CYP38 cyclophilin 38 [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: CYP38
Official Full Name: cyclophilin 38
Primary source: TAIR:AT3G01480
Locus tag: AT3G01480
See related: Araport:AT3G01480
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: ARABIDOPSIS CYCLOPHILIN 38; ATCYP38; cyclophilin 38; F4P13.3; F4P13_3
Summary: Encodes a chloroplast cyclophilin functioning in the assembly and maintenance of photosystem II (PSII) supercomplexes.
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Genomic context

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See CYP38 in Genome Data Viewer

Location:: chromosome: 3

Exon count:: 7

Sequence:: Chromosome: 3; NC_003074.8 (188321..190892)

Chromosome 3 - NC_003074.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003074.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Identification of interacting proteins of Arabidopsis cyclophilin38 (AtCYP38) via multiple screening approaches reveals its possible broad functions in chloroplasts.
Title: Identification of interacting proteins of Arabidopsis cyclophilin38 (AtCYP38) via multiple screening approaches reveals its possible broad functions in chloroplasts.
Characterization of CYCLOPHILLIN38 shows that a photosynthesis-derived systemic signal controls lateral root emergence.
Title: Characterization of CYCLOPHILLIN38 shows that a photosynthesis-derived systemic signal controls lateral root emergence.
This article investigates physiological roles of AtCYP38 and analyses the ultrastructure of chloroplasts from cyp38-2 plants. Transmission electron microscopy followed by quantitative micrography revealed modifications in thylakoid stacking. The depletion of AtCYP38 influences PSII performance, which leads to stunted phenotype of cyp38-2 plants.
Title: Complex lumenal immunophilin AtCYP38 influences thylakoid remodelling in Arabidopsis thaliana.
the structure of CYP38 and it's possible autoinhibitory mechanism
Title: Crystal structure of Arabidopsis cyclophilin38 reveals a previously uncharacterized immunophilin fold and a possible autoinhibitory mechanism.
Association of AtCYP38 with the photosystem II show that dynamic greening process of etiolated leaves fails in the absence of AtCYP38.
Title: AtCYP38 ensures early biogenesis, correct assembly and sustenance of photosystem II.

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General gene information

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Homology

Orthologs from OrthoDB

NM_001125078.1

Supported by ESTs:

NM_111014.4

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables peptidyl-prolyl cis-trans isomerase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within lateral root morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within photosystem II assembly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within photosystem II stabilization	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in chloroplast	HDA more info	PubMed
located_in chloroplast	ISM Inferred from Sequence Model more info
located_in chloroplast stroma	HDA more info	PubMed
located_in chloroplast thylakoid	HDA more info	PubMed
located_in chloroplast thylakoid lumen	HDA more info	PubMed
located_in chloroplast thylakoid membrane	HDA more info	PubMed
located_in cytosol	HDA more info	PubMed
located_in thylakoid	HDA more info	PubMed
located_in thylakoid lumen	HDA more info	PubMed

General protein information

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Preferred Names: cyclophilin 38

NP_001118550.1

cyclophilin 38 (CYP38); FUNCTIONS IN: peptidyl-prolyl cis-trans isomerase activity; INVOLVED IN: protein folding, photosystem II assembly, photosystem II stabilization, defense response to bacterium; LOCATED IN: thylakoid, chloroplast thylakoid membrane, chloroplast thylakoid lumen, chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Cyclophilin-like (InterPro:IPR015891), Peptidyl-prolyl cis-trans isomerase, cyclophilin-type (InterPro:IPR002130); BEST Arabidopsis thaliana protein match is: Cyclophilin-like peptidyl-prolyl cis-trans isomerase family protein (TAIR:AT3G15520.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).

NP_186797.1

cyclophilin 38 (CYP38); FUNCTIONS IN: peptidyl-prolyl cis-trans isomerase activity; INVOLVED IN: protein folding, photosystem II assembly, photosystem II stabilization, defense response to bacterium; LOCATED IN: in 6 components; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Cyclophilin-like (InterPro:IPR015891), Peptidyl-prolyl cis-trans isomerase, cyclophilin-type (InterPro:IPR002130); BEST Arabidopsis thaliana protein match is: Cyclophilin-like peptidyl-prolyl cis-trans isomerase family protein (TAIR:AT3G15520.1); Has 2157 Blast hits to 2154 proteins in 676 species: Archae - 40; Bacteria - 1435; Metazoa - 59; Fungi - 19; Plants - 86; Viruses - 0; Other Eukaryotes - 518 (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_003074.8 Reference assembly

Range

188321..190892

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_111014.4 → NP_186797.1 cyclophilin 38 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_186797.1

Status: REVIEWED

UniProtKB/Swiss-Prot

B3H5B8, B9DHS6, Q9SSA5

UniProtKB/TrEMBL

A0A178VGT1, A0A5S9X8F3, A0A654F4N4

Conserved Domains (1) summary

cd01924
Location:250 → 424

cyclophilin_TLP40_like; cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) similar ot the Spinach thylakoid lumen protein TLP40. Compared to the archetypal cyclophilin Human cyclophilin A, these proteins have similar peptidylprolyl cis- trans isomerase ...
NM_001125078.1 → NP_001118550.1 cyclophilin 38 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_001118550.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q9SSA5

Conserved Domains (1) summary

cl00197
Location:250 → 338

cyclophilin; cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the ...