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Protein

Ubiquitin-like protein ATG12B

Gene

ATG12B

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Ubiquitin-like protein involved in cytoplasm to vacuole transport (Cvt) and autophagy vesicles formation. Conjugation with ATG5 through a ubiquitin-like conjugating system involving also ATG7 as an E1-like activating enzyme and ATG10 as an E2-like conjugating enzyme, is essential for its function. ATG12/ATG5 conjugate has an essential role in plant nutrient recycling.1 Publication

GO - Molecular functioni

GO - Biological processi

  • autophagosome assembly Source: GO_Central
  • autophagy Source: TAIR
  • C-terminal protein lipidation Source: GO_Central
  • mitophagy Source: GO_Central
  • nucleophagy Source: GO_Central
  • protein transport Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Autophagy, Protein transport, Transport, Ubl conjugation pathway

Enzyme and pathway databases

ReactomeiR-ATH-1632852. Macroautophagy.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin-like protein ATG12B
Alternative name(s):
Autophagy-related protein 12b
Short name:
APG12-like protein b
Short name:
AtAPG12b
Gene namesi
Name:ATG12B
Synonyms:APG12, APG12B
Ordered Locus Names:At3g13970
ORF Names:MDC16.9
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G13970.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedBy similarity
Chaini2 – 9493Ubiquitin-like protein ATG12BPRO_0000250543Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanineBy similarity
Cross-linki94 – 94Glycyl lysine isopeptide (Gly-Lys) (interchain with K-128 in ATG5)By similarity

Keywords - PTMi

Acetylation, Isopeptide bond

Proteomic databases

PaxDbiQ9LVK3.

Expressioni

Tissue specificityi

Ubiquitous.1 Publication

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
ATG3Q0WWQ12EBI-8276588,EBI-8276607

Protein-protein interaction databases

BioGridi5945. 1 interaction.
IntActiQ9LVK3. 1 interaction.
STRINGi3702.AT3G13970.1.

Structurei

Secondary structure

1
94
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi11 – 188Combined sources
Beta strandi29 – 335Combined sources
Helixi39 – 4911Combined sources
Beta strandi55 – 628Combined sources
Helixi70 – 778Combined sources
Beta strandi82 – 898Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1WZ3X-ray1.80A/B1-94[»]
ProteinModelPortaliQ9LVK3.
SMRiQ9LVK3. Positions 10-93.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9LVK3.

Family & Domainsi

Sequence similaritiesi

Belongs to the ATG12 family.Curated

Phylogenomic databases

eggNOGiKOG3439. Eukaryota.
ENOG4111ND7. LUCA.
HOGENOMiHOG000234863.
InParanoidiQ9LVK3.
KOiK08336.
OMAiFSPSPDD.
OrthoDBiEOG09360XC2.
PhylomeDBiQ9LVK3.

Family and domain databases

CDDicd01612. APG12_C. 1 hit.
InterProiIPR007242. Atg12.
IPR029071. Ubiquitin-rel_dom.
[Graphical view]
PANTHERiPTHR13385. PTHR13385. 1 hit.
PfamiPF04110. APG12. 1 hit.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 1 hit.

Sequencei

Sequence statusi: Complete.

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

Q9LVK3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MATESPNSVQ KIVVHLRATG GAPILKQSKF KVSGSDKFAN VIDFLRRQLH
60 70 80 90
SDSLFVYVNS AFSPNPDESV IDLYNNFGFD GKLVVNYACS MAWG
Length:94
Mass (Da):10,358
Last modified:October 1, 2000 - v1
Checksum:i5BA77795F9C89D6A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB073185 mRNA. Translation: BAB88397.1.
AB019229 Genomic DNA. Translation: BAB02327.1.
CP002686 Genomic DNA. Translation: AEE75446.1.
BT024653 mRNA. Translation: ABD57478.1.
AK118997 mRNA. Translation: BAC43573.1.
RefSeqiNP_188013.2. NM_112251.3.
UniGeneiAt.39312.

Genome annotation databases

EnsemblPlantsiAT3G13970.1; AT3G13970.1; AT3G13970.
GeneIDi820611.
GrameneiAT3G13970.1; AT3G13970.1; AT3G13970.
KEGGiath:AT3G13970.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB073185 mRNA. Translation: BAB88397.1.
AB019229 Genomic DNA. Translation: BAB02327.1.
CP002686 Genomic DNA. Translation: AEE75446.1.
BT024653 mRNA. Translation: ABD57478.1.
AK118997 mRNA. Translation: BAC43573.1.
RefSeqiNP_188013.2. NM_112251.3.
UniGeneiAt.39312.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1WZ3X-ray1.80A/B1-94[»]
ProteinModelPortaliQ9LVK3.
SMRiQ9LVK3. Positions 10-93.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi5945. 1 interaction.
IntActiQ9LVK3. 1 interaction.
STRINGi3702.AT3G13970.1.

Proteomic databases

PaxDbiQ9LVK3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G13970.1; AT3G13970.1; AT3G13970.
GeneIDi820611.
GrameneiAT3G13970.1; AT3G13970.1; AT3G13970.
KEGGiath:AT3G13970.

Organism-specific databases

TAIRiAT3G13970.

Phylogenomic databases

eggNOGiKOG3439. Eukaryota.
ENOG4111ND7. LUCA.
HOGENOMiHOG000234863.
InParanoidiQ9LVK3.
KOiK08336.
OMAiFSPSPDD.
OrthoDBiEOG09360XC2.
PhylomeDBiQ9LVK3.

Enzyme and pathway databases

ReactomeiR-ATH-1632852. Macroautophagy.

Miscellaneous databases

EvolutionaryTraceiQ9LVK3.
PROiQ9LVK3.

Family and domain databases

CDDicd01612. APG12_C. 1 hit.
InterProiIPR007242. Atg12.
IPR029071. Ubiquitin-rel_dom.
[Graphical view]
PANTHERiPTHR13385. PTHR13385. 1 hit.
PfamiPF04110. APG12. 1 hit.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiAT12B_ARATH
AccessioniPrimary (citable) accession number: Q9LVK3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 3, 2006
Last sequence update: October 1, 2000
Last modified: September 7, 2016
This is version 91 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.