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Protein

Isocitrate lyase

Gene

ICL1

Organism
Komagataella pastoris (Yeast) (Pichia pastoris)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the formation of succinate and glyoxylate from isocitrate, a key step of the glyoxylate cycle, which operates as an anaplerotic route for replenishing the tricarboxylic acid cycle. Required for growth on ethanol or acetate, but dispensable when fermentable carbon sources are available. Acts also on 2-methylisocitrate.By similarity

Catalytic activityi

Isocitrate = succinate + glyoxylate.By similarity
(2S,3R)-3-hydroxybutane-1,2,3-tricarboxylate = pyruvate + succinate.By similarity

Cofactori

Mg2+By similarity

Pathway: glyoxylate cycle

This protein is involved in step 1 of the subpathway that synthesizes (S)-malate from isocitrate.
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. Isocitrate lyase (ICL1)
  2. no protein annotated in this organism
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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi175 – 1751MagnesiumBy similarity
Active sitei213 – 2131Proton acceptorBy similarity
Binding sitei250 – 2501SubstrateBy similarity
Binding sitei468 – 4681SubstrateBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

Glyoxylate bypass, Tricarboxylic acid cycle

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

UniPathwayiUPA00703; UER00719.

Names & Taxonomyi

Protein namesi
Recommended name:
Isocitrate lyaseBy similarity (EC:4.1.3.1By similarity)
Short name:
ICLCurated
Short name:
IsocitraseCurated
Short name:
IsocitrataseCurated
Alternative name(s):
Methylisocitrate lyaseBy similarity (EC:4.1.3.30By similarity)
Short name:
MICACurated
Threo-D(S)-isocitrate glyoxylate-lyaseCurated
Gene namesi
Name:ICL1By similarity
OrganismiKomagataella pastoris (Yeast) (Pichia pastoris)
Taxonomic identifieri4922 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesPhaffomycetaceaeKomagataella

Subcellular locationi

  • Glyoxysome By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Glyoxysome, Peroxisome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 550550Isocitrate lyasePRO_0000068797Add
BLAST

Interactioni

Subunit structurei

Homotetramer.By similarity

Protein-protein interaction databases

STRINGi644223.XP_002490461.1.

Structurei

3D structure databases

ProteinModelPortaliQ9C124.
SMRiQ9C124. Positions 10-531.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni103 – 1053Substrate bindingBy similarity
Regioni214 – 2152Substrate bindingBy similarity
Regioni434 – 4385Substrate bindingBy similarity

Sequence similaritiesi

Family and domain databases

Gene3Di3.20.20.60. 2 hits.
InterProiIPR006254. Isocitrate_lyase.
IPR018523. Isocitrate_lyase_ph_CS.
IPR015813. Pyrv/PenolPyrv_Kinase-like_dom.
[Graphical view]
PANTHERiPTHR21631:SF3. PTHR21631:SF3. 1 hit.
PfamiPF00463. ICL. 1 hit.
[Graphical view]
SUPFAMiSSF51621. SSF51621. 1 hit.
TIGRFAMsiTIGR01346. isocit_lyase. 1 hit.
PROSITEiPS00161. ISOCITRATE_LYASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9C124-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSGPYTKIDL DKEEQDFQNQ IKEIEEWWSQ PRWAKTKRIY NAEDIAKRRS
60 70 80 90 100
SLSSVPASNQ QAQKLFKLLG EHAKNETASF TFGALDPIHI TQMAKYLDTI
110 120 130 140 150
YVSGWQCSST ASTSNEPSPD LADYPMDTVP NKVERLILRR QLFHDRKQRE
160 170 180 190 200
ERLSVSKQER AKLPYTDFLR PIIADADTGH GGITAIIKLT KMFIERGAAG
210 220 230 240 250
IHIEDQAPGT KKCGHMAGKV LVPVQEHINR LVAIRTSADL FQSDLIAVAR
260 270 280 290 300
TDSEAATLLT STIDKRDHYF VIGATNPDIP DLIDVLTEAE LQGKYGAELS
310 320 330 340 350
QLEADWSKKA GLKLYHEAVF EAIDKSSSVK DKQAAKDKFS AKVGPLTGTS
360 370 380 390 400
HKEAAKLAKE ILGEEVFFDW EAPKVREGYY RYQGGTECAI MRARAYSPYA
410 420 430 440 450
DLVWMESKVP DYQEAVDFAK GVKTFTQTNW LAYNLSPSFN WNKAMSPDEQ
460 470 480 490 500
ETYIKRLGKL GYNWQFITLA VLHTTALAVD NFSRDYQKIG MKAYGQQVQA
510 520 530 540 550
KEIEDGIEIV KHQKWSGAEY IDGLLKLTTG GLSSTAAMGA GVTEDQFKDH
Length:550
Mass (Da):61,744
Last modified:June 1, 2001 - v1
Checksum:i4DBE4BB5543CB6BD
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ272040 Genomic DNA. Translation: CAC34630.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ272040 Genomic DNA. Translation: CAC34630.1.

3D structure databases

ProteinModelPortaliQ9C124.
SMRiQ9C124. Positions 10-531.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi644223.XP_002490461.1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Enzyme and pathway databases

UniPathwayiUPA00703; UER00719.

Family and domain databases

Gene3Di3.20.20.60. 2 hits.
InterProiIPR006254. Isocitrate_lyase.
IPR018523. Isocitrate_lyase_ph_CS.
IPR015813. Pyrv/PenolPyrv_Kinase-like_dom.
[Graphical view]
PANTHERiPTHR21631:SF3. PTHR21631:SF3. 1 hit.
PfamiPF00463. ICL. 1 hit.
[Graphical view]
SUPFAMiSSF51621. SSF51621. 1 hit.
TIGRFAMsiTIGR01346. isocit_lyase. 1 hit.
PROSITEiPS00161. ISOCITRATE_LYASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Isolation and characterization of the ICL gene from Pichia pastoris."
    Menendez J.D.D.J., Valdes I., Cabrera N.
    Submitted (MAR-2001) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: BKM 90.

Entry informationi

Entry nameiACEA_PICPA
AccessioniPrimary (citable) accession number: Q9C124
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: June 1, 2001
Last modified: June 24, 2015
This is version 60 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.