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P60405

- RL2_THET8

UniProt

P60405 - RL2_THET8

Protein

50S ribosomal protein L2

Gene

rplB

Organism
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 99 (01 Oct 2014)
      Sequence version 3 (23 Jan 2007)
      Previous versions | rss
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    Functioni

    One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial By similarity. Makes several contacts with the 16S rRNA (forming bridge B7b) in the 70S ribosome.By similarity

    GO - Molecular functioni

    1. rRNA binding Source: UniProtKB-HAMAP
    2. structural constituent of ribosome Source: InterPro
    3. transferase activity 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-1728-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    50S ribosomal protein L2
    Gene namesi
    Name:rplB
    Ordered Locus Names:TTHA1689
    OrganismiThermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
    Taxonomic identifieri300852 [NCBI]
    Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus
    ProteomesiUP000000532: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. large ribosomal subunit Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11Removed1 Publication
    Chaini2 – 27627550S ribosomal protein L2PRO_0000129641Add
    BLAST

    Interactioni

    Subunit structurei

    Part of the 50S ribosomal subunit. Forms a bridge to the 30S subunit in the 70S ribosome, contacting the 16S rRNA. May also make transient contacts with protein S6 during translation in the 70S ribosome.

    Protein-protein interaction databases

    STRINGi300852.TTHA1689.

    Structurei

    Secondary structure

    1
    276
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi3 – 53
    Beta strandi8 – 103
    Turni11 – 155
    Beta strandi17 – 193
    Turni22 – 243
    Beta strandi26 – 283
    Helixi31 – 333
    Beta strandi34 – 363
    Beta strandi43 – 486
    Beta strandi49 – 546
    Beta strandi61 – 633
    Helixi70 – 723
    Beta strandi77 – 837
    Beta strandi88 – 903
    Beta strandi92 – 976
    Beta strandi102 – 1065
    Beta strandi108 – 1103
    Beta strandi119 – 1235
    Beta strandi125 – 1284
    Beta strandi130 – 1323
    Helixi133 – 1353
    Beta strandi141 – 1488
    Turni149 – 1513
    Beta strandi153 – 1564
    Beta strandi158 – 1603
    Beta strandi163 – 1697
    Beta strandi172 – 1765
    Beta strandi178 – 1803
    Beta strandi182 – 1865
    Beta strandi190 – 1945
    Helixi199 – 2035
    Helixi209 – 2146
    Helixi223 – 2253
    Turni228 – 2303
    Beta strandi232 – 2343
    Beta strandi236 – 2394
    Beta strandi243 – 2453
    Beta strandi249 – 2513
    Beta strandi253 – 2564
    Helixi265 – 2695
    Beta strandi270 – 2723

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1GIYX-ray5.50D62-234[»]
    1YL3X-ray5.50D62-234[»]
    2HGJX-ray5.00D1-276[»]
    2HGQX-ray5.50D1-276[»]
    2HGUX-ray4.51D1-276[»]
    2J01X-ray2.80D2-276[»]
    2J03X-ray2.80D2-276[»]
    2V47X-ray3.50D2-276[»]
    2V49X-ray3.50D2-276[»]
    2WDIX-ray3.30D1-276[»]
    2WDJX-ray3.30D1-276[»]
    2WDLX-ray3.50D1-276[»]
    2WDNX-ray3.50D1-276[»]
    2WH2X-ray3.45D1-276[»]
    2WH4X-ray3.45D1-276[»]
    2WRJX-ray3.60D1-276[»]
    2WRLX-ray3.60D1-276[»]
    2WROX-ray3.60D1-276[»]
    2WRRX-ray3.60D1-276[»]
    2X9SX-ray3.10D1-276[»]
    2X9UX-ray3.10D1-276[»]
    2XG0X-ray3.20D1-276[»]
    2XG2X-ray3.20D1-276[»]
    2XQEX-ray3.10D1-276[»]
    2XTGelectron microscopy7.80D1-276[»]
    2XUXelectron microscopy7.60D1-276[»]
    2Y0VX-ray3.10D1-276[»]
    2Y0XX-ray3.10D1-276[»]
    2Y0ZX-ray3.10D1-276[»]
    2Y11X-ray3.10D1-276[»]
    2Y13X-ray3.10D1-276[»]
    2Y15X-ray3.10D1-276[»]
    2Y17X-ray3.10D1-276[»]
    2Y19X-ray3.10D1-276[»]
    3FINelectron microscopy6.40D2-273[»]
    3HUXX-ray3.10D1-276[»]
    3HUZX-ray3.10D1-276[»]
    3I8FX-ray3.10D1-276[»]
    3I8IX-ray3.10D1-276[»]
    3I9CX-ray3.50D1-276[»]
    3I9EX-ray3.50D1-276[»]
    3KIRX-ray3.30D1-276[»]
    3KITX-ray3.30D1-276[»]
    3KIWX-ray3.60D1-276[»]
    3KIYX-ray3.60D1-276[»]
    3KNIX-ray3.00D1-276[»]
    3KNKX-ray3.00D1-276[»]
    3KNMX-ray3.45D1-276[»]
    3KNOX-ray3.45D1-276[»]
    3OH5X-ray3.00D1-276[»]
    3OH7X-ray3.00D1-276[»]
    3OHJX-ray3.00D1-276[»]
    3OHKX-ray3.00D1-276[»]
    3OHZX-ray3.00D1-276[»]
    3OI1X-ray3.00D1-276[»]
    3OI3X-ray3.10D1-276[»]
    3OI5X-ray3.10D1-276[»]
    3TVEX-ray3.10D2-273[»]
    3TVHX-ray3.10D2-273[»]
    3UXQX-ray3.20D1-276[»]
    3UXRX-ray3.20D1-276[»]
    3UYEX-ray3.00D1-276[»]
    3UYGX-ray3.00D1-276[»]
    3UZ1X-ray3.30D1-276[»]
    3UZ2X-ray3.30D1-276[»]
    3UZ8X-ray3.00D1-276[»]
    3UZ9X-ray3.00D1-276[»]
    3UZFX-ray3.30D1-276[»]
    3UZHX-ray3.30D1-276[»]
    3UZKX-ray3.30D1-276[»]
    3UZNX-ray3.30D1-276[»]
    3V23X-ray3.00D1-276[»]
    3V25X-ray3.00D1-276[»]
    3V27X-ray3.10D1-276[»]
    3V29X-ray3.10D1-276[»]
    3V2DX-ray2.70D1-276[»]
    3V2FX-ray2.70D1-276[»]
    3V6WX-ray3.90D1-276[»]
    3V6XX-ray3.90D1-276[»]
    3ZN9X-ray3.10D1-276[»]
    3ZNEX-ray3.10D1-276[»]
    3ZVPX-ray3.80D1-276[»]
    4ABSX-ray3.10D1-276[»]
    4B8GX-ray3.70D1-276[»]
    4B8IX-ray3.70D1-276[»]
    4BTDX-ray2.95D2-276[»]
    4BYCX-ray3.35D1-276[»]
    4BYEX-ray3.35D1-276[»]
    4DHAX-ray3.20D1-276[»]
    4DHCX-ray3.20D1-276[»]
    4EJBX-ray3.52D1-276[»]
    4EJCX-ray3.52D1-276[»]
    4G5LX-ray3.30D1-276[»]
    4G5NX-ray3.30D1-276[»]
    4G5UX-ray3.10D1-276[»]
    4G5WX-ray3.10D1-276[»]
    4JUXX-ray2.86D1-276[»]
    4K0MX-ray3.30D2-272[»]
    4K0QX-ray3.30D2-272[»]
    4NVVX-ray3.00D1-276[»]
    4NVXX-ray3.00D1-276[»]
    4NVZX-ray3.10D1-276[»]
    4NW1X-ray3.10D1-276[»]
    ProteinModelPortaliP60405.
    SMRiP60405. Positions 2-273.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP60405.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the ribosomal protein L2P family.Curated

    Phylogenomic databases

    eggNOGiCOG0090.
    HOGENOMiHOG000232982.
    KOiK02886.
    OMAiSAMNPID.
    OrthoDBiEOG6TR0J1.
    PhylomeDBiP60405.

    Family and domain databases

    Gene3Di2.30.30.30. 1 hit.
    2.40.50.140. 1 hit.
    4.10.950.10. 1 hit.
    HAMAPiMF_01320_B. Ribosomal_L2_B.
    InterProiIPR012340. NA-bd_OB-fold.
    IPR022666. Rbsml_prot_L2_RNA-bd_dom.
    IPR014722. Rib_L2_dom2.
    IPR002171. Ribosomal_L2.
    IPR005880. Ribosomal_L2_bac/org-type.
    IPR022669. Ribosomal_L2_C.
    IPR022671. Ribosomal_L2_CS.
    IPR014726. Ribosomal_L2_dom3.
    IPR008991. Translation_prot_SH3-like.
    [Graphical view]
    PANTHERiPTHR13691. PTHR13691. 1 hit.
    PTHR13691:SF5. PTHR13691:SF5. 1 hit.
    PfamiPF00181. Ribosomal_L2. 1 hit.
    PF03947. Ribosomal_L2_C. 1 hit.
    [Graphical view]
    PIRSFiPIRSF002158. Ribosomal_L2. 1 hit.
    SUPFAMiSSF50104. SSF50104. 1 hit.
    SSF50249. SSF50249. 1 hit.
    TIGRFAMsiTIGR01171. rplB_bact. 1 hit.
    PROSITEiPS00467. RIBOSOMAL_L2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    P60405-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAVKKFKPYT PSRRFMTVAD FSEITKTEPE KSLVKPLKKT GGRNNQGRIT    50
    VRFRGGGHKR LYRIIDFKRW DKVGIPAKVA AIEYDPNRSA RIALLHYVDG 100
    EKRYIIAPDG LQVGQQVVAG PDAPIQVGNA LPLRFIPVGT VVHAVELEPK 150
    KGAKLARAAG TSAQIQGREG DYVILRLPSG ELRKVHGECY ATVGAVGNAD 200
    HKNIVLGKAG RSRWLGRRPH VRGAAMNPVD HPHGGGEGRA PRGRPPASPW 250
    GWQTKGLKTR KRRKPSSRFI IARRKK 276
    Length:276
    Mass (Da):30,468
    Last modified:January 23, 2007 - v3
    Checksum:i7CF40C2BD586349B
    GO

    Mass spectrometryi

    Molecular mass is 30337 Da from positions 2 - 276. Determined by MALDI. 1 Publication

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP008226 Genomic DNA. Translation: BAD71512.1.
    RefSeqiWP_011173712.1. NC_006461.1.
    YP_144955.1. NC_006461.1.

    Genome annotation databases

    EnsemblBacteriaiBAD71512; BAD71512; BAD71512.
    GeneIDi3168720.
    KEGGittj:TTHA1689.
    PATRICi23958333. VBITheThe93045_1659.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP008226 Genomic DNA. Translation: BAD71512.1 .
    RefSeqi WP_011173712.1. NC_006461.1.
    YP_144955.1. 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 D 62-234 [» ]
    1YL3 X-ray 5.50 D 62-234 [» ]
    2HGJ X-ray 5.00 D 1-276 [» ]
    2HGQ X-ray 5.50 D 1-276 [» ]
    2HGU X-ray 4.51 D 1-276 [» ]
    2J01 X-ray 2.80 D 2-276 [» ]
    2J03 X-ray 2.80 D 2-276 [» ]
    2V47 X-ray 3.50 D 2-276 [» ]
    2V49 X-ray 3.50 D 2-276 [» ]
    2WDI X-ray 3.30 D 1-276 [» ]
    2WDJ X-ray 3.30 D 1-276 [» ]
    2WDL X-ray 3.50 D 1-276 [» ]
    2WDN X-ray 3.50 D 1-276 [» ]
    2WH2 X-ray 3.45 D 1-276 [» ]
    2WH4 X-ray 3.45 D 1-276 [» ]
    2WRJ X-ray 3.60 D 1-276 [» ]
    2WRL X-ray 3.60 D 1-276 [» ]
    2WRO X-ray 3.60 D 1-276 [» ]
    2WRR X-ray 3.60 D 1-276 [» ]
    2X9S X-ray 3.10 D 1-276 [» ]
    2X9U X-ray 3.10 D 1-276 [» ]
    2XG0 X-ray 3.20 D 1-276 [» ]
    2XG2 X-ray 3.20 D 1-276 [» ]
    2XQE X-ray 3.10 D 1-276 [» ]
    2XTG electron microscopy 7.80 D 1-276 [» ]
    2XUX electron microscopy 7.60 D 1-276 [» ]
    2Y0V X-ray 3.10 D 1-276 [» ]
    2Y0X X-ray 3.10 D 1-276 [» ]
    2Y0Z X-ray 3.10 D 1-276 [» ]
    2Y11 X-ray 3.10 D 1-276 [» ]
    2Y13 X-ray 3.10 D 1-276 [» ]
    2Y15 X-ray 3.10 D 1-276 [» ]
    2Y17 X-ray 3.10 D 1-276 [» ]
    2Y19 X-ray 3.10 D 1-276 [» ]
    3FIN electron microscopy 6.40 D 2-273 [» ]
    3HUX X-ray 3.10 D 1-276 [» ]
    3HUZ X-ray 3.10 D 1-276 [» ]
    3I8F X-ray 3.10 D 1-276 [» ]
    3I8I X-ray 3.10 D 1-276 [» ]
    3I9C X-ray 3.50 D 1-276 [» ]
    3I9E X-ray 3.50 D 1-276 [» ]
    3KIR X-ray 3.30 D 1-276 [» ]
    3KIT X-ray 3.30 D 1-276 [» ]
    3KIW X-ray 3.60 D 1-276 [» ]
    3KIY X-ray 3.60 D 1-276 [» ]
    3KNI X-ray 3.00 D 1-276 [» ]
    3KNK X-ray 3.00 D 1-276 [» ]
    3KNM X-ray 3.45 D 1-276 [» ]
    3KNO X-ray 3.45 D 1-276 [» ]
    3OH5 X-ray 3.00 D 1-276 [» ]
    3OH7 X-ray 3.00 D 1-276 [» ]
    3OHJ X-ray 3.00 D 1-276 [» ]
    3OHK X-ray 3.00 D 1-276 [» ]
    3OHZ X-ray 3.00 D 1-276 [» ]
    3OI1 X-ray 3.00 D 1-276 [» ]
    3OI3 X-ray 3.10 D 1-276 [» ]
    3OI5 X-ray 3.10 D 1-276 [» ]
    3TVE X-ray 3.10 D 2-273 [» ]
    3TVH X-ray 3.10 D 2-273 [» ]
    3UXQ X-ray 3.20 D 1-276 [» ]
    3UXR X-ray 3.20 D 1-276 [» ]
    3UYE X-ray 3.00 D 1-276 [» ]
    3UYG X-ray 3.00 D 1-276 [» ]
    3UZ1 X-ray 3.30 D 1-276 [» ]
    3UZ2 X-ray 3.30 D 1-276 [» ]
    3UZ8 X-ray 3.00 D 1-276 [» ]
    3UZ9 X-ray 3.00 D 1-276 [» ]
    3UZF X-ray 3.30 D 1-276 [» ]
    3UZH X-ray 3.30 D 1-276 [» ]
    3UZK X-ray 3.30 D 1-276 [» ]
    3UZN X-ray 3.30 D 1-276 [» ]
    3V23 X-ray 3.00 D 1-276 [» ]
    3V25 X-ray 3.00 D 1-276 [» ]
    3V27 X-ray 3.10 D 1-276 [» ]
    3V29 X-ray 3.10 D 1-276 [» ]
    3V2D X-ray 2.70 D 1-276 [» ]
    3V2F X-ray 2.70 D 1-276 [» ]
    3V6W X-ray 3.90 D 1-276 [» ]
    3V6X X-ray 3.90 D 1-276 [» ]
    3ZN9 X-ray 3.10 D 1-276 [» ]
    3ZNE X-ray 3.10 D 1-276 [» ]
    3ZVP X-ray 3.80 D 1-276 [» ]
    4ABS X-ray 3.10 D 1-276 [» ]
    4B8G X-ray 3.70 D 1-276 [» ]
    4B8I X-ray 3.70 D 1-276 [» ]
    4BTD X-ray 2.95 D 2-276 [» ]
    4BYC X-ray 3.35 D 1-276 [» ]
    4BYE X-ray 3.35 D 1-276 [» ]
    4DHA X-ray 3.20 D 1-276 [» ]
    4DHC X-ray 3.20 D 1-276 [» ]
    4EJB X-ray 3.52 D 1-276 [» ]
    4EJC X-ray 3.52 D 1-276 [» ]
    4G5L X-ray 3.30 D 1-276 [» ]
    4G5N X-ray 3.30 D 1-276 [» ]
    4G5U X-ray 3.10 D 1-276 [» ]
    4G5W X-ray 3.10 D 1-276 [» ]
    4JUX X-ray 2.86 D 1-276 [» ]
    4K0M X-ray 3.30 D 2-272 [» ]
    4K0Q X-ray 3.30 D 2-272 [» ]
    4NVV X-ray 3.00 D 1-276 [» ]
    4NVX X-ray 3.00 D 1-276 [» ]
    4NVZ X-ray 3.10 D 1-276 [» ]
    4NW1 X-ray 3.10 D 1-276 [» ]
    ProteinModelPortali P60405.
    SMRi P60405. Positions 2-273.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 300852.TTHA1689.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAD71512 ; BAD71512 ; BAD71512 .
    GeneIDi 3168720.
    KEGGi ttj:TTHA1689.
    PATRICi 23958333. VBITheThe93045_1659.

    Phylogenomic databases

    eggNOGi COG0090.
    HOGENOMi HOG000232982.
    KOi K02886.
    OMAi SAMNPID.
    OrthoDBi EOG6TR0J1.
    PhylomeDBi P60405.

    Enzyme and pathway databases

    BioCyci TTHE300852:GH8R-1728-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei P60405.

    Family and domain databases

    Gene3Di 2.30.30.30. 1 hit.
    2.40.50.140. 1 hit.
    4.10.950.10. 1 hit.
    HAMAPi MF_01320_B. Ribosomal_L2_B.
    InterProi IPR012340. NA-bd_OB-fold.
    IPR022666. Rbsml_prot_L2_RNA-bd_dom.
    IPR014722. Rib_L2_dom2.
    IPR002171. Ribosomal_L2.
    IPR005880. Ribosomal_L2_bac/org-type.
    IPR022669. Ribosomal_L2_C.
    IPR022671. Ribosomal_L2_CS.
    IPR014726. Ribosomal_L2_dom3.
    IPR008991. Translation_prot_SH3-like.
    [Graphical view ]
    PANTHERi PTHR13691. PTHR13691. 1 hit.
    PTHR13691:SF5. PTHR13691:SF5. 1 hit.
    Pfami PF00181. Ribosomal_L2. 1 hit.
    PF03947. Ribosomal_L2_C. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF002158. Ribosomal_L2. 1 hit.
    SUPFAMi SSF50104. SSF50104. 1 hit.
    SSF50249. SSF50249. 1 hit.
    TIGRFAMsi TIGR01171. rplB_bact. 1 hit.
    PROSITEi PS00467. RIBOSOMAL_L2. 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 2-22.
    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, INTERSUBUNIT BRIDGE FORMATION.

    Entry informationi

    Entry nameiRL2_THET8
    AccessioniPrimary (citable) accession number: P60405
    Secondary accession number(s): Q5SHP1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 16, 2004
    Last sequence update: January 23, 2007
    Last modified: October 1, 2014
    This is version 99 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