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Protein

Phosphopantothenoylcysteine decarboxylase

Gene

HAL3

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the decarboxylation of 4'-phosphopantothenoylcysteine to 4'-phosphopantetheine, a key step in coenzyme A biosynthesis. Involved in salt and osmotic tolerance, and light-regulated plant growth. Trimerization of HAL3 recruits and activates the E3 ubiquitin-protein ligase HIP1, which leads to the degradation of cell cycle suppressors, resulting in enhancement of cell division and plant growth. HAL3 function in cell division seems to be independent from its PPC decarboxylase activity.2 Publications

Miscellaneous

Seedlings over-expressing HAL3 show enhanced growth rate under normal light/dark cycles, enhanced salt tolerance and Na+/K+ homeostasis. Enhanced growth is due to increased cell number of root meristematic zone and root cap (PubMed:19543273).1 Publication

Catalytic activityi

N-((R)-4'-phosphopantothenoyl)-L-cysteine = pantotheine 4'-phosphate + CO2.

Cofactori

FMN1 PublicationNote: Binds 1 FMN per subunit.1 Publication

Pathwayi: coenzyme A biosynthesis

This protein is involved in step 3 of the subpathway that synthesizes CoA from (R)-pantothenate.
Proteins known to be involved in the 5 steps of the subpathway in this organism are:
  1. Pantothenate kinase 1 (Os06g0207000), Pantothenate kinase 2 (OsJ_30119), Pantothenate kinase 2 (Os09g0533100)
  2. Phosphopantothenate--cysteine ligase 1 (Os02g0575200), Phosphopantothenate--cysteine ligase 2 (Os08g0176100)
  3. Phosphopantothenoylcysteine decarboxylase (HAL3)
  4. Phosphopantetheine adenylyltransferase 1 (Os07g0179400), Phosphopantetheine adenylyltransferase 2 (Os02g0134000)
  5. Dephospho-CoA kinase (Os01g0360600)
This subpathway is part of the pathway coenzyme A biosynthesis, which is itself part of Cofactor biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes CoA from (R)-pantothenate, the pathway coenzyme A biosynthesis and in Cofactor biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei141FMN; via carbonyl oxygenBy similarity1
Binding sitei143Substrate; via amide nitrogenBy similarity1
Active sitei176Proton donorCurated1
Binding sitei184Substrate; via amide nitrogenBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi29 – 31FMNBy similarity3
Nucleotide bindingi54 – 56FMNBy similarity3
Nucleotide bindingi107 – 110FMNBy similarity4

GO - Molecular functioni

  • FMN binding Source: UniProtKB
  • phosphopantothenoylcysteine decarboxylase activity Source: UniProtKB

GO - Biological processi

  • coenzyme A biosynthetic process Source: UniProtKB
  • protein homotrimerization Source: UniProtKB
  • regulation of cell growth Source: UniProtKB
  • response to salt stress Source: UniProtKB

Keywordsi

Molecular functionDecarboxylase, Lyase
Biological processCoenzyme A biosynthesis, Growth regulation, Stress response
LigandFlavoprotein, FMN

Enzyme and pathway databases

ReactomeiR-OSA-196783. Coenzyme A biosynthesis.
UniPathwayiUPA00241; UER00354.

Names & Taxonomyi

Protein namesi
Recommended name:
Phosphopantothenoylcysteine decarboxylase (EC:4.1.1.36)
Short name:
PPCDC
Alternative name(s):
Halotolerance protein HAL3
Short name:
OsHAL3
Gene namesi
Name:HAL3
Ordered Locus Names:Os06g0199500, LOC_Os06g09910
ORF Names:B1172G12.27-1, OJ1147_D11.5-1, OsJ_20467
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryzaOryza sativa
Proteomesi
  • UP000059680 Componenti: Chromosome 6

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi107 – 110SANT → PPYP: Loss of FMN binding and unable to form homotrimer. 1 Publication4
Mutagenesisi146M → L: No effect on the activity. 1 Publication1
Mutagenesisi176C → S: Loss of activity. 2 Publications1
Mutagenesisi178D → N: No effect on the activity. 1 Publication1
Mutagenesisi180G → A: Reduces activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004294081 – 220Phosphopantothenoylcysteine decarboxylaseAdd BLAST220

Proteomic databases

PaxDbiQ69K55.
PRIDEiQ69K55.

Expressioni

Tissue specificityi

Expressed in root meristem, shoot apical meristem (SAM), intercalary meristem, floral meristem, embryo and tip of the coleoptile before true leaf emergence.1 Publication

Inductioni

By dark.1 Publication

Gene expression databases

GenevisibleiQ69K55. OS.

Interactioni

Subunit structurei

Homotrimer. Interacts with HIP1.1 Publication

Protein-protein interaction databases

STRINGi39947.LOC_Os06g09910.1.

Structurei

3D structure databases

ProteinModelPortaliQ69K55.
SMRiQ69K55.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni173 – 175Substrate bindingBy similarity3

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG0672. Eukaryota.
COG0452. LUCA.
InParanoidiQ69K55.
KOiK01598.
OMAiKHFYSPQ.
OrthoDBiEOG09360KXU.

Family and domain databases

Gene3Di3.40.50.1950. 1 hit.
InterProiView protein in InterPro
IPR036551. Flavin_trans-like.
IPR003382. Flavoprotein.
PfamiView protein in Pfam
PF02441. Flavoprotein. 1 hit.
SUPFAMiSSF52507. SSF52507. 1 hit.

Sequencei

Sequence statusi: Complete.

Q69K55-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTTSESVQET LGLDFPHPSK PRVLLAASGS VAAIKFESLC RSFSEWAEVR
60 70 80 90 100
AVATKASLHF IDRTSLPSNI ILYTDDDEWS TWKKIGDEVL HIELRKWADI
110 120 130 140 150
MVIAPLSANT LAKIAGGLCD NLLTCIVRAW DYSKPLFVAP AMNTFMWNNP
160 170 180 190 200
FTSRHLETIN LLGISLVPPI TKRLACGDYG NGAMAEPSVI DSTVRLACKR
210 220
QPLNTNSSPV VPAGRNLPSS
Length:220
Mass (Da):24,084
Last modified:September 13, 2004 - v1
Checksum:i10AB8B35D1D759F5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP003946 Genomic DNA. Translation: BAD35576.1.
AP006056 Genomic DNA. Translation: BAD36646.1.
AP008212 Genomic DNA. Translation: BAF18982.1.
AP014962 Genomic DNA. Translation: BAS96646.1.
CM000143 Genomic DNA. Translation: EEE65262.1.
AK060939 mRNA. Translation: BAG87631.1.
AK064613 mRNA. Translation: BAG89128.1.
AK100138 mRNA. Translation: BAG94463.1.
RefSeqiXP_015641201.1. XM_015785715.1.
XP_015641202.1. XM_015785716.1.
XP_015641203.1. XM_015785717.1.
UniGeneiOs.48661.

Genome annotation databases

EnsemblPlantsiOS06T0199500-01; OS06T0199500-01; OS06G0199500.
OS06T0199500-02; OS06T0199500-02; OS06G0199500.
GeneIDi4340408.
GrameneiOS06T0199500-01; OS06T0199500-01; OS06G0199500.
OS06T0199500-02; OS06T0199500-02; OS06G0199500.
KEGGiosa:4340408.

Similar proteinsi

Entry informationi

Entry nameiHAL3_ORYSJ
AccessioniPrimary (citable) accession number: Q69K55
Secondary accession number(s): A0A0P0WU76
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 11, 2014
Last sequence update: September 13, 2004
Last modified: October 25, 2017
This is version 90 of the entry and version 1 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  3. SIMILARITY comments
    Index of protein domains and families