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Q9V168 (RTCB_PYRAB) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 74. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
tRNA-splicing ligase RtcB

EC=6.5.1.-

Cleaved into the following chain:

  1. Pab hyp2 intein
    EC=3.1.-.-
Gene names
Name:rtcB
Ordered Locus Names:PYRAB05600
ORF Names:PAB0383
OrganismPyrococcus abyssi (strain GE5 / Orsay) [Complete proteome] [HAMAP]
Taxonomic identifier272844 [NCBI]
Taxonomic lineageArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus

Protein attributes

Sequence length916 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceInferred from homology

General annotation (Comments)

Function

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.

Subunit structure

Monomer By similarity.

Post-translational modification

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

Sequence similarities

Belongs to the RtcB family.

Contains 1 DOD-type homing endonuclease domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 9797tRNA-splicing ligase RtcB, 1st part Potential
PRO_0000232529
Chain98 – 533436Pab hyp2 intein Potential
PRO_0000232530
Chain534 – 916383tRNA-splicing ligase RtcB, 2nd part Potential
PRO_0000232531

Regions

Domain248 – 409162DOD-type homing endonuclease

Sites

Metal binding5341Zinc Potential
Metal binding6391Zinc Potential
Metal binding6701Zinc Potential

Sequences

Sequence LengthMass (Da)Tools
Q9V168 [UniParc].

Last modified May 1, 2000. Version 1.
Checksum: 32DB1F28BE85155A

FASTA916102,456
        10         20         30         40         50         60 
MTVPLKRIDK IRWEIPKFDK RMRVPGRVYA DDVLLEKMKS DRTLEQAANV AMLPGIYKYS 

        70         80         90        100        110        120 
IVMPDGHQGY GFPIGGVAAF DVNEGVISPG GIGYDINCLA PGSKVLTEHG YWLKVEELPE 

       130        140        150        160        170        180 
KFKLQGVKVY NLDEGHNDTS NVAFVAEREV ETGEMAVRVT TESGRIIEGS EDHPVLTPEG 

       190        200        210        220        230        240 
YVYLGNLKEG NLVIVYPFEG VEYEERKGVI LDEDAFKDED PQVLSFLREK GLVPLRWDDP 

       250        260        270        280        290        300 
RIGTIARILG FAFGDGYLGE MGGRLTLTFY GKEETLRELK KDLERLGISA NLYVRESIET 

       310        320        330        340        350        360 
TSGHSEGKSL SIELRVTSRS FALFLEKLGM PRGKKTEKAY RVPGWILEAP LWVKRNFLAG 

       370        380        390        400        410        420 
LFAADGSIVE FKGNTPLPIN LTQSKSDELA ENLVEFLGDV AKLLAEFGIE TTLYEVKSKK 

       430        440        450        460        470        480 
GVTYRLSIVG EDSIRTFVER INYEYDPEKK VKGLIAAAYL KLKERIVKEA HEAVKDDFPT 

       490        500        510        520        530        540 
FEEFAKERGY EGGFVAEKVV KVERVKPEYT KFYDIGVYHE AHNFIANGIV VHNCGVRLIR 

       550        560        570        580        590        600 
TNLTEKDVRP RIKQLVDTLF KNVPSGVGSQ GRVRLHWTQI DDVLVDGAKW AVDNGYGWEE 

       610        620        630        640        650        660 
DLERLEEGGR MEGADPDAVS QRAKQRGAPQ LGSLGSGNHF LEVQVVDKIF DPEVAKVYGL 

       670        680        690        700        710        720 
FEGQVVVMVH TGSRGLGHQV ASDYLRIMER AIRKYRIPWP DRELVSVPFQ SEEGQRYFSA 

       730        740        750        760        770        780 
MKAAANFAWA NRQMITHWVR ESFQEVFRQD PEDLGMSIVY DVAHNIGKVE EHEVDGKKVK 

       790        800        810        820        830        840 
VIVHRKGATR AFPPGHEAIP KIYRDVGQPV LIPGSMGTAS YVLAGTEGAM KETFGSTCHG 

       850        860        870        880        890        900 
AGRVLSRKAA TRQYRGDRIR QELLNRGIYV RAASMRVVAE EAPGAYKNVD NVVKVVSEAG 

       910 
IAKLVARMRP IGVAKG 

« Hide

References

« Hide 'large scale' references
[1]"An integrated analysis of the genome of the hyperthermophilic archaeon Pyrococcus abyssi."
Cohen G.N., Barbe V., Flament D., Galperin M., Heilig R., Lecompte O., Poch O., Prieur D., Querellou J., Ripp R., Thierry J.-C., Van der Oost J., Weissenbach J., Zivanovic Y., Forterre P.
Mol. Microbiol. 47:1495-1512(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: GE5 / Orsay.
[2]"Re-annotation of two hyperthermophilic archaea Pyrococcus abyssi GE5 and Pyrococcus furiosus DSM 3638."
Gao J., Wang J.
Curr. Microbiol. 64:118-129(2012) [PubMed] [Europe PMC] [Abstract]
Cited for: GENOME REANNOTATION.
Strain: GE5 / Orsay.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AJ248284 Genomic DNA. Translation: CAB49482.1.
HE613800 Genomic DNA. Translation: CCE69950.1.
PIRC75175.
RefSeqNP_126251.1. NC_000868.1.

3D structure databases

ProteinModelPortalQ9V168.
SMRQ9V168. Positions 3-98, 533-916.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING272844.PAB0383.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaCAB49482; CAB49482; PAB0383.
GeneID1495463.
KEGGpab:PAB0383.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1372.
HOGENOMHOG000296282.
KOK14415.
OMAVHNCGVR.
ProtClustDBCLSK785498.

Family and domain databases

Gene3D3.10.28.10. 2 hits.
InterProIPR003586. Hint_dom_C.
IPR003587. Hint_dom_N.
IPR027434. Homing_endonucl.
IPR006142. INTEIN.
IPR004042. Intein_endonuc.
IPR006141. Intein_splice_site.
IPR001233. RtcB.
[Graphical view]
PANTHERPTHR11118. PTHR11118. 1 hit.
PfamPF14528. LAGLIDADG_3. 2 hits.
PF01139. RtcB. 2 hits.
[Graphical view]
PRINTSPR00379. INTEIN.
SMARTSM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
[Graphical view]
SUPFAMSSF103365. SSF103365. 2 hits.
SSF55608. SSF55608. 1 hit.
TIGRFAMsTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
PROSITEPS50818. INTEIN_C_TER. 1 hit.
PS50819. INTEIN_ENDONUCLEASE. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameRTCB_PYRAB
AccessionPrimary (citable) accession number: Q9V168
Secondary accession number(s): G8ZJ23
Entry history
Integrated into UniProtKB/Swiss-Prot: April 18, 2006
Last sequence update: May 1, 2000
Last modified: April 16, 2014
This is version 74 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Intein-containing proteins

List of intein-containing protein entries