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Protein

Pachytene checkpoint protein 2 homolog

Gene

Trip13

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -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 (PubMed:17696610, PubMed:19851446, PubMed:20711356). Plays a role in mitotic spindle assembly checkpoint (SAC) activation (By similarity).By similarity3 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

Keywordsi

Biological processDifferentiation, Meiosis, Oogenesis, Spermatogenesis
LigandATP-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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 13

Organism-specific databases

MGIiMGI:1916966 Trip13

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

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 Expressed in 242 organ(s), highest expression level in vestibular organ
CleanExiMM_TRIP13
ExpressionAtlasiQ3UA06 baseline and differential
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

Protein-protein interaction databases

BioGridi213633, 4 interactors
IntActiQ3UA06, 6 interactors
MINTiQ3UA06
STRINGi10090.ENSMUSP00000022053

Structurei

3D structure databases

ProteinModelPortaliQ3UA06
SMRiQ3UA06
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
KOiK22399
OMAiHLNEEGP
OrthoDBiEOG091G0D83
PhylomeDBiQ3UA06
TreeFamiTF313507

Family and domain databases

InterProiView protein in InterPro
IPR003593 AAA+_ATPase
IPR003959 ATPase_AAA_core
IPR003960 ATPase_AAA_CS
IPR001270 ClpA/B
IPR027417 P-loop_NTPase
PfamiView protein in Pfam
PF00004 AAA, 1 hit
PRINTSiPR00300 CLPPROTEASEA
SMARTiView protein in SMART
SM00382 AAA, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
PROSITEiView protein in PROSITE
PS00674 AAA, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

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

This entry has 2 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All

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

Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A1Y7VK03A0A1Y7VK03_MOUSE
Pachytene checkpoint protein 2 homo...
Trip13
23Annotation score:
A0A1Y7VLR4A0A1Y7VLR4_MOUSE
Pachytene checkpoint protein 2 homo...
Trip13
80Annotation score:

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

Similar proteinsi

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
SMRiQ3UA06
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi213633, 4 interactors
IntActiQ3UA06, 6 interactors
MINTiQ3UA06
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
KOiK22399
OMAiHLNEEGP
OrthoDBiEOG091G0D83
PhylomeDBiQ3UA06
TreeFamiTF313507

Miscellaneous databases

PROiPR:Q3UA06
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000021569 Expressed in 242 organ(s), highest expression level in vestibular organ
CleanExiMM_TRIP13
ExpressionAtlasiQ3UA06 baseline and differential
GenevisibleiQ3UA06 MM

Family and domain databases

InterProiView protein in InterPro
IPR003593 AAA+_ATPase
IPR003959 ATPase_AAA_core
IPR003960 ATPase_AAA_CS
IPR001270 ClpA/B
IPR027417 P-loop_NTPase
PfamiView protein in Pfam
PF00004 AAA, 1 hit
PRINTSiPR00300 CLPPROTEASEA
SMARTiView protein in SMART
SM00382 AAA, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
PROSITEiView protein in PROSITE
PS00674 AAA, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiPCH2_MOUSE
AccessioniPrimary (citable) accession number: Q3UA06
Secondary accession number(s): A0JNT8
, Q05CL4, Q3UQG6, Q9CWW8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 10, 2006
Last sequence update: October 11, 2005
Last modified: November 7, 2018
This is version 104 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
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Main funding by: National Institutes of Health

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