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Protein

Pachytene checkpoint protein 2 homolog

Gene

Trip13

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript 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 (By similarity).By similarity

Regions

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

GO - Molecular functioni

GO - Biological processi

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
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 1

Organism-specific databases

RGDi1308516. Trip13.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 432432Pachytene checkpoint protein 2 homologPRO_0000084784Add
BLAST

Amino acid modifications

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

Keywords - PTMi

Acetylation

Proteomic databases

PaxDbiQ5XHZ9.
PRIDEiQ5XHZ9.

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

STRINGi10116.ENSRNOP00000021532.

Structurei

3D structure databases

ProteinModelPortaliQ5XHZ9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the AAA ATPase family. PCH2 subfamily.Curated

Phylogenomic databases

eggNOGiKOG0744. Eukaryota.
COG0464. LUCA.
GeneTreeiENSGT00390000017432.
HOVERGENiHBG052830.
InParanoidiQ5XHZ9.
OMAiVQIHVEV.
OrthoDBiEOG71VST9.
PhylomeDBiQ5XHZ9.
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]

Sequencei

Sequence statusi: Complete.

Q5XHZ9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDDAVGDLKQ ALPCVAESPA VHVEVLQRSG STAKKEDIKQ SVYRLLKRHN
60 70 80 90 100
IVFGDYVWTE FDEPFLTRNV QSVSIVDTEL KAKDPQPIDL SACTIALHIF
110 120 130 140 150
QLNEEGPSSE NLDEETENII AASHWVLPAA EFHGLWDSLV YDVEVKSHLL
160 170 180 190 200
DYVMTTLLFS 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 HV
Length:432
Mass (Da):48,434
Last modified:November 23, 2004 - v1
Checksum:iD15D10A47EA81BA8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC083900 mRNA. Translation: AAH83900.1.
RefSeqiNP_001011930.1. NM_001011930.1.
XP_008756903.1. XM_008758681.1.
UniGeneiRn.11751.

Genome annotation databases

EnsembliENSRNOT00000021532; ENSRNOP00000021532; ENSRNOG00000015810.
ENSRNOT00000081471; ENSRNOP00000070709; ENSRNOG00000015810.
GeneIDi292206.
KEGGirno:292206.
UCSCiRGD:1308516. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC083900 mRNA. Translation: AAH83900.1.
RefSeqiNP_001011930.1. NM_001011930.1.
XP_008756903.1. XM_008758681.1.
UniGeneiRn.11751.

3D structure databases

ProteinModelPortaliQ5XHZ9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000021532.

Proteomic databases

PaxDbiQ5XHZ9.
PRIDEiQ5XHZ9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000021532; ENSRNOP00000021532; ENSRNOG00000015810.
ENSRNOT00000081471; ENSRNOP00000070709; ENSRNOG00000015810.
GeneIDi292206.
KEGGirno:292206.
UCSCiRGD:1308516. rat.

Organism-specific databases

CTDi9319.
RGDi1308516. Trip13.

Phylogenomic databases

eggNOGiKOG0744. Eukaryota.
COG0464. LUCA.
GeneTreeiENSGT00390000017432.
HOVERGENiHBG052830.
InParanoidiQ5XHZ9.
OMAiVQIHVEV.
OrthoDBiEOG71VST9.
PhylomeDBiQ5XHZ9.
TreeFamiTF313507.

Miscellaneous databases

NextBioi633927.
PROiQ5XHZ9.

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...

Publicationsi

  1. "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].
    Tissue: Testis.

Entry informationi

Entry nameiPCH2_RAT
AccessioniPrimary (citable) accession number: Q5XHZ9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 10, 2006
Last sequence update: November 23, 2004
Last modified: February 17, 2016
This is version 80 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. 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.