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Q3UA06

- PCH2_MOUSE

UniProt

Q3UA06 - PCH2_MOUSE

Protein

Pachytene checkpoint protein 2 homolog

Gene

Trip13

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 77 (01 Oct 2014)
      Sequence version 1 (11 Oct 2005)
      Previous versions | rss
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    Functioni

    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.3 Publications

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi179 – 1868ATPSequence Analysis

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-KW
    2. identical protein binding Source: MGI
    3. nucleoside-triphosphatase activity Source: InterPro
    4. protein binding Source: MGI

    GO - Biological processi

    1. double-strand break repair Source: UniProtKB
    2. female meiosis I Source: MGI
    3. male meiosis I Source: MGI
    4. oocyte maturation Source: MGI
    5. oogenesis Source: UniProtKB
    6. reciprocal meiotic recombination Source: UniProtKB
    7. spermatid development Source: MGI
    8. spermatogenesis Source: UniProtKB
    9. synaptonemal complex assembly Source: UniProtKB

    Keywords - Biological processi

    Differentiation, Meiosis, Oogenesis, Spermatogenesis

    Keywords - Ligandi

    ATP-binding, Nucleotide-binding

    Names & Taxonomyi

    Protein namesi
    Recommended 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 namesi
    Name:Trip13
    Synonyms:Pch2
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 13

    Organism-specific databases

    MGIiMGI:1916966. Trip13.

    Subcellular locationi

    GO - Cellular componenti

    1. male germ cell nucleus Source: MGI

    Pathology & Biotechi

    Disruption phenotypei

    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 (PubMed:20711356). Autosomal bivalents in meiocytes frequently display pericentric synaptic forks and other defects (PubMed:20711356). Recombination defects are evident very early in meiotic prophase, soon after DSB formation (PubMed:20711356). 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.2 Publications

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 432432Pachytene checkpoint protein 2 homologPRO_0000084783Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei1 – 11N-acetylmethionineBy similarity

    Keywords - PTMi

    Acetylation

    Proteomic databases

    MaxQBiQ3UA06.
    PaxDbiQ3UA06.
    PRIDEiQ3UA06.

    PTM databases

    PhosphoSiteiQ3UA06.

    Expressioni

    Tissue specificityi

    Widely expressed, including in testis.1 Publication

    Gene expression databases

    BgeeiQ3UA06.
    CleanExiMM_TRIP13.
    GenevestigatoriQ3UA06.

    Interactioni

    Subunit structurei

    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.By similarity

    Protein-protein interaction databases

    BioGridi213633. 2 interactions.
    IntActiQ3UA06. 6 interactions.
    MINTiMINT-218773.

    Structurei

    3D structure databases

    ProteinModelPortaliQ3UA06.
    SMRiQ3UA06. Positions 110-426.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the AAA ATPase family. PCH2 subfamily.Curated

    Phylogenomic databases

    eggNOGiCOG0464.
    GeneTreeiENSGT00390000017432.
    HOGENOMiHOG000234557.
    HOVERGENiHBG052830.
    InParanoidiQ05CL4.
    OMAiAASHWVL.
    OrthoDBiEOG71VST9.
    PhylomeDBiQ3UA06.
    TreeFamiTF313507.

    Family and domain databases

    Gene3Di3.40.50.300. 1 hit.
    InterProiIPR003593. AAA+_ATPase.
    IPR003959. ATPase_AAA_core.
    IPR003960. ATPase_AAA_CS.
    IPR001270. ClpA/B.
    IPR027417. P-loop_NTPase.
    [Graphical view]
    PfamiPF00004. AAA. 1 hit.
    [Graphical view]
    PRINTSiPR00300. CLPPROTEASEA.
    SMARTiSM00382. AAA. 1 hit.
    [Graphical view]
    SUPFAMiSSF52540. SSF52540. 2 hits.
    PROSITEiPS00674. AAA. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q3UA06-1) [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

    MDEAVGDLKQ ALPCVAESPA VHVEVLQRSG STAKKEDIKS SVYRLLNRHN    50
    IVFGDYVWTE FDDPFLSRNV QSVSIVDTEL KAKDPQPIDL SACTIALHIF 100
    QLNEEGPSSE NLDEETENII AASHWVLPAA EFHGLWDSLV YDVEVKSHLL 150
    DYVMTTVLFS DKNVDSNLIT WNRVVLLHGP PGTGKTSLCK ALAQKLTIRL 200
    SSRYRYGQLI EINSHSLFSK WFSESGKLVT KMFQKIQDLI DDKEALVFVL 250
    IDEVESLTAA RNACRAGAEP SDAIRVVNAV LTQIDQIKRH SNVVILTTSN 300
    ITEKIDVAFV DRADIKQYIG PPSAAAIFKI YLSCLEELMK CQIIYPRQQL 350
    LTLRELEMIG FIENNVSKLS LLLSEISRKS EGLSGRVLRK LPFLAHALYI 400
    QAPSVTIEGF LQALSLAVDK QFEEKKKLSA YV 432
    Length:432
    Mass (Da):48,377
    Last modified:October 11, 2005 - v1
    Checksum:i4427E94AF4D733DB
    GO
    Isoform 2 (identifier: Q3UA06-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-231: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:201
    Mass (Da):22,508
    Checksum:i29169AB648C9963C
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti148 – 1481H → R in BAB26861. (PubMed:16141072)Curated
    Sequence conflicti274 – 2741I → F in BAB26861. (PubMed:16141072)Curated
    Sequence conflicti409 – 4091G → S in BAE25076. (PubMed:16141072)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 231231Missing in isoform 2. 1 PublicationVSP_041559Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    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.
    CCDSiCCDS26637.1. [Q3UA06-1]
    RefSeqiNP_081458.1. NM_027182.2. [Q3UA06-1]
    UniGeneiMm.275095.

    Genome annotation databases

    EnsembliENSMUST00000022053; ENSMUSP00000022053; ENSMUSG00000021569. [Q3UA06-1]
    GeneIDi69716.
    KEGGimmu:69716.
    UCSCiuc007rei.1. mouse. [Q3UA06-1]
    uc011zbt.1. mouse. [Q3UA06-2]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    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 .
    CCDSi CCDS26637.1. [Q3UA06-1 ]
    RefSeqi NP_081458.1. NM_027182.2. [Q3UA06-1 ]
    UniGenei Mm.275095.

    3D structure databases

    ProteinModelPortali Q3UA06.
    SMRi Q3UA06. Positions 110-426.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 213633. 2 interactions.
    IntActi Q3UA06. 6 interactions.
    MINTi MINT-218773.

    PTM databases

    PhosphoSitei Q3UA06.

    Proteomic databases

    MaxQBi Q3UA06.
    PaxDbi Q3UA06.
    PRIDEi Q3UA06.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000022053 ; ENSMUSP00000022053 ; ENSMUSG00000021569 . [Q3UA06-1 ]
    GeneIDi 69716.
    KEGGi mmu:69716.
    UCSCi uc007rei.1. mouse. [Q3UA06-1 ]
    uc011zbt.1. mouse. [Q3UA06-2 ]

    Organism-specific databases

    CTDi 9319.
    MGIi MGI:1916966. Trip13.

    Phylogenomic databases

    eggNOGi COG0464.
    GeneTreei ENSGT00390000017432.
    HOGENOMi HOG000234557.
    HOVERGENi HBG052830.
    InParanoidi Q05CL4.
    OMAi AASHWVL.
    OrthoDBi EOG71VST9.
    PhylomeDBi Q3UA06.
    TreeFami TF313507.

    Miscellaneous databases

    NextBioi 330162.
    PROi Q3UA06.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q3UA06.
    CleanExi MM_TRIP13.
    Genevestigatori Q3UA06.

    Family and domain databases

    Gene3Di 3.40.50.300. 1 hit.
    InterProi IPR003593. AAA+_ATPase.
    IPR003959. ATPase_AAA_core.
    IPR003960. ATPase_AAA_CS.
    IPR001270. ClpA/B.
    IPR027417. P-loop_NTPase.
    [Graphical view ]
    Pfami PF00004. AAA. 1 hit.
    [Graphical view ]
    PRINTSi PR00300. CLPPROTEASEA.
    SMARTi SM00382. AAA. 1 hit.
    [Graphical view ]
    SUPFAMi SSF52540. SSF52540. 2 hits.
    PROSITEi PS00674. AAA. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    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] (ISOFORM 1).
      Strain: C57BL/6J.
      Tissue: Bone marrow, Heart and Stomach.
    2. 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.

    Entry informationi

    Entry nameiPCH2_MOUSE
    AccessioniPrimary (citable) accession number: Q3UA06
    Secondary accession number(s): A0JNT8
    , Q05CL4, Q3UQG6, Q9CWW8
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 10, 2006
    Last sequence update: October 11, 2005
    Last modified: October 1, 2014
    This is version 77 of the entry and version 1 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