SQN peptidyl-prolyl cis-trans isomerase / cyclophilin-40 (CYP40) / rotamase [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Gene symbol: SQN
Gene description: peptidyl-prolyl cis-trans isomerase / cyclophilin-40 (CYP40) / rotamase
Primary source: Araport:AT2G15790
Locus tag: AT2G15790
See related: TAIR:AT2G15790
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: CYCLOPHILIN 40; CYCLOPHILIN-40; CYP40; F19G14.21; F19G14_21; SQUINT
Summary: SQN encodes the Arabidopsis homolog of cyclophilin 40 (CyP40). It is specifically required for the vegetative but not the reproductive maturation of the shoot. Belongs to one of the 36 carboxylate clamp (CC)-tetratricopeptide repeat (TPR) proteins (Prasad 2010, Pubmed ID: 20856808) with potential to interact with Hsp90/Hsp70 as co-chaperones.
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Genomic context

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See SQN in Genome Data Viewer

Location:: chromosome: 2

Exon count:: 9

Sequence:: Chromosome: 2; NC_003071.7 (6877774..6880898, complement)

Chromosome 2 - NC_003071.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003071.7

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Plant possesses particular Golgi-resident cyclophilin 21 proteins (CYP21s) and the catalytic isomerase activities have a negative effect on ABA signalling gene expression during early seedling development. Cyclophilins (CYPs) are essential for diverse cellular process, as these catalyse a rate-limiting step in protein folding.
Title: Golgi-localized cyclophilin 21 proteins negatively regulate ABA signalling via the peptidyl prolyl isomerase activity during early seedling development.
One of the targets of miR172, APETALA2 (AP2), antagonizes CLV signalling. The ap2-2 mutation strongly suppresses sqn meristem phenotypes, indicating that the effect of SQN on stem cell dynamics is largely, but not fully, mediated by the miR172/AP2 tandem.
Title: SQUINT promotes stem cell homeostasis and floral meristem termination in Arabidopsis through APETALA2 and CLAVATA signalling.
SQN shows variable embryonic expression levels between accessions and altered ZLL-dependency in transgenic assays, confirming a key role in stem cell maintenance.
Title: Accession-specific modifiers act with ZWILLE/ARGONAUTE10 to maintain shoot meristem stem cells during embryogenesis in Arabidopsis.
the interaction between CyP40 and Hsp90 is conserved in plants and this interaction is essential for the function of CyP40
Title: Binding of the cyclophilin 40 ortholog SQUINT to Hsp90 protein is required for SQUINT function in Arabidopsis.
genetic data suggest that RBL, SQN, and, to a lesser extent, ULT1 also influence SUPERMAN activity
Title: REBELOTE, SQUINT, and ULTRAPETALA1 function redundantly in the temporal regulation of floral meristem termination in Arabidopsis thaliana.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

NM_127141.3

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables peptidyl-prolyl cis-trans isomerase activity	ISS Inferred from Sequence or Structural Similarity more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within floral meristem determinacy	IGI Inferred from Genetic Interaction more info	PubMed
involved_in protein folding	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within vegetative phase change	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISM Inferred from Sequence Model more info

General protein information

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Preferred Names: peptidyl-prolyl cis-trans isomerase / cyclophilin-40 (CYP40) / rotamase

NP_565381.1

SQUINT (SQN); CONTAINS InterPro DOMAIN/s: Cyclophilin-like (InterPro:IPR015891), Peptidyl-prolyl cis-trans isomerase, cyclophilin-type (InterPro:IPR002130), Tetratricopeptide-like helical (InterPro:IPR011990), Tetratricopeptide TPR2 (InterPro:IPR013105), Peptidyl-prolyl cis-trans isomerase, cyclophilin-type, conserved site (InterPro:IPR020892), Tetratricopeptide repeat-containing (InterPro:IPR013026), Tetratricopeptide repeat (InterPro:IPR019734); BEST Arabidopsis thaliana protein match is: Cyclophilin-like peptidyl-prolyl cis-trans isomerase family protein (TAIR:AT3G63400.3); Has 20219 Blast hits to 19939 proteins in 2706 species: Archae - 114; Bacteria - 6925; Metazoa - 4764; Fungi - 1760; Plants - 1912; Viruses - 4; Other Eukaryotes - 4740 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003071.7 Reference assembly

Range

6877774..6880898 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_127141.3 → NP_565381.1 peptidyl-prolyl cis-trans isomerase / cyclophilin-40 (CYP40) / rotamase [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_565381.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q08A80, Q9C566, Q9XIL2

UniProtKB/TrEMBL

A0A5S9WYM3, A0A654EY88

Conserved Domains (4) summary

COG0457
Location:216 → 345

TPR; Tetratricopeptide (TPR) repeat [General function prediction only]

cd01926
Location:4 → 171

cyclophilin_ABH_like; Cyclophilin A, B and H-like cyclophilin-type peptidylprolyl cis- trans isomerase (PPIase) domain. This family represents the archetypal cystolic cyclophilin similar to human cyclophilins A, B and H. PPIase is an enzyme which accelerates protein folding ...

sd00006
Location:263 → 293

TPR; TPR repeat [structural motif]

pfam00515
Location:298 → 331

TPR_1; Tetratricopeptide repeat