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Protein

Pachytene checkpoint protein 2 homolog

Gene

Trip13

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

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)DescriptionActionsGraphical viewLength
Nucleotide bindingi179 – 186ATPSequence analysis8

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • identical protein binding Source: MGI

GO - Biological processi

  • double-strand break repair Source: UniProtKB
  • female meiosis I Source: MGI
  • male meiosis I Source: MGI
  • oocyte maturation Source: MGI
  • oogenesis Source: UniProtKB
  • reciprocal meiotic recombination Source: UniProtKB
  • spermatid development Source: MGI
  • spermatogenesis Source: UniProtKB
  • synaptonemal complex assembly Source: UniProtKB
Complete GO annotation...

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
Proteomesi
  • UP000000589 Componenti: Chromosome 13

Organism-specific databases

MGIiMGI:1916966. Trip13.

Subcellular locationi

GO - Cellular componenti

  • male germ cell nucleus Source: MGI
Complete GO annotation...

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)DescriptionActionsGraphical viewLength
ChainiPRO_00000847831 – 432Pachytene checkpoint protein 2 homologAdd BLAST432

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei1N-acetylmethionineBy similarity1

Keywords - PTMi

Acetylation

Proteomic databases

EPDiQ3UA06.
MaxQBiQ3UA06.
PaxDbiQ3UA06.
PeptideAtlasiQ3UA06.
PRIDEiQ3UA06.

PTM databases

iPTMnetiQ3UA06.
PhosphoSitePlusiQ3UA06.

Expressioni

Tissue specificityi

Widely expressed, including in testis.1 Publication

Gene expression databases

BgeeiENSMUSG00000021569.
CleanExiMM_TRIP13.
GenevisibleiQ3UA06. MM.

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

GO - Molecular functioni

  • identical protein binding Source: MGI

Protein-protein interaction databases

BioGridi213633. 3 interactors.
IntActiQ3UA06. 6 interactors.
MINTiMINT-218773.
STRINGi10090.ENSMUSP00000022053.

Structurei

3D structure databases

ProteinModelPortaliQ3UA06.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the AAA ATPase family. PCH2 subfamily.Curated

Phylogenomic databases

eggNOGiKOG0744. Eukaryota.
COG0464. LUCA.
GeneTreeiENSGT00390000017432.
HOGENOMiHOG000234557.
HOVERGENiHBG052830.
InParanoidiQ3UA06.
OMAiVQIHVEV.
OrthoDBiEOG091G0D83.
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. AlignAdd to basket

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

        10         20         30         40         50
MDEAVGDLKQ ALPCVAESPA VHVEVLQRSG STAKKEDIKS SVYRLLNRHN
60 70 80 90 100
IVFGDYVWTE FDDPFLSRNV QSVSIVDTEL KAKDPQPIDL SACTIALHIF
110 120 130 140 150
QLNEEGPSSE NLDEETENII AASHWVLPAA EFHGLWDSLV YDVEVKSHLL
160 170 180 190 200
DYVMTTVLFS DKNVDSNLIT WNRVVLLHGP PGTGKTSLCK ALAQKLTIRL
210 220 230 240 250
SSRYRYGQLI EINSHSLFSK WFSESGKLVT KMFQKIQDLI DDKEALVFVL
260 270 280 290 300
IDEVESLTAA RNACRAGAEP SDAIRVVNAV LTQIDQIKRH SNVVILTTSN
310 320 330 340 350
ITEKIDVAFV DRADIKQYIG PPSAAAIFKI YLSCLEELMK CQIIYPRQQL
360 370 380 390 400
LTLRELEMIG FIENNVSKLS LLLSEISRKS EGLSGRVLRK LPFLAHALYI
410 420 430
QAPSVTIEGF LQALSLAVDK QFEEKKKLSA YV
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)DescriptionActionsGraphical viewLength
Sequence conflicti148H → R in BAB26861 (PubMed:16141072).Curated1
Sequence conflicti274I → F in BAB26861 (PubMed:16141072).Curated1
Sequence conflicti409G → S in BAE25076 (PubMed:16141072).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0415591 – 231Missing in isoform 2. 1 PublicationAdd BLAST231

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.

3D structure databases

ProteinModelPortaliQ3UA06.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi213633. 3 interactors.
IntActiQ3UA06. 6 interactors.
MINTiMINT-218773.
STRINGi10090.ENSMUSP00000022053.

PTM databases

iPTMnetiQ3UA06.
PhosphoSitePlusiQ3UA06.

Proteomic databases

EPDiQ3UA06.
MaxQBiQ3UA06.
PaxDbiQ3UA06.
PeptideAtlasiQ3UA06.
PRIDEiQ3UA06.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

CTDi9319.
MGIiMGI:1916966. Trip13.

Phylogenomic databases

eggNOGiKOG0744. Eukaryota.
COG0464. LUCA.
GeneTreeiENSGT00390000017432.
HOGENOMiHOG000234557.
HOVERGENiHBG052830.
InParanoidiQ3UA06.
OMAiVQIHVEV.
OrthoDBiEOG091G0D83.
PhylomeDBiQ3UA06.
TreeFamiTF313507.

Miscellaneous databases

PROiQ3UA06.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000021569.
CleanExiMM_TRIP13.
GenevisibleiQ3UA06. MM.

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]
ProtoNetiSearch...

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: November 2, 2016
This is version 92 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

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 one 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.