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Q3UA06 (PCH2_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 76. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Pachytene checkpoint protein 2 homolog
Alternative name(s):
Thyroid hormone receptor interactor 13
Thyroid receptor-interacting protein 13
Short name=TR-interacting protein 13
Short name=TRIP-13
Gene names
Name:Trip13
Synonyms:Pch2
OrganismMus musculus (Mouse) [Reference proteome]
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus

Protein attributes

Sequence length432 AA.
Sequence statusComplete.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

Plays a key role in chromosome recombination and chromosome structure development during meiosis. Required at early steps in meiotic recombination that leads to non-crossovers pathways. Also needed for efficient completion of homologous synapsis by influencing crossover distribution along the chromosomes affecting both crossovers and non-crossovers pathways. Also required for development of higher-order chromosome structures and is needed for synaptonemal-complex formation. In males, required for efficient synapsis of the sex chromosomes and for sex body formation. Promotes early steps of the DNA double-strand breaks (DSBs) repair process upstream of the assembly of RAD51 complexes. Required for depletion of HORMAD1 and HORMAD2 from synapsed chromosomes. Ref.5 Ref.6 Ref.7

Subunit structure

Specifically interacts with the ligand binding domain of the thyroid receptor (TR). This interaction does not require the presence of thyroid hormone for its interaction By similarity.

Tissue specificity

Widely expressed, including in testis. Ref.7

Disruption phenotype

Mice develop normally without obvious somatic defects but males and females are sterile due to meiotic disruption in meiocytes. Homozygous mutants display small gonads and females have few or no follicles, due to oocyte elimination between pachynema and dictyate. Mutant testes display reduced populated tubules and spermatogenesis is mainly arrested at spermatocyte stages of epithelial stage IV, corresponding to pachynema. Different phenotypes are observed in the different knockout experiments tested. In Trip13(RRB047) mutant mice, also named Trip13(mod) allele for moderate, the number of crossovers are not affected and meiocytes undergo homologous chromosome synapsis despide the presence of unrepaired DSBs in pachynema. Using a more severe mutant allele, named Trip13(sev) for severe, additional defects are observed: the numbers of crossovers and chiasmata are reduced in the absence of TRIP13, and their distribution along the chromosomes is altered (Ref.7). Autosomal bivalents in meiocytes frequently display pericentric synaptic forks and other defects (Ref.7). Recombination defects are evident very early in meiotic prophase, soon after DSB formation (Ref.7). These results suggest that the absence of defects in the number of crossovers observed in Trip13(RRB047) mutant is due to the use of a weak hypomorphic mutant allele. Ref.5 Ref.7

Sequence similarities

Belongs to the AAA ATPase family. PCH2 subfamily.

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q3UA06-1)

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.
Isoform 2 (identifier: Q3UA06-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-231: Missing.
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 432432Pachytene checkpoint protein 2 homolog
PRO_0000084783

Regions

Nucleotide binding179 – 1868ATP Potential

Amino acid modifications

Modified residue11N-acetylmethionine By similarity

Natural variations

Alternative sequence1 – 231231Missing in isoform 2.
VSP_041559

Experimental info

Sequence conflict1481H → R in BAB26861. Ref.1
Sequence conflict2741I → F in BAB26861. Ref.1
Sequence conflict4091G → S in BAE25076. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified October 11, 2005. Version 1.
Checksum: 4427E94AF4D733DB

FASTA43248,377
        10         20         30         40         50         60 
MDEAVGDLKQ ALPCVAESPA VHVEVLQRSG STAKKEDIKS SVYRLLNRHN IVFGDYVWTE 

        70         80         90        100        110        120 
FDDPFLSRNV QSVSIVDTEL KAKDPQPIDL SACTIALHIF QLNEEGPSSE NLDEETENII 

       130        140        150        160        170        180 
AASHWVLPAA EFHGLWDSLV YDVEVKSHLL DYVMTTVLFS DKNVDSNLIT WNRVVLLHGP 

       190        200        210        220        230        240 
PGTGKTSLCK ALAQKLTIRL SSRYRYGQLI EINSHSLFSK WFSESGKLVT KMFQKIQDLI 

       250        260        270        280        290        300 
DDKEALVFVL IDEVESLTAA RNACRAGAEP SDAIRVVNAV LTQIDQIKRH SNVVILTTSN 

       310        320        330        340        350        360 
ITEKIDVAFV DRADIKQYIG PPSAAAIFKI YLSCLEELMK CQIIYPRQQL LTLRELEMIG 

       370        380        390        400        410        420 
FIENNVSKLS LLLSEISRKS EGLSGRVLRK LPFLAHALYI QAPSVTIEGF LQALSLAVDK 

       430 
QFEEKKKLSA YV 

« Hide

Isoform 2 [UniParc].

Checksum: 29169AB648C9963C
Show »

FASTA20122,508

References

« Hide 'large scale' references
[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. expand/collapse author list , 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] (ISOFORM 1).
Strain: C57BL/6J.
Tissue: Bone marrow, Heart and Stomach.
[2]"Lineage-specific biology revealed by a finished genome assembly of the mouse."
Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S., She X., Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W., Kapustin Y., Meric P., Maglott D., Birtle Z., Marques A.C., Graves T., Zhou S. expand/collapse author list , Teague B., Potamousis K., Churas C., Place M., Herschleb J., Runnheim R., Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z., Lindblad-Toh K., Eichler E.E., Ponting C.P.
PLoS Biol. 7:E1000112-E1000112(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: C57BL/6J.
[3]Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]"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] (ISOFORMS 1 AND 2).
Strain: FVB/N.
[5]"Mouse pachytene checkpoint 2 (trip13) is required for completing meiotic recombination but not synapsis."
Li X.C., Schimenti J.C.
PLoS Genet. 3:E130-E130(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, DISRUPTION PHENOTYPE.
[6]"Mouse HORMAD1 and HORMAD2, two conserved meiotic chromosomal proteins, are depleted from synapsed chromosome axes with the help of TRIP13 AAA-ATPase."
Wojtasz L., Daniel K., Roig I., Bolcun-Filas E., Xu H., Boonsanay V., Eckmann C.R., Cooke H.J., Jasin M., Keeney S., McKay M.J., Toth A.
PLoS Genet. 5:E1000702-E1000702(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION.
[7]"Mouse TRIP13/PCH2 is required for recombination and normal higher-order chromosome structure during meiosis."
Roig I., Dowdle J.A., Toth A., de Rooij D.G., Jasin M., Keeney S.
PLoS Genet. 6:E1001062-E1001062(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, TISSUE SPECIFICITY, DISRUPTION PHENOTYPE.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AK010336 mRNA. Translation: BAB26861.1.
AK142463 mRNA. Translation: BAE25076.1.
AK146877 mRNA. Translation: BAE27499.1.
AK151568 mRNA. Translation: BAE30510.1.
CT010471 Genomic DNA. No translation available.
CH466563 Genomic DNA. Translation: EDL37076.1.
BC023834 mRNA. Translation: AAH23834.1.
BC126946 mRNA. Translation: AAI26947.1.
CCDSCCDS26637.1. [Q3UA06-1]
RefSeqNP_081458.1. NM_027182.2. [Q3UA06-1]
UniGeneMm.275095.

3D structure databases

ProteinModelPortalQ3UA06.
SMRQ3UA06. Positions 110-426.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid213633. 2 interactions.
IntActQ3UA06. 6 interactions.
MINTMINT-218773.

PTM databases

PhosphoSiteQ3UA06.

Proteomic databases

MaxQBQ3UA06.
PaxDbQ3UA06.
PRIDEQ3UA06.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSMUST00000022053; ENSMUSP00000022053; ENSMUSG00000021569. [Q3UA06-1]
GeneID69716.
KEGGmmu:69716.
UCSCuc007rei.1. mouse. [Q3UA06-1]
uc011zbt.1. mouse. [Q3UA06-2]

Organism-specific databases

CTD9319.
MGIMGI:1916966. Trip13.

Phylogenomic databases

eggNOGCOG0464.
GeneTreeENSGT00390000017432.
HOGENOMHOG000234557.
HOVERGENHBG052830.
InParanoidQ05CL4.
OMAAASHWVL.
OrthoDBEOG71VST9.
PhylomeDBQ3UA06.
TreeFamTF313507.

Gene expression databases

BgeeQ3UA06.
CleanExMM_TRIP13.
GenevestigatorQ3UA06.

Family and domain databases

Gene3D3.40.50.300. 1 hit.
InterProIPR003593. AAA+_ATPase.
IPR003959. ATPase_AAA_core.
IPR003960. ATPase_AAA_CS.
IPR001270. ClpA/B.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamPF00004. AAA. 1 hit.
[Graphical view]
PRINTSPR00300. CLPPROTEASEA.
SMARTSM00382. AAA. 1 hit.
[Graphical view]
SUPFAMSSF52540. SSF52540. 2 hits.
PROSITEPS00674. AAA. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio330162.
PROQ3UA06.
SOURCESearch...

Entry information

Entry namePCH2_MOUSE
AccessionPrimary (citable) accession number: Q3UA06
Secondary accession number(s): A0JNT8 expand/collapse secondary AC list , Q05CL4, Q3UQG6, Q9CWW8
Entry history
Integrated into UniProtKB/Swiss-Prot: January 10, 2006
Last sequence update: October 11, 2005
Last modified: July 9, 2014
This is version 76 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot