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Protein

tRNA-splicing endonuclease subunit Sen34

Gene

Tsen34

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Constitutes one of the two catalytic subunit of the tRNA-splicing endonuclease complex, a complex responsible for identification and cleavage of the splice sites in pre-tRNA. It cleaves pre-tRNA at the 5'- and 3'-splice sites to release the intron. The products are an intron and two tRNA half-molecules bearing 2',3'-cyclic phosphate and 5'-OH termini. There are no conserved sequences at the splice sites, but the intron is invariably located at the same site in the gene, placing the splice sites an invariant distance from the constant structural features of the tRNA body. The tRNA splicing endonuclease is also involved in mRNA processing via its association with pre-mRNA 3'-end processing factors, establishing a link between pre-tRNA splicing and pre-mRNA 3'-end formation, suggesting that the endonuclease subunits function in multiple RNA-processing events (By similarity).By similarity

Catalytic activityi

PretRNA = a 3'-half-tRNA molecule with a 5'-OH end + a 5'-half-tRNA molecule with a 2',3'-cyclic phosphate end + an intron with a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei253 – 2531By similarity
Active sitei261 – 2611By similarity
Active sitei292 – 2921By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

mRNA processing, tRNA processing

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA-splicing endonuclease subunit Sen34 (EC:4.6.1.16)
Alternative name(s):
Leukocyte receptor cluster member 5 homolog
tRNA-intron endonuclease Sen34
Gene namesi
Name:Tsen34
Synonyms:Leng5, Sen34
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 7

Organism-specific databases

MGIiMGI:1913328. Tsen34.

Subcellular locationi

  • Nucleus By similarity
  • Nucleusnucleolus By similarity

  • Note: May be transiently localized in the nucleolus.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 316316tRNA-splicing endonuclease subunit Sen34PRO_0000109464Add
BLAST

Proteomic databases

MaxQBiQ8BMZ5.
PaxDbiQ8BMZ5.
PRIDEiQ8BMZ5.

PTM databases

PhosphoSiteiQ8BMZ5.

Expressioni

Gene expression databases

BgeeiQ8BMZ5.
ExpressionAtlasiQ8BMZ5. baseline and differential.
GenevisibleiQ8BMZ5. MM.

Interactioni

Subunit structurei

tRNA splicing endonuclease is a heterotetramer composed of SEN2, SEN15, SEN34/LENG5 and SEN54. tRNA splicing endonuclease complex also contains proteins of the pre-mRNA 3'-end processing machinery such as CLP1, CPSF1, CPSF4 and CSTF2 (By similarity).By similarity

Protein-protein interaction databases

IntActiQ8BMZ5. 1 interaction.
STRINGi10090.ENSMUSP00000104267.

Structurei

3D structure databases

ProteinModelPortaliQ8BMZ5.
SMRiQ8BMZ5. Positions 203-312.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the tRNA-intron endonuclease family.Curated

Phylogenomic databases

eggNOGiCOG1676.
GeneTreeiENSGT00390000003912.
HOGENOMiHOG000232197.
HOVERGENiHBG054846.
InParanoidiQ8BMZ5.
KOiK15323.
OMAiRTFSIEW.
OrthoDBiEOG75XGMQ.
PhylomeDBiQ8BMZ5.
TreeFamiTF314631.

Family and domain databases

Gene3Di3.40.1350.10. 1 hit.
InterProiIPR011856. tRNA_endonuc-like_dom.
IPR006677. tRNA_intron_Endonuc_cat-like.
IPR006676. tRNA_splic.
IPR016690. tRNA_splic_SEN34.
[Graphical view]
PfamiPF01974. tRNA_int_endo. 1 hit.
[Graphical view]
PIRSFiPIRSF017250. tRNA_splic_SEN34. 1 hit.
SUPFAMiSSF53032. SSF53032. 1 hit.
TIGRFAMsiTIGR00324. endA. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8BMZ5-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MLVVEVANGR SLVWGAEAVQ ALRERLGVGG RTVGALPRGP RQNSRLGLPL
60 70 80 90 100
LLLPEEARLL AEIGAVTLVS APRPDPRNHG LALASFKRQQ EQSFQDQNTL
110 120 130 140 150
AAEARETRRQ ELLEKIVEGQ AAKKQKLEQD SGADEGGQEA GGSEATQGSE
160 170 180 190 200
TSDDGQPSAE QEGAAPSLDS SSPQPGPSNG VTPLPRSALL IQLATARPRP
210 220 230 240 250
VKAKPLDWRV QSKDWPHAGR PAHELRYSIY RDLWERGFFL SAAGKFGGDF
260 270 280 290 300
LVYPGDPLRF HAHYIAQCWS AEDPIPLQDL VSAGRLGTSV RKTLLLCSPQ
310
PDGKVVYTSL QWASLQ
Length:316
Mass (Da):34,196
Last modified:July 19, 2004 - v2
Checksum:i86A169BC119F7AC3
GO
Isoform 2 (identifier: Q8BMZ5-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     255-283: Missing.

Note: No experimental confirmation available.
Show »
Length:287
Mass (Da):30,964
Checksum:i0692A1E911014158
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti20 – 201Q → L in BAB28747 (PubMed:16141072).Curated
Sequence conflicti280 – 2801L → Q in BAB28747 (PubMed:16141072).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei255 – 28329Missing in isoform 2. 1 PublicationVSP_010987Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK003757 mRNA. Translation: BAC25051.1.
AK013253 mRNA. Translation: BAB28747.1.
AK053916 mRNA. Translation: BAC35591.1.
BC002205 mRNA. Translation: AAH02205.1.
BC091756 mRNA. Translation: AAH91756.1.
CCDSiCCDS20725.1. [Q8BMZ5-1]
CCDS51966.1. [Q8BMZ5-2]
RefSeqiNP_001157676.1. NM_001164204.1. [Q8BMZ5-1]
NP_001157677.1. NM_001164205.1. [Q8BMZ5-2]
NP_077130.1. NM_024168.2. [Q8BMZ5-1]
UniGeneiMm.379100.

Genome annotation databases

EnsembliENSMUST00000108627; ENSMUSP00000104267; ENSMUSG00000035585. [Q8BMZ5-1]
ENSMUST00000108629; ENSMUSP00000104269; ENSMUSG00000035585. [Q8BMZ5-2]
ENSMUST00000108630; ENSMUSP00000104270; ENSMUSG00000035585. [Q8BMZ5-1]
GeneIDi66078.
KEGGimmu:66078.
UCSCiuc009evu.2. mouse. [Q8BMZ5-2]
uc009evv.2. mouse. [Q8BMZ5-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK003757 mRNA. Translation: BAC25051.1.
AK013253 mRNA. Translation: BAB28747.1.
AK053916 mRNA. Translation: BAC35591.1.
BC002205 mRNA. Translation: AAH02205.1.
BC091756 mRNA. Translation: AAH91756.1.
CCDSiCCDS20725.1. [Q8BMZ5-1]
CCDS51966.1. [Q8BMZ5-2]
RefSeqiNP_001157676.1. NM_001164204.1. [Q8BMZ5-1]
NP_001157677.1. NM_001164205.1. [Q8BMZ5-2]
NP_077130.1. NM_024168.2. [Q8BMZ5-1]
UniGeneiMm.379100.

3D structure databases

ProteinModelPortaliQ8BMZ5.
SMRiQ8BMZ5. Positions 203-312.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ8BMZ5. 1 interaction.
STRINGi10090.ENSMUSP00000104267.

PTM databases

PhosphoSiteiQ8BMZ5.

Proteomic databases

MaxQBiQ8BMZ5.
PaxDbiQ8BMZ5.
PRIDEiQ8BMZ5.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000108627; ENSMUSP00000104267; ENSMUSG00000035585. [Q8BMZ5-1]
ENSMUST00000108629; ENSMUSP00000104269; ENSMUSG00000035585. [Q8BMZ5-2]
ENSMUST00000108630; ENSMUSP00000104270; ENSMUSG00000035585. [Q8BMZ5-1]
GeneIDi66078.
KEGGimmu:66078.
UCSCiuc009evu.2. mouse. [Q8BMZ5-2]
uc009evv.2. mouse. [Q8BMZ5-1]

Organism-specific databases

CTDi79042.
MGIiMGI:1913328. Tsen34.

Phylogenomic databases

eggNOGiCOG1676.
GeneTreeiENSGT00390000003912.
HOGENOMiHOG000232197.
HOVERGENiHBG054846.
InParanoidiQ8BMZ5.
KOiK15323.
OMAiRTFSIEW.
OrthoDBiEOG75XGMQ.
PhylomeDBiQ8BMZ5.
TreeFamiTF314631.

Miscellaneous databases

NextBioi320564.
PROiQ8BMZ5.
SOURCEiSearch...

Gene expression databases

BgeeiQ8BMZ5.
ExpressionAtlasiQ8BMZ5. baseline and differential.
GenevisibleiQ8BMZ5. MM.

Family and domain databases

Gene3Di3.40.1350.10. 1 hit.
InterProiIPR011856. tRNA_endonuc-like_dom.
IPR006677. tRNA_intron_Endonuc_cat-like.
IPR006676. tRNA_splic.
IPR016690. tRNA_splic_SEN34.
[Graphical view]
PfamiPF01974. tRNA_int_endo. 1 hit.
[Graphical view]
PIRSFiPIRSF017250. tRNA_splic_SEN34. 1 hit.
SUPFAMiSSF53032. SSF53032. 1 hit.
TIGRFAMsiTIGR00324. endA. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
    Strain: C57BL/6J.
    Tissue: Embryo and Oviduct.
  2. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Strain: FVB/N.
    Tissue: Salivary gland.

Entry informationi

Entry nameiSEN34_MOUSE
AccessioniPrimary (citable) accession number: Q8BMZ5
Secondary accession number(s): Q58EU2, Q99LV6, Q9CYW1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 19, 2004
Last sequence update: July 19, 2004
Last modified: June 24, 2015
This is version 101 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.