-180 [» ]
    2Y19 X-ray 3.10 H 1-180 [» ]
    3FIN electron microscopy 6.40 H 12-171 [» ]
    3HUX X-ray 3.10 H 1-180 [» ]
    3HUZ X-ray 3.10 H 1-180 [» ]
    3I8F X-ray 3.10 H 1-180 [» ]
    3I8I X-ray 3.10 H 1-180 [» ]
    3I9C X-ray 3.50 H 1-180 [» ]
    3I9E X-ray 3.50 H 1-180 [» ]
    3KIR X-ray 3.30 H 1-180 [» ]
    3KIT X-ray 3.30 H 1-180 [» ]
    3KIW X-ray 3.60 H 1-180 [» ]
    3KIY X-ray 3.60 H 1-180 [» ]
    3KNI X-ray 3.00 H 1-180 [» ]
    3KNK X-ray 3.00 H 1-180 [» ]
    3KNM X-ray 3.45 H 1-180 [» ]
    3KNO X-ray 3.45 H 1-180 [» ]
    3TVE X-ray 3.10 H 2-171 [» ]
    3TVH X-ray 3.10 H 2-171 [» ]
    3UXQ X-ray 3.20 H 1-180 [» ]
    3UXR X-ray 3.20 H 1-180 [» ]
    3UYE X-ray 3.00 H 1-180 [» ]
    3UYG X-ray 3.00 H 1-180 [» ]
    3UZ1 X-ray 3.30 H 1-180 [» ]
    3UZ2 X-ray 3.30 H 1-180 [» ]
    3UZ8 X-ray 3.00 H 1-180 [» ]
    3UZ9 X-ray 3.00 H 1-180 [» ]
    3UZF X-ray 3.30 H 1-180 [» ]
    3UZH X-ray 3.30 H 1-180 [» ]
    3UZK X-ray 3.30 H 1-180 [» ]
    3UZN X-ray 3.30 H 1-180 [» ]
    3V23 X-ray 3.00 H 1-180 [» ]
    3V25 X-ray 3.00 H 1-180 [» ]
    3V27 X-ray 3.10 H 1-180 [» ]
    3V29 X-ray 3.10 H 1-180 [» ]
    3V2D X-ray 2.70 H 1-180 [» ]
    3V2F X-ray 2.70 H 1-180 [» ]
    3V6W X-ray 3.90 H 1-180 [» ]
    3V6X X-ray 3.90 H 1-180 [» ]
    3ZN9 X-ray 3.10 H 1-180 [» ]
    3ZNE X-ray 3.10 H 1-180 [» ]
    3ZVP X-ray 3.80 H 1-180 [» ]
    4ABS X-ray 3.10 H 1-180 [» ]
    4B8G X-ray 3.70 H 1-180 [» ]
    4B8I X-ray 3.70 H 1-180 [» ]
    4BTD X-ray 2.95 H 1-180 [» ]
    4BYC X-ray 3.35 H 1-180 [» ]
    4BYE X-ray 3.35 H 1-180 [» ]
    4DHA X-ray 3.20 H 1-180 [» ]
    4DHC X-ray 3.20 H 1-180 [» ]
    4EJB X-ray 3.52 H 1-180 [» ]
    4EJC X-ray 3.52 H 1-180 [» ]
    4G5L X-ray 3.30 H 1-180 [» ]
    4G5N X-ray 3.30 H 1-180 [» ]
    4G5U X-ray 3.10 H 1-180 [» ]
    4G5W X-ray 3.10 H 1-180 [» ]
    4JUX X-ray 2.86 H 1-180 [» ]
    4K0M X-ray 3.30 H 12-170 [» ]
    4K0Q X-ray 3.30 H 12-170 [» ]
    4NVV X-ray 3.00 H 1-180 [» ]
    4NVX X-ray 3.00 H 1-180 [» ]
    4NVZ X-ray 3.10 H 1-180 [» ]
    4NW1 X-ray 3.10 H 1-180 [» ]
    ProteinModelPortali Q5SHQ3.
    SMRi Q5SHQ3. Positions 4-177.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 300852.TTHA1677.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAD71500 ; BAD71500 ; BAD71500 .
    GeneIDi 3169807.
    KEGGi ttj:TTHA1677.
    PATRICi 23958309. VBITheThe93045_1647.

    Phylogenomic databases

    eggNOGi COG0097.
    HOGENOMi HOG000039903.
    KOi K02933.
    OMAi AANKNAR.
    OrthoDBi EOG67DPRD.
    PhylomeDBi Q5SHQ3.

    Enzyme and pathway databases

    BioCyci TTHE300852:GH8R-1716-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei Q5SHQ3.

    Family and domain databases

    Gene3Di 3.90.930.12. 2 hits.
    HAMAPi MF_01365_B. Ribosomal_L6_B.
    InterProi IPR000702. Ribosomal_L6.
    IPR020040. Ribosomal_L6_a/b-dom.
    IPR019906. Ribosomal_L6_bac-type.
    [Graphical view ]
    PANTHERi PTHR11655. PTHR11655. 1 hit.
    Pfami PF00347. Ribosomal_L6. 2 hits.
    [Graphical view ]
    PIRSFi PIRSF002162. Ribosomal_L6. 1 hit.
    PRINTSi PR00059. RIBOSOMALL6.
    SUPFAMi SSF56053. SSF56053. 2 hits.
    TIGRFAMsi TIGR03654. L6_bact. 1 hit.
    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. "Analysis of the spc ribosomal protein operon of Thermus aquaticus."
      Jahn O., Hartmann R.K., Erdmann V.A.
      Eur. J. Biochem. 197:733-740(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-131.
    3. "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 2-29.
    4. "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.
    5. "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.
    6. Cited for: X-RAY CRYSTALLOGRAPHY (5.5 ANGSTROMS) OF THE RIBOSOME.

    Entry informationi

    Entry nameiRL6_THET8
    AccessioniPrimary (citable) accession number: Q5SHQ3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 29, 2005
    Last sequence update: January 23, 2007
    Last modified: October 1, 2014
    This is version 87 of the entry and version 3 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