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Protein

Isocitrate lyase

Gene

ICL

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

Functioni

Involved in storage lipid mobilization during the growth of higher plant seedling.2 Publications

Catalytic activityi

Isocitrate = succinate + glyoxylate.2 Publications

Cofactori

Mg2+By similarity

Pathwayi: glyoxylate cycle

This protein is involved in step 1 of the subpathway that synthesizes (S)-malate from isocitrate.Curated
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. Isocitrate lyase (ICL)
  2. Malate synthase, Malate synthase (MLS), Malate synthase, Malate synthase, Malate synthase (AXX17_At5g03190)
This subpathway is part of the pathway glyoxylate cycle, which is itself part of Carbohydrate metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes (S)-malate from isocitrate, the pathway glyoxylate cycle and in Carbohydrate metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi175MagnesiumBy similarity1
Active sitei213Proton acceptorCurated1
Binding sitei250SubstrateBy similarity1
Binding sitei472SubstrateBy similarity1

GO - Molecular functioni

  • isocitrate lyase activity Source: UniProtKB
  • metal ion binding Source: UniProtKB-KW

GO - Biological processi

  • glyoxylate cycle Source: UniProtKB
  • tricarboxylic acid cycle Source: UniProtKB-KW

Keywordsi

Molecular functionLyase
Biological processGlyoxylate bypass, Tricarboxylic acid cycle
LigandMagnesium, Metal-binding

Enzyme and pathway databases

BioCyciARA:AT3G21720-MONOMER.
MetaCyc:MONOMER-1601.
UniPathwayiUPA00703; UER00719.

Names & Taxonomyi

Protein namesi
Recommended name:
Isocitrate lyase1 Publication (EC:4.1.3.12 Publications)
Short name:
ICL1 Publication
Alternative name(s):
IsocitraseCurated
IsocitratsysaseCurated
Gene namesi
Name:ICL1 Publication
Ordered Locus Names:At3g21720
ORF Names:MSD21.3Imported
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

AraportiAT3G21720.
TAIRilocus:2093049. AT3G21720.

Subcellular locationi

GO - Cellular componenti

  • glyoxysome Source: UniProtKB

Keywords - Cellular componenti

Glyoxysome, Peroxisome

Pathology & Biotechi

Disruption phenotypei

No visible phenotype under normal growth conditions, but mutant seedlings fail to establish into plantlets with true leaves under low light or short day conditions.2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000688011 – 576Isocitrate lyaseAdd BLAST576

Proteomic databases

PaxDbiP28297.
PRIDEiP28297.

Expressioni

Developmental stagei

Expressed from 1 to 3 days after seed imbibition (PubMed:10805817). Expressed from 1 to 5 days after seed imbibition (at protein level).2 Publications

Gene expression databases

ExpressionAtlasiP28297. baseline and differential.
GenevisibleiP28297. AT.

Interactioni

Subunit structurei

Homotetramer.By similarity

Protein-protein interaction databases

BioGridi7058. 5 interactors.
IntActiP28297. 2 interactors.
STRINGi3702.AT3G21720.1.

Structurei

3D structure databases

ProteinModelPortaliP28297.
SMRiP28297.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni104 – 106Substrate bindingBy similarity3
Regioni214 – 215Substrate bindingBy similarity2
Regioni437 – 441Substrate bindingBy similarity5

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi574 – 576Microbody targeting signalCurated3

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1260. Eukaryota.
COG2224. LUCA.
HOGENOMiHOG000238475.
InParanoidiP28297.
KOiK01637.
OMAiLEKDWAE.
OrthoDBiEOG09360640.
PhylomeDBiP28297.

Family and domain databases

InterProiView protein in InterPro
IPR006254. Isocitrate_lyase.
IPR018523. Isocitrate_lyase_ph_CS.
IPR015813. Pyrv/PenolPyrv_Kinase-like_dom.
PANTHERiPTHR21631. PTHR21631. 1 hit.
PfamiView protein in Pfam
PF00463. ICL. 1 hit.
PIRSFiPIRSF001362. Isocit_lyase. 2 hits.
SUPFAMiSSF51621. SSF51621. 1 hit.
TIGRFAMsiTIGR01346. isocit_lyase. 1 hit.
PROSITEiView protein in PROSITE
PS00161. ISOCITRATE_LYASE. 1 hit.

Sequencei

Sequence statusi: Complete.

P28297-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAASFSVPSM IMEEEGRFEA EVAEVQTWWS SERFKLTRRP YTARDVVALR
60 70 80 90 100
GHLKQGYASN EMAKKLWRTL KSHQANGTAS RTFGALDPVQ VTMMAKHLDT
110 120 130 140 150
IYVSGWQCSS THTSTNEPGP DLADYPYDTV PNKVEHLFFA QQYHDRKQRE
160 170 180 190 200
ARMSMSREER TKTPFVDYLK PIIADGDTGF GGTTATVKLC KLFVERGAAG
210 220 230 240 250
VHIEDQSSVT KKCGHMAGKV LVAVSEHINR LVAARLQFDV MGTETVLVAR
260 270 280 290 300
TDAVAATLIQ SNIDARDHQF ILGATNPSLR GKSLSSLLAE GMTVGKNGPA
310 320 330 340 350
LQSIEDQWLG SAGLMTFSEA VVQAIKRMNL NENEKNQRLS EWLTHARYEN
360 370 380 390 400
CLSNEQGRVL AAKLGVTDLF WDWDLPRTRE GFYRFQGSVA AAVVRGWAFA
410 420 430 440 450
QIADIIWMET ASPDLNECTQ FAEGIKSKTP EVMLAYNLSP SFNWDASGMT
460 470 480 490 500
DQQMVEFIPR IARLGYCWQF ITLAGFHADA LVVDTFAKDY ARRGMLAYVE
510 520 530 540 550
RIQREERTHG VDTLAHQKWS GANYYDRYLK TVQGGISSTA AMGKGVTEEQ
560 570
FKESWTRPGA DGMGEGTSLV VAKSRM
Length:576
Mass (Da):64,245
Last modified:December 1, 2000 - v2
Checksum:i528F15CE04DD4A87
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti1 – 10MAASFSVPSM → MIDKPNQ in AAA32823 (Ref. 4) Curated10
Sequence conflicti452 – 455QQMV → PLTC in AAA32823 (Ref. 4) Curated4

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB025634 Genomic DNA. Translation: BAB02834.1.
CP002686 Genomic DNA. Translation: AEE76544.1.
AY140000 mRNA. Translation: AAM98142.1.
BT010397 mRNA. Translation: AAQ56840.1.
M83534 Genomic DNA. Translation: AAA32823.1.
Z18772 mRNA. Translation: CAA79248.1.
RefSeqiNP_188809.2. NM_113067.4.
UniGeneiAt.38005.

Genome annotation databases

EnsemblPlantsiAT3G21720.1; AT3G21720.1; AT3G21720.
GeneIDi821726.
GrameneiAT3G21720.1; AT3G21720.1; AT3G21720.
KEGGiath:AT3G21720.

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.

Entry informationi

Entry nameiACEA_ARATH
AccessioniPrimary (citable) accession number: P28297
Secondary accession number(s): Q41948, Q9LSZ2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 1, 1992
Last sequence update: December 1, 2000
Last modified: July 5, 2017
This is version 143 of the entry and version 2 of the sequence. See 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families