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Q8VX13

- PDI13_ARATH

UniProt

Q8VX13 - PDI13_ARATH

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Protein
Protein disulfide isomerase-like 1-3
Gene
PDIL1-3, PDI1, PDI72, PDIL2-1, At3g54960, F28P10.60, T15C9.4
Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at transcript leveli

Functioni

Acts as a protein-folding catalyst that interacts with nascent polypeptides to catalyze the formation, isomerization, and reduction or oxidation of disulfide bonds By similarity.

Catalytic activityi

Catalyzes the rearrangement of -S-S- bonds in proteins.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei128 – 1281Nucleophile By similarity
Active sitei131 – 1311Nucleophile By similarity
Sitei190 – 1901Lowers pKa of C-terminal Cys of first active site By similarity
Active sitei467 – 4671Nucleophile By similarity
Sitei468 – 4681Contributes to redox potential value By similarity
Sitei469 – 4691Contributes to redox potential value By similarity
Active sitei470 – 4701Nucleophile By similarity
Sitei532 – 5321Lowers pKa of C-terminal Cys of second active site By similarity

GO - Molecular functioni

  1. protein disulfide isomerase activity Source: TAIR

GO - Biological processi

  1. cell redox homeostasis Source: InterPro
  2. response to endoplasmic reticulum stress Source: TAIR
Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Enzyme and pathway databases

BioCyciARA:AT3G54960-MONOMER.
ARA:GQT-1367-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein disulfide isomerase-like 1-3 (EC:5.3.4.1)
Short name:
AtPDIL1-3
Alternative name(s):
Protein disulfide isomerase 1
Short name:
AtPDI1
Protein disulfide isomerase-like 2-1
Short name:
AtPDIL2-1
Gene namesi
Name:PDIL1-3
Synonyms:PDI1, PDI72, PDIL2-1
Ordered Locus Names:At3g54960
ORF Names:F28P10.60, T15C9.4
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 3

Organism-specific databases

TAIRiAT3G54960.

Subcellular locationi

GO - Cellular componenti

  1. chloroplast Source: TAIR
  2. endoplasmic reticulum Source: TAIR
  3. endoplasmic reticulum lumen Source: UniProtKB-SubCell
  4. vacuolar membrane Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Endoplasmic reticulum

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2525 Reviewed prediction
Add
BLAST
Chaini26 – 579554Protein disulfide isomerase-like 1-3
PRO_5000065917Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi27 – 271N-linked (GlcNAc...) Reviewed prediction
Glycosylationi108 – 1081N-linked (GlcNAc...) Reviewed prediction
Glycosylationi115 – 1151N-linked (GlcNAc...) Reviewed prediction
Disulfide bondi128 ↔ 131Redox-active By similarity
Glycosylationi209 – 2091N-linked (GlcNAc...) Reviewed prediction
Glycosylationi293 – 2931N-linked (GlcNAc...) Reviewed prediction
Glycosylationi313 – 3131N-linked (GlcNAc...) Reviewed prediction
Glycosylationi338 – 3381N-linked (GlcNAc...) Reviewed prediction
Disulfide bondi467 ↔ 470Redox-active By similarity
Glycosylationi520 – 5201N-linked (GlcNAc...) Reviewed prediction

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiQ8VX13.
PRIDEiQ8VX13.

Expressioni

Tissue specificityi

Widely expressed.1 Publication

Inductioni

By chemically-induced ER stress response.1 Publication

Gene expression databases

GenevestigatoriQ8VX13.

Interactioni

Protein-protein interaction databases

BioGridi9977. 1 interaction.
IntActiQ8VX13. 1 interaction.
STRINGi3702.AT3G54960.1-P.

Structurei

3D structure databases

ProteinModelPortaliQ8VX13.
SMRiQ8VX13. Positions 95-546.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini81 – 204124Thioredoxin 1
Add
BLAST
Domaini416 – 546131Thioredoxin 2
Add
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi576 – 5794Prevents secretion from ER By similarity

Sequence similaritiesi

Contains 2 thioredoxin domains.

Keywords - Domaini

Redox-active center, Repeat, Signal

Phylogenomic databases

eggNOGiCOG0526.
HOGENOMiHOG000162459.
InParanoidiQ8VX13.
KOiK09580.
OMAiANESEKH.
PhylomeDBiQ8VX13.

Family and domain databases

Gene3Di3.40.30.10. 4 hits.
InterProiIPR005792. Prot_disulphide_isomerase.
IPR012336. Thioredoxin-like_fold.
IPR017937. Thioredoxin_CS.
IPR013766. Thioredoxin_domain.
[Graphical view]
PfamiPF00085. Thioredoxin. 2 hits.
[Graphical view]
SUPFAMiSSF52833. SSF52833. 4 hits.
TIGRFAMsiTIGR01130. ER_PDI_fam. 1 hit.
PROSITEiPS00014. ER_TARGET. 1 hit.
PS00194. THIOREDOXIN_1. 2 hits.
PS51352. THIOREDOXIN_2. 2 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: Q8VX13-1) [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

MASSSTSISL LLFVSFILLL VNSRAENASS GSDLDEELAF LAAEESKEQS    50
HGGGSYHEEE HDHQHRDFEN YDDLEQGGGE FHHGDHGYEE EPLPPVDEKD 100
VAVLTKDNFT EFVGNNSFAM VEFYAPWCGA CQALTPEYAA AATELKGLAA 150
LAKIDATEEG DLAQKYEIQG FPTVFLFVDG EMRKTYEGER TKDGIVTWLK 200
KKASPSIHNI TTKEEAERVL SAEPKLVFGF LNSLVGSESE ELAAASRLED 250
DLSFYQTASP DIAKLFEIET QVKRPALVLL KKEEEKLARF DGNFTKTAIA 300
EFVSANKVPL VINFTREGAS LIFESSVKNQ LILFAKANES EKHLPTLREV 350
AKSFKGKFVF VYVQMDNEDY GEAVSGFFGV TGAAPKVLVY TGNEDMRKFI 400
LDGELTVNNI KTLAEDFLAD KLKPFYKSDP LPENNDGDVK VIVGNNFDEI 450
VLDESKDVLL EIYAPWCGHC QSFEPIYNKL GKYLKGIDSL VVAKMDGTSN 500
EHPRAKADGF PTILFFPGGN KSFDPIAVDV DRTVVELYKF LKKHASIPFK 550
LEKPATPEPV ISTMKSDEKI EGDSSKDEL 579
Length:579
Mass (Da):64,212
Last modified:March 1, 2002 - v1
Checksum:i0DF50E500B24B829
GO
Isoform 2 (identifier: Q8VX13-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     507-518: ADGFPTILFFPG → VIKKKELRKSFW
     519-579: Missing.

Note: No experimental confirmation available.

Show »
Length:518
Mass (Da):57,691
Checksum:iB3AA1BB3BAFE49FF
GO

Sequence cautioni

The sequence CAB41088.1 differs from that shown. Reason: Erroneous gene model prediction.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei507 – 51812ADGFP…LFFPG → VIKKKELRKSFW in isoform 2.
VSP_039979Add
BLAST
Alternative sequencei519 – 57961Missing in isoform 2.
VSP_039980Add
BLAST

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AK318844 mRNA. Translation: BAH56959.1.
AJ271376 mRNA. Translation: CAC81067.1.
AL049655 Genomic DNA. Translation: CAB41088.1. Sequence problems.
AL132970 Genomic DNA. No translation available.
CP002686 Genomic DNA. Translation: AEE79318.1.
CP002686 Genomic DNA. Translation: AEE79319.1.
AY093115 mRNA. Translation: AAM13114.1.
BT000172 mRNA. Translation: AAN15491.1.
PIRiT06724.
RefSeqiNP_001118842.1. NM_001125370.1. [Q8VX13-2]
NP_191056.2. NM_115353.4. [Q8VX13-1]
UniGeneiAt.22358.

Genome annotation databases

EnsemblPlantsiAT3G54960.1; AT3G54960.1; AT3G54960. [Q8VX13-1]
GeneIDi824661.
KEGGiath:AT3G54960.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AK318844 mRNA. Translation: BAH56959.1 .
AJ271376 mRNA. Translation: CAC81067.1 .
AL049655 Genomic DNA. Translation: CAB41088.1 . Sequence problems.
AL132970 Genomic DNA. No translation available.
CP002686 Genomic DNA. Translation: AEE79318.1 .
CP002686 Genomic DNA. Translation: AEE79319.1 .
AY093115 mRNA. Translation: AAM13114.1 .
BT000172 mRNA. Translation: AAN15491.1 .
PIRi T06724.
RefSeqi NP_001118842.1. NM_001125370.1. [Q8VX13-2 ]
NP_191056.2. NM_115353.4. [Q8VX13-1 ]
UniGenei At.22358.

3D structure databases

ProteinModelPortali Q8VX13.
SMRi Q8VX13. Positions 95-546.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 9977. 1 interaction.
IntActi Q8VX13. 1 interaction.
STRINGi 3702.AT3G54960.1-P.

Proteomic databases

PaxDbi Q8VX13.
PRIDEi Q8VX13.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi AT3G54960.1 ; AT3G54960.1 ; AT3G54960 . [Q8VX13-1 ]
GeneIDi 824661.
KEGGi ath:AT3G54960.

Organism-specific databases

TAIRi AT3G54960.

Phylogenomic databases

eggNOGi COG0526.
HOGENOMi HOG000162459.
InParanoidi Q8VX13.
KOi K09580.
OMAi ANESEKH.
PhylomeDBi Q8VX13.

Enzyme and pathway databases

BioCyci ARA:AT3G54960-MONOMER.
ARA:GQT-1367-MONOMER.

Gene expression databases

Genevestigatori Q8VX13.

Family and domain databases

Gene3Di 3.40.30.10. 4 hits.
InterProi IPR005792. Prot_disulphide_isomerase.
IPR012336. Thioredoxin-like_fold.
IPR017937. Thioredoxin_CS.
IPR013766. Thioredoxin_domain.
[Graphical view ]
Pfami PF00085. Thioredoxin. 2 hits.
[Graphical view ]
SUPFAMi SSF52833. SSF52833. 4 hits.
TIGRFAMsi TIGR01130. ER_PDI_fam. 1 hit.
PROSITEi PS00014. ER_TARGET. 1 hit.
PS00194. THIOREDOXIN_1. 2 hits.
PS51352. THIOREDOXIN_2. 2 hits.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Arabidopsis thaliana mRNA for ERp72."
    Mahon P.
    Thesis (2000), Cambridge University, United Kingdom
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
  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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Strain: cv. Columbia.
  5. "Analysis of multiple occurrences of alternative splicing events in Arabidopsis thaliana using novel sequenced full-length cDNAs."
    Iida K., Fukami-Kobayashi K., Toyoda A., Sakaki Y., Kobayashi M., Seki M., Shinozaki K.
    DNA Res. 16:155-164(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Strain: cv. Columbia.
  6. "Phylogenetic analyses identify 10 classes of the protein disulfide isomerase family in plants, including single-domain protein disulfide isomerase-related proteins."
    Houston N.L., Fan C., Xiang J.Q., Schulze J.M., Jung R., Boston R.S.
    Plant Physiol. 137:762-778(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENE FAMILY, NOMENCLATURE.
  7. "Endoplasmic reticulum stress activates the expression of a sub-group of protein disulfide isomerase genes and AtbZIP60 modulates the response in Arabidopsis thaliana."
    Lu D.-P., Christopher D.A.
    Mol. Genet. Genomics 280:199-210(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: TISSUE SPECIFICITY, INDUCTION.
  8. "The protein disulfide isomerase gene family in bread wheat (T. aestivum L.)."
    d'Aloisio E., Paolacci A.R., Dhanapal A.P., Tanzarella O.A., Porceddu E., Ciaffi M.
    BMC Plant Biol. 10:101-101(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENE FAMILY, NOMENCLATURE.

Entry informationi

Entry nameiPDI13_ARATH
AccessioniPrimary (citable) accession number: Q8VX13
Secondary accession number(s): B3H5N9, Q9SV44
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 2, 2010
Last sequence update: March 1, 2002
Last modified: May 14, 2014
This is version 104 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3