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Q9V168

- RTCB_PYRAB

UniProt

Q9V168 - RTCB_PYRAB

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Protein
tRNA-splicing ligase RtcB
Gene
rtcB, PYRAB05600, PAB0383
Organism
Pyrococcus abyssi (strain GE5 / Orsay)
Status
Reviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

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.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi534 – 5341Zinc Reviewed prediction
Metal bindingi639 – 6391Zinc Reviewed prediction
Metal bindingi670 – 6701Zinc Reviewed prediction

GO - Molecular functioni

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

GO - Biological processi

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

Keywords - Molecular functioni

Endonuclease, Hydrolase, Ligase, Nuclease

Keywords - Biological processi

Intron homing, tRNA processing

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

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:PYRAB05600
ORF Names:PAB0383
OrganismiPyrococcus abyssi (strain GE5 / Orsay)
Taxonomic identifieri272844 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
ProteomesiUP000000810: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 9797tRNA-splicing ligase RtcB, 1st part Reviewed prediction
PRO_0000232529Add
BLAST
Chaini98 – 533436Pab hyp2 intein Reviewed prediction
PRO_0000232530Add
BLAST
Chaini534 – 916383tRNA-splicing ligase RtcB, 2nd part Reviewed prediction
PRO_0000232531Add
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 Reviewed prediction.

Keywords - PTMi

Autocatalytic cleavage, Protein splicing

Interactioni

Subunit structurei

Monomer By similarity.

Protein-protein interaction databases

STRINGi272844.PAB0383.

Structurei

3D structure databases

ProteinModelPortaliQ9V168.
SMRiQ9V168. Positions 3-98, 533-916.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini248 – 409162DOD-type homing endonuclease
Add
BLAST

Sequence similaritiesi

Belongs to the RtcB family.

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. 2 hits.
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.

Q9V168-1 [UniParc]FASTAAdd to Basket

« Hide

MTVPLKRIDK IRWEIPKFDK RMRVPGRVYA DDVLLEKMKS DRTLEQAANV    50
AMLPGIYKYS IVMPDGHQGY GFPIGGVAAF DVNEGVISPG GIGYDINCLA 100
PGSKVLTEHG YWLKVEELPE KFKLQGVKVY NLDEGHNDTS NVAFVAEREV 150
ETGEMAVRVT TESGRIIEGS EDHPVLTPEG YVYLGNLKEG NLVIVYPFEG 200
VEYEERKGVI LDEDAFKDED PQVLSFLREK GLVPLRWDDP RIGTIARILG 250
FAFGDGYLGE MGGRLTLTFY GKEETLRELK KDLERLGISA NLYVRESIET 300
TSGHSEGKSL SIELRVTSRS FALFLEKLGM PRGKKTEKAY RVPGWILEAP 350
LWVKRNFLAG LFAADGSIVE FKGNTPLPIN LTQSKSDELA ENLVEFLGDV 400
AKLLAEFGIE TTLYEVKSKK GVTYRLSIVG EDSIRTFVER INYEYDPEKK 450
VKGLIAAAYL KLKERIVKEA HEAVKDDFPT FEEFAKERGY EGGFVAEKVV 500
KVERVKPEYT KFYDIGVYHE AHNFIANGIV VHNCGVRLIR TNLTEKDVRP 550
RIKQLVDTLF KNVPSGVGSQ GRVRLHWTQI DDVLVDGAKW AVDNGYGWEE 600
DLERLEEGGR MEGADPDAVS QRAKQRGAPQ LGSLGSGNHF LEVQVVDKIF 650
DPEVAKVYGL FEGQVVVMVH TGSRGLGHQV ASDYLRIMER AIRKYRIPWP 700
DRELVSVPFQ SEEGQRYFSA MKAAANFAWA NRQMITHWVR ESFQEVFRQD 750
PEDLGMSIVY DVAHNIGKVE EHEVDGKKVK VIVHRKGATR AFPPGHEAIP 800
KIYRDVGQPV LIPGSMGTAS YVLAGTEGAM KETFGSTCHG AGRVLSRKAA 850
TRQYRGDRIR QELLNRGIYV RAASMRVVAE EAPGAYKNVD NVVKVVSEAG 900
IAKLVARMRP IGVAKG 916
Length:916
Mass (Da):102,456
Last modified:May 1, 2000 - v1
Checksum:i32DB1F28BE85155A
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AJ248284 Genomic DNA. Translation: CAB49482.1.
HE613800 Genomic DNA. Translation: CCE69950.1.
PIRiC75175.
RefSeqiNP_126251.1. NC_000868.1.
WP_010867684.1. NC_000868.1.

Genome annotation databases

EnsemblBacteriaiCAB49482; CAB49482; PAB0383.
GeneIDi1495463.
KEGGipab:PAB0383.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AJ248284 Genomic DNA. Translation: CAB49482.1 .
HE613800 Genomic DNA. Translation: CCE69950.1 .
PIRi C75175.
RefSeqi NP_126251.1. NC_000868.1.
WP_010867684.1. NC_000868.1.

3D structure databases

ProteinModelPortali Q9V168.
SMRi Q9V168. Positions 3-98, 533-916.
ModBasei Search...

Protein-protein interaction databases

STRINGi 272844.PAB0383.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CAB49482 ; CAB49482 ; PAB0383 .
GeneIDi 1495463.
KEGGi pab:PAB0383.

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. 2 hits.
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

« Hide 'large scale' publications
  1. 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.

Entry informationi

Entry nameiRTCB_PYRAB
AccessioniPrimary (citable) accession number: Q9V168
Secondary accession number(s): G8ZJ23
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 18, 2006
Last sequence update: May 1, 2000
Last modified: September 3, 2014
This is version 77 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete 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

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