Reviewed, UniProtKB/Swiss-Prot Q9SSA5 (CYP38_ARATH)

Names and origin

Protein names

Recommended name:
    Peptidyl-prolyl cis-trans isomerase CYP38, chloroplastic
      Short name=PPIase CYP38
      Short name=Rotamase CYP38
    EC=5.2.1.8
Alternative name(s):
    Thylakoid lumen PPIase

Gene names

Name:	CYP38
Ordered Locus Names:	At3g01480
ORF Names:	F4P13.3

Organism

Arabidopsis thaliana (Mouse-ear cress) [Complete proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › eurosids II › Brassicales › Brassicaceae › Arabidopsis

Protein attributes

Sequence length	437 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides. Required for the assembly and stabilization of PSII. Ref.7
Catalytic activity	Peptidylproline (omega=180) = peptidylproline (omega=0).
Subcellular location	Plastid › chloroplast thylakoid lumen. Ref.5 Ref.6
Tissue specificity	Expressed in leaves, flower buds and stems. Ref.1
Sequence similarities	Contains 1 PPIase cyclophilin-type domain.

Ontologies

Keywords
Cellular component	Chloroplast Plastid Thylakoid
Coding sequence diversity	Alternative splicing
Domain	Transit peptide
Molecular function	Isomerase
Technical term	Complete proteome Direct protein sequencing
Gene Ontology (GO)
Biological process	defense response to bacterium Inferred from expression pattern. Source: TAIR
Cellular component	chloroplast stroma Inferred from direct assay. Source: TAIR chloroplast thylakoid lumen Inferred from electronic annotation. Source: UniProtKB-SubCell chloroplast thylakoid membrane Inferred from direct assay. Source: TAIR
Molecular function	peptidyl-prolyl cis-trans isomerase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Alternative products

This entry describes 1 isoform produced by alternative splicing. [Select]

Note: A number of isoforms are produced. According to EST sequences.

Isoform 1 (identifier: Q9SSA5-1)

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.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Transit peptide	1 – 36	36	Chloroplast Potential
	Transit peptide	37 – 92	56	Thylakoid
	Chain	93 – 437	345	Peptidyl-prolyl cis-trans isomerase CYP38, chloroplastic		PRO_0000342095
Regions
	Domain	245 – 437	193	PPIase cyclophilin-type

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified May 1, 2000. Version 1. Checksum: 7239C7ADE83953E0	FASTA	437	47,982
	10 20 30 40 50 60 MAAAFASLPT FSVVNSSRFP RRRIGFSCSK KPLEVRCSSG NTRYTKQRGA FTSLKECAIS 70 80 90 100 110 120 LALSVGLMVS VPSIALPPNA HAVANPVIPD VSVLISGPPI KDPEALLRYA LPIDNKAIRE 130 140 150 160 170 180 VQKPLEDITD SLKIAGVKAL DSVERNVRQA SRTLQQGKSI IVAGFAESKK DHGNEMIEKL 190 200 210 220 230 240 EAGMQDMLKI VEDRKRDAVA PKQKEILKYV GGIEEDMVDG FPYEVPEEYR NMPLLKGRAS 250 260 270 280 290 300 VDMKVKIKDN PNIEDCVFRI VLDGYNAPVT AGNFVDLVER HFYDGMEIQR SDGFVVQTGD 310 320 330 340 350 360 PEGPAEGFID PSTEKTRTVP LEIMVTGEKT PFYGSTLEEL GLYKAQVVIP FNAFGTMAMA 370 380 390 400 410 420 REEFENDSGS SQVFWLLKES ELTPSNSNIL DGRYAVFGYV TDNEDFLADL KVGDVIESIQ 430 VVSGLENLAN PSYKIAG

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The Arabidopsis cyclophilin gene family." Romano P.G.N., Horton P., Gray J.E. Plant Physiol. 134:1268-1282(2004) [PubMed: 15051864] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, GENE FAMILY, NOMENCLATURE.
[2]	"Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana." Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F. , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S. Nature 408:820-822(2000) [PubMed: 11130713] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[3]	"Empirical analysis of transcriptional activity in the Arabidopsis genome." Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R. Science 302:842-846(2003) [PubMed: 14593172] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: cv. Columbia.
[4]	"Full-length cDNA from Arabidopsis thaliana." Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A. Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
[5]	"Central functions of the lumenal and peripheral thylakoid proteome of Arabidopsis determined by experimentation and genome-wide prediction." Peltier J.-B., Emanuelsson O., Kalume D.E., Ytterberg J., Friso G., Rudella A., Liberles D.A., Soederberg L., Roepstorff P., von Heijne G., van Wijk K.J. Plant Cell 14:211-236(2002) [PubMed: 11826309] [Abstract] Cited for: PROTEIN SEQUENCE OF N-TERMINUS, SUBCELLULAR LOCATION, IDENTIFICATION BY MASS SPECTROMETRY.
[6]	"Proteome map of the chloroplast lumen of Arabidopsis thaliana." Schubert M., Petersson U.A., Haas B.J., Funk C., Schroeder W.P., Kieselbach T. J. Biol. Chem. 277:8354-8365(2002) [PubMed: 11719511] [Abstract] Cited for: SUBCELLULAR LOCATION, IDENTIFICATION BY MASS SPECTROMETRY.
[7]	"A chloroplast cyclophilin functions in the assembly and maintenance of photosystem II in Arabidopsis thaliana." Fu A., He Z., Cho H.S., Lima A., Buchanan B.B., Luan S. Proc. Natl. Acad. Sci. U.S.A. 104:15947-15952(2007) [PubMed: 17909185] [Abstract] Cited for: FUNCTION.
[8]	"Sorting signals, N-terminal modifications and abundance of the chloroplast proteome." Zybailov B., Rutschow H., Friso G., Rudella A., Emanuelsson O., Sun Q., van Wijk K.J. PLoS ONE 3:E1994-E1994(2008) [PubMed: 18431481] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AY568524 mRNA. Translation: AAS75307.1. AC009325 Genomic DNA. Translation: AAF01533.1. AY039843 mRNA. Translation: AAK63947.1. AY113168 mRNA. Translation: AAM47471.1. AY087781 mRNA. Translation: AAM65317.1.
IPI	IPI00535764.
RefSeq	NP_186797.1.
UniGene	At.20535
3D structure databases
ModBase	Search...
Protein-protein interaction databases
STRING	Q9SSA5.
Proteomic databases
PRIDE	Q9SSA5.
ProMEX	Q9SSA5.
Genome annotation databases
GeneID	821137.
GenomeReviews	Gene locus AT3G01480 in contig BA000014_GR.
NMPDR	fig|3702.1.peg.12069.
Organism-specific databases
TAIR	At3g01480.
Phylogenomic databases
OMA	DGRNAAF.
Gene expression databases
Genevestigator	Q9SSA5.
Family and domain databases
InterPro	IPR002130. PPIase_cyclophilin. [Graphical view]
Gene3D	G3DSA:2.40.100.10. PPIase_cyclophilin. 1 hit.
PROSITE	PS00170. CSA_PPIASE_1. False negative. PS50072. CSA_PPIASE_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

CYP38_ARATH

Accession

Primary (citable) accession number: Q9SSA5

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 1, 2008
Last sequence update:	May 1, 2000
Last modified:	November 3, 2009
This is version 59 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)