Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Basket 0
(max 400 entries)x

Your basket is currently empty.

Select item(s) and click on "Add to basket" to create your own collection here
(400 entries max)

Q8U0H4

- RTCB_PYRFU

UniProt

Q8U0H4 - RTCB_PYRFU

Protein

tRNA-splicing ligase RtcB

Gene

rtcB

Organism
Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
    • BLAST
    • Align
    • Format
    • Add to basket
    • History
      Entry version 71 (01 Oct 2014)
      Sequence version 1 (01 Jun 2002)
      Previous versions | rss
    • Help video
    • Feedback
    • Comment

    Functioni

    tRNA-splicing ligase that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as an RNA ligase with broad substrate specificity, and may function toward other RNAs By similarity.By similarity

    Cofactori

    Binds 2 manganese ions per subunit.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi103 – 1031Manganese 1By similarity
    Metal bindingi106 – 1061Manganese 1By similarity
    Metal bindingi106 – 1061Manganese 2By similarity
    Metal bindingi692 – 6921Manganese 1By similarity
    Binding sitei695 – 6951GMPBy similarity
    Metal bindingi723 – 7231Manganese 2By similarity
    Metal bindingi818 – 8181Manganese 2By similarity
    Binding sitei874 – 8741GMPBy similarity
    Active sitei893 – 8931GMP-histidine intermediateBy similarity
    Binding sitei969 – 9691GMPBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi818 – 8192GMPBy similarity
    Nucleotide bindingi865 – 8684GMPBy similarity
    Nucleotide bindingi893 – 8964GMPBy similarity

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. endonuclease activity Source: UniProtKB-KW
    3. metal ion binding Source: UniProtKB-KW
    4. RNA ligase activity Source: InterPro

    GO - Biological processi

    1. intein-mediated protein splicing Source: InterPro
    2. intron homing Source: UniProtKB-KW
    3. tRNA processing Source: UniProtKB-KW

    Keywords - Molecular functioni

    Endonuclease, Hydrolase, Ligase, Nuclease

    Keywords - Biological processi

    Intron homing, tRNA processing

    Keywords - Ligandi

    DNA-binding, Manganese, Metal-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    tRNA-splicing ligase RtcB (EC:6.5.1.-)
    Cleaved into the following chain:
    Gene namesi
    Name:rtcB
    Ordered Locus Names:PF1615
    OrganismiPyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
    Taxonomic identifieri186497 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
    ProteomesiUP000001013: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 105105tRNA-splicing ligase RtcB, 1st partSequence AnalysisPRO_0000232532Add
    BLAST
    Chaini106 – 586481Pfu hyp2 inteinSequence AnalysisPRO_0000232533Add
    BLAST
    Chaini587 – 970384tRNA-splicing ligase RtcB, 2nd partSequence AnalysisPRO_0000232534Add
    BLAST

    Post-translational modificationi

    This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation.Curated

    Keywords - PTMi

    Autocatalytic cleavage, Protein splicing

    Proteomic databases

    PRIDEiQ8U0H4.

    Interactioni

    Subunit structurei

    Monomer.By similarity

    Protein-protein interaction databases

    IntActiQ8U0H4. 1 interaction.
    STRINGi186497.PF1615.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8U0H4.
    SMRiQ8U0H4. Positions 11-106, 586-970.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini256 – 420165DOD-type homing endonucleasePROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the RtcB family.Curated
    Contains 1 DOD-type homing endonuclease domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG1372.
    HOGENOMiHOG000296282.
    KOiK14415.
    OMAiVHNCGVR.

    Family and domain databases

    Gene3Di2.170.16.10. 3 hits.
    3.10.28.10. 2 hits.
    InterProiIPR028992. Hedgehog/Intein_dom.
    IPR003586. Hint_dom_C.
    IPR003587. Hint_dom_N.
    IPR027434. Homing_endonucl.
    IPR006142. INTEIN.
    IPR004042. Intein_endonuc.
    IPR006141. Intein_splice_site.
    IPR001233. RtcB.
    [Graphical view]
    PANTHERiPTHR11118. PTHR11118. 1 hit.
    PfamiPF14528. LAGLIDADG_3. 1 hit.
    PF01139. RtcB. 2 hits.
    [Graphical view]
    PRINTSiPR00379. INTEIN.
    SMARTiSM00305. HintC. 1 hit.
    SM00306. HintN. 1 hit.
    [Graphical view]
    SUPFAMiSSF103365. SSF103365. 2 hits.
    SSF51294. SSF51294. 3 hits.
    SSF55608. SSF55608. 1 hit.
    TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
    TIGR01445. intein_Nterm. 1 hit.
    PROSITEiPS50818. INTEIN_C_TER. 1 hit.
    PS50819. INTEIN_ENDONUCLEASE. 1 hit.
    PS50817. INTEIN_N_TER. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    Q8U0H4-1 [UniParc]FASTAAdd to Basket

    « Hide

    MIILRVVNVA VPLKRIDKIR WEIPKFDKRM KVPGRVYADD VLIEKMRQDR    50
    TLEQAANVAM LPGIYKYSIV MPDGHQGYGF PIGGVAAFDI KEGVISPGGI 100
    GYDINCLAPG TKVLTEHGYW LKIEEMPEKF KLQRLRLYNI EEGHNDFSRV 150
    AFVAERNIEK DETAIRIVTE TGTLIEGSED HPVLTPQGYV YLKNIKEGDY 200
    VIVYPFEGVP YEEKKGIIID ESAFEGEDPQ VIKFLKERNL LPLRWEDPKI 250
    GTLARILGFA LGDGHLGEMG GRLVLAFYGR EETLRELKKD LESLGIKANL 300
    YVREKNYRIK TESGEYSGKT VLAELRVSSR SFALLLEKLG MPRGEKTKKA 350
    YRIPVWIMEA PLWVKRNFLA GFFGADGSIV EFKGTTPLPI HLTQAKDVAL 400
    EENLKEFLYD ISRILEEFGV KTTIYKVNSK KSVTYRLSIV GEENIRNFLG 450
    KINYEYDPKK KAKGLIAYAY LKFKESVKKE RRKAMEISKK IYEETGNIDR 500
    AYKAVKDIVN RRFVERTIYE GERNPRVPKN FLTFEEFAKE RGYEGGFVAE 550
    KVVKVERIKP EYDRFYDIGV YHEAHNFIAN GIVVHNCGVR LIRTNLTEKD 600
    VRPKIKQLVD TLFKNVPSGV GSQGKVRLHW TQIDDVLVDG AKWAVDQGYG 650
    WERDLERLEE GGRMEGADPD AVSQRAKQRG APQLGSLGSG NHFLEVQVVD 700
    KIFDEEIAKA YGLFEGQVVV MVHTGSRGLG HQVASDYLRI MERAIRKYGI 750
    PWPDRELVSV PFQSEEGQRY FSAMKAAANF AWANRQMITH WVRESFQEVF 800
    RQDPEGDLGM EIVYDVAHNI GKVEEHEVDG KKVKVIVHRK GATRAFPPGH 850
    EAIPKIYRDV GQPVLIPGSM GTASYVLAGT EGAMAETFGS TCHGAGRVLS 900
    RAAATRQYRG DRIRDELLRR GIYVRAASMR VVAEEAPGAY KNVDNVVKVV 950
    SEAGIAKLVA RMRPIGVAKG 970
    Length:970
    Mass (Da):109,712
    Last modified:June 1, 2002 - v1
    Checksum:iCC0AEE4573CFE7C2
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE009950 Genomic DNA. Translation: AAL81739.1.
    RefSeqiNP_579344.1. NC_003413.1.

    Genome annotation databases

    EnsemblBacteriaiAAL81739; AAL81739; PF1615.
    GeneIDi1469492.
    KEGGipfu:PF1615.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE009950 Genomic DNA. Translation: AAL81739.1 .
    RefSeqi NP_579344.1. NC_003413.1.

    3D structure databases

    ProteinModelPortali Q8U0H4.
    SMRi Q8U0H4. Positions 11-106, 586-970.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi Q8U0H4. 1 interaction.
    STRINGi 186497.PF1615.

    Proteomic databases

    PRIDEi Q8U0H4.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAL81739 ; AAL81739 ; PF1615 .
    GeneIDi 1469492.
    KEGGi pfu:PF1615.

    Phylogenomic databases

    eggNOGi COG1372.
    HOGENOMi HOG000296282.
    KOi K14415.
    OMAi VHNCGVR.

    Family and domain databases

    Gene3Di 2.170.16.10. 3 hits.
    3.10.28.10. 2 hits.
    InterProi IPR028992. Hedgehog/Intein_dom.
    IPR003586. Hint_dom_C.
    IPR003587. Hint_dom_N.
    IPR027434. Homing_endonucl.
    IPR006142. INTEIN.
    IPR004042. Intein_endonuc.
    IPR006141. Intein_splice_site.
    IPR001233. RtcB.
    [Graphical view ]
    PANTHERi PTHR11118. PTHR11118. 1 hit.
    Pfami PF14528. LAGLIDADG_3. 1 hit.
    PF01139. RtcB. 2 hits.
    [Graphical view ]
    PRINTSi PR00379. INTEIN.
    SMARTi SM00305. HintC. 1 hit.
    SM00306. HintN. 1 hit.
    [Graphical view ]
    SUPFAMi SSF103365. SSF103365. 2 hits.
    SSF51294. SSF51294. 3 hits.
    SSF55608. SSF55608. 1 hit.
    TIGRFAMsi TIGR01443. intein_Cterm. 1 hit.
    TIGR01445. intein_Nterm. 1 hit.
    PROSITEi PS50818. INTEIN_C_TER. 1 hit.
    PS50819. INTEIN_ENDONUCLEASE. 1 hit.
    PS50817. INTEIN_N_TER. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Divergence of the hyperthermophilic archaea Pyrococcus furiosus and P. horikoshii inferred from complete genomic sequences."
      Maeder D.L., Weiss R.B., Dunn D.M., Cherry J.L., Gonzalez J.M., DiRuggiero J., Robb F.T.
      Genetics 152:1299-1305(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 43587 / DSM 3638 / JCM 8422 / Vc1.

    Entry informationi

    Entry nameiRTCB_PYRFU
    AccessioniPrimary (citable) accession number: Q8U0H4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 18, 2006
    Last sequence update: June 1, 2002
    Last modified: October 1, 2014
    This is version 71 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Ligation proceeds through 3 nucleotidyl transfer steps, with 2',3'-cyclic phosphate termini being hydrolyzed to 3'-P termini in a step that precedes 3'-P activation with GMP. In the first nucleotidyl transfer step, RtcB reacts with GTP to form a covalent RtcB-histidine-GMP intermediate with release of PPi; in the second step, the GMP moiety is transferred to the RNA 3'-P; in the third step, the 5'-OH from the opposite RNA strand attacks the activated 3'-P to form a 3',5'-phosphodiester bond and release GMP By similarity.By similarity

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Intein-containing proteins
      List of intein-containing protein entries
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3