Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Peroxisome biogenesis protein 12

Gene

PEX12

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Required for peroxisome biogenesis and for PTS1- and PTS2-dependent protein import into peroxisomes. Essential for the peroxisomal targeting of PEX7. Required for the export/release of receptors on the peroxisome membrane. Acts as an E3 ubiquitin-protein ligase involved in monoubiquitination of PEX5.6 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri339 – 37840RING-type; degenerateAdd
BLAST

GO - Molecular functioni

  • ubiquitin-protein transferase activity Source: TAIR
  • zinc ion binding Source: InterPro

GO - Biological processi

  • embryonic morphogenesis Source: TAIR
  • fatty acid beta-oxidation Source: TAIR
  • peroxisome organization Source: TAIR
  • protein import into peroxisome matrix Source: TAIR
  • protein monoubiquitination Source: TAIR
Complete GO annotation...

Keywords - Biological processi

Peroxisome biogenesis, Protein transport, Transport, Ubl conjugation pathway

Keywords - Ligandi

Metal-binding, Zinc

Protein family/group databases

TCDBi3.A.20.1.2. the peroxisomal protein importer (ppi) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Peroxisome biogenesis protein 12
Alternative name(s):
Peroxin-12
Short name:
AtPEX12
Pex12p
Protein ABERRANT PEROXISOME MORPHOLOGY 4
Gene namesi
Name:PEX12
Synonyms:APM4
Ordered Locus Names:At3g04460
ORF Names:T27C4.11
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G04460.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei212 – 23120HelicalSequence analysisAdd
BLAST
Transmembranei270 – 29425HelicalSequence analysisAdd
BLAST

GO - Cellular componenti

  • integral component of peroxisomal membrane Source: GO_Central
  • peroxisomal importomer complex Source: GO_Central
  • peroxisomal membrane Source: TAIR
  • peroxisome Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Membrane, Peroxisome

Pathology & Biotechi

Disruption phenotypei

Embryo lethality at the heart stage.1 Publication

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi170 – 1701R → K in apm4; reduced protein transport to peroxisome and repressed plant growth. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 393393Peroxisome biogenesis protein 12PRO_0000218615Add
BLAST

Proteomic databases

PaxDbiQ9M841.
PRIDEiQ9M841.

Expressioni

Tissue specificityi

Expressed in young seedlings, roots, leaves, seeds and flowers.1 Publication

Gene expression databases

GenevisibleiQ9M841. AT.

Interactioni

Subunit structurei

Interacts (via C-terminus) with PEX7. Interacts with DSK2a and DSK2b.2 Publications

Protein-protein interaction databases

BioGridi4937. 2 interactions.
IntActiQ9M841. 7 interactions.
STRINGi3702.AT3G04460.1.

Structurei

3D structure databases

ProteinModelPortaliQ9M841.
SMRiQ9M841. Positions 337-383.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi311 – 33424Pro-richAdd
BLAST

Sequence similaritiesi

Belongs to the pex2/pex10/pex12 family.Curated
Contains 1 RING-type zinc finger.Curated

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri339 – 37840RING-type; degenerateAdd
BLAST

Keywords - Domaini

Transmembrane, Transmembrane helix, Zinc-finger

Phylogenomic databases

eggNOGiKOG0826. Eukaryota.
ENOG410Y4Q2. LUCA.
HOGENOMiHOG000038427.
InParanoidiQ9M841.
KOiK13345.
OMAiFHYVRSH.
PhylomeDBiQ9M841.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
InterProiIPR017375. PEX12.
IPR006845. Pex_N.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR12888. PTHR12888. 1 hit.
PfamiPF04757. Pex2_Pex12. 1 hit.
[Graphical view]
PIRSFiPIRSF038074. Peroxisome_assembly_p12. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9M841-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLFQVGGEGT RPTFFEMAAA QQLPASLRAA LTYSLGVFAL RRSFLHKILD
60 70 80 90 100
YEDEFFAALM LILEGHSLRT TDGSFAESLY GLRRKSARLR LRKDSARKDS
110 120 130 140 150
SEEVQHSGLE KRQRILSVVF LVVLPYFKSK LHAIYNKERE ARLRESLWGA
160 170 180 190 200
EDQGFDEADF FTGDDSIVSR EPSGNEELSV RVQLATKIKK FIAVCYPWIH
210 220 230 240 250
ASSEGLSFTY QLLYLLDATG FYSLGLQALG IQVCRATGQE LMDTSSRISK
260 270 280 290 300
IRNHERERLR GPPWLKTVQG ALLSCSYAVL DYAQTGLIAA VFIFKMMEWW
310 320 330 340 350
YQSAEERLSA PTVYPPPPPP PAPKMAKEGI PLPPDRSLCA LCLQKRANPS
360 370 380 390
VVTVSGFVFC YSCVFKYVSK YKRCPVTLIP ASVDQIRRLF QDT
Length:393
Mass (Da):44,400
Last modified:October 14, 2008 - v2
Checksum:iBEF9C580A93F52A7
GO

Sequence cautioni

The sequence AAF63777.1 differs from that shown. Reason: Erroneous gene model prediction. Curated
The sequence BAC42305.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence BX824646 differs from that shown. Reason: Frameshift at position 250. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti96 – 961A → S in BX824646 (PubMed:14993207).Curated
Sequence conflicti392 – 3921D → E in BX824646 (PubMed:14993207).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC022287 Genomic DNA. Translation: AAF63777.1. Sequence problems.
CP002686 Genomic DNA. Translation: AEE74085.1.
BX824646 mRNA. No translation available.
AK117651 mRNA. Translation: BAC42305.1. Different initiation.
RefSeqiNP_187096.2. NM_111317.3.
UniGeneiAt.18851.

Genome annotation databases

EnsemblPlantsiAT3G04460.1; AT3G04460.1; AT3G04460.
GeneIDi819602.
GrameneiAT3G04460.1; AT3G04460.1; AT3G04460.
KEGGiath:AT3G04460.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC022287 Genomic DNA. Translation: AAF63777.1. Sequence problems.
CP002686 Genomic DNA. Translation: AEE74085.1.
BX824646 mRNA. No translation available.
AK117651 mRNA. Translation: BAC42305.1. Different initiation.
RefSeqiNP_187096.2. NM_111317.3.
UniGeneiAt.18851.

3D structure databases

ProteinModelPortaliQ9M841.
SMRiQ9M841. Positions 337-383.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4937. 2 interactions.
IntActiQ9M841. 7 interactions.
STRINGi3702.AT3G04460.1.

Protein family/group databases

TCDBi3.A.20.1.2. the peroxisomal protein importer (ppi) family.

Proteomic databases

PaxDbiQ9M841.
PRIDEiQ9M841.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G04460.1; AT3G04460.1; AT3G04460.
GeneIDi819602.
GrameneiAT3G04460.1; AT3G04460.1; AT3G04460.
KEGGiath:AT3G04460.

Organism-specific databases

TAIRiAT3G04460.

Phylogenomic databases

eggNOGiKOG0826. Eukaryota.
ENOG410Y4Q2. LUCA.
HOGENOMiHOG000038427.
InParanoidiQ9M841.
KOiK13345.
OMAiFHYVRSH.
PhylomeDBiQ9M841.

Miscellaneous databases

PROiQ9M841.

Gene expression databases

GenevisibleiQ9M841. AT.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
InterProiIPR017375. PEX12.
IPR006845. Pex_N.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR12888. PTHR12888. 1 hit.
PfamiPF04757. Pex2_Pex12. 1 hit.
[Graphical view]
PIRSFiPIRSF038074. Peroxisome_assembly_p12. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "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.
  2. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  3. "Whole genome sequence comparisons and 'full-length' cDNA sequences: a combined approach to evaluate and improve Arabidopsis genome annotation."
    Castelli V., Aury J.-M., Jaillon O., Wincker P., Clepet C., Menard M., Cruaud C., Quetier F., Scarpelli C., Schaechter V., Temple G., Caboche M., Weissenbach J., Salanoubat M.
    Genome Res. 14:406-413(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 92-393.
    Strain: cv. Columbia.
  5. "The Arabidopsis PEX12 gene is required for peroxisome biogenesis and is essential for development."
    Fan J., Quan S., Orth T., Awai C., Chory J., Hu J.
    Plant Physiol. 139:231-239(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY, DISRUPTION PHENOTYPE.
  6. "The Arabidopsis pex12 and pex13 mutants are defective in both PTS1- and PTS2-dependent protein transport to peroxisomes."
    Mano S., Nakamori C., Nito K., Kondo M., Nishimura M.
    Plant J. 47:604-618(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, MUTAGENESIS OF ARG-170.
  7. "Functional classification of Arabidopsis peroxisome biogenesis factors proposed from analyses of knockdown mutants."
    Nito K., Kamigaki A., Kondo M., Hayashi M., Nishimura M.
    Plant Cell Physiol. 48:763-774(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  8. "Molecular components required for the targeting of PEX7 to peroxisomes in Arabidopsis thaliana."
    Singh T., Hayashi M., Mano S., Arai Y., Goto S., Nishimura M.
    Plant J. 60:488-498(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH PEX7.
  9. "Different functions of the C3HC4 zinc RING finger peroxins PEX10, PEX2, and PEX12 in peroxisome formation and matrix protein import."
    Prestele J., Hierl G., Scherling C., Hetkamp S., Schwechheimer C., Isono E., Weckwerth W., Wanner G., Gietl C.
    Proc. Natl. Acad. Sci. U.S.A. 107:14915-14920(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  10. "Arabidopsis RING peroxins are E3 ubiquitin ligases that interact with two homologous ubiquitin receptor proteins(F)."
    Kaur N., Zhao Q., Xie Q., Hu J.
    J. Integr. Plant Biol. 55:108-120(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH DSK2A AND DSK2B, FUNCTION.

Entry informationi

Entry nameiPEX12_ARATH
AccessioniPrimary (citable) accession number: Q9M841
Secondary accession number(s): Q8GYG2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 24, 2001
Last sequence update: October 14, 2008
Last modified: May 11, 2016
This is version 105 of the entry and version 2 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

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.