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Protein

Phosphopantothenoylcysteine decarboxylase

Gene

HAL3A

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

Functioni

Involved in plant growth and salt and osmotic tolerance. Catalyzes the decarboxylation of 4'-phosphopantothenoylcysteine to 4'-phosphopantetheine, a key step in coenzyme A biosynthesis. The enzyme is also able to decarboxylate pantothenoylcysteine to pantothenoylcysteamine.2 Publications

Catalytic activityi

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

Cofactori

FMNNote: Binds 1 FMN per subunit.

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 2 (PANK2), Pantothenate kinase 1 (PANK1)
  2. Phosphopantothenate--cysteine ligase 2 (PPCS2), Phosphopantothenate--cysteine ligase 1 (PPCS1)
  3. Probable phosphopantothenoylcysteine decarboxylase (HAL3B), Phosphopantothenoylcysteine decarboxylase (HAL3A)
  4. Phosphopantetheine adenylyltransferase (COAD)
  5. Dephospho-CoA kinase (COAE)
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 sitei140FMN; via carbonyl oxygen2 Publications1
Binding sitei142Substrate; via amide nitrogen1
Active sitei175Proton donor1
Binding sitei183Substrate; via amide nitrogen1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi28 – 30FMN2 Publications3
Nucleotide bindingi53 – 55FMN2 Publications3
Nucleotide bindingi106 – 109FMN2 Publications4

GO - Molecular functioni

  • phosphopantothenoylcysteine decarboxylase activity Source: TAIR

GO - Biological processi

  • coenzyme A biosynthetic process Source: CACAO
  • hyperosmotic salinity response Source: TAIR
  • regulation of growth Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Coenzyme A biosynthesis, Growth regulation, Stress response

Keywords - Ligandi

Flavoprotein, FMN

Enzyme and pathway databases

BRENDAi4.1.1.36. 399.
ReactomeiR-ATH-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):
AtCoaC1
Halotolerance protein Hal3a
Short name:
AtHal3a
Gene namesi
Name:HAL3A
Synonyms:COAC1
Ordered Locus Names:At3g18030
ORF Names:MBG14.2
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G18030.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: TAIR
Complete GO annotation...

Pathology & Biotechi

Disruption phenotypei

No visible phenotype under normal growth conditions, but homozygous double mutants hal3a-1 and hal3b are embryonic lethal.1 Publication

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi30V → I: No effect on activity. 1 Publication1
Mutagenesisi33I → L or V: No effect on activity. 1 Publication1
Mutagenesisi34K → N or R: No effect on activity. 1 Publication1
Mutagenesisi34K → Q: Small decrease of activity. 1 Publication1
Mutagenesisi90H → N: Complete loss of activity. 1 Publication1
Mutagenesisi95R → Q: Very low activity. Can reduce the oxidied intermediate. 1 Publication1
Mutagenesisi142N → D: Complete loss of activity. 1 Publication1
Mutagenesisi145M → L: Complete loss of activity. 1 Publication1
Mutagenesisi174A → S: Significantly reduced activity. Can reduce the oxidied intermediate. 1 Publication1
Mutagenesisi174A → V: No effect. 1 Publication1
Mutagenesisi175C → S: Complete loss of activity. 1 Publication1
Mutagenesisi177D → N: Very low activity. Can reduce the oxidied intermediate. 1 Publication1
Mutagenesisi179G → A: Very low activity. Can reduce the oxidied intermediate. 1 Publication1
Mutagenesisi181G → A: Significantly reduced activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001820321 – 209Phosphopantothenoylcysteine decarboxylaseAdd BLAST209

Proteomic databases

PaxDbiQ9SWE5.

Expressioni

Tissue specificityi

Expressed in roots, shoots, leaves, flowers, developing siliques and seeds with highest expression in seed embryos and phloem.1 Publication

Inductioni

By salt stress.1 Publication

Gene expression databases

GenevisibleiQ9SWE5. AT.

Interactioni

Subunit structurei

Homotrimer.2 Publications

Protein-protein interaction databases

BioGridi6660. 1 interactor.
STRINGi3702.AT3G18030.1.

Structurei

Secondary structure

1209
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi21 – 26Combined sources6
Helixi30 – 34Combined sources5
Helixi35 – 43Combined sources9
Beta strandi46 – 52Combined sources7
Helixi55 – 58Combined sources4
Helixi62 – 64Combined sources3
Beta strandi70 – 72Combined sources3
Helixi76 – 80Combined sources5
Helixi89 – 96Combined sources8
Beta strandi98 – 105Combined sources8
Helixi107 – 115Combined sources9
Helixi121 – 127Combined sources7
Beta strandi135 – 139Combined sources5
Helixi143 – 147Combined sources5
Helixi149 – 161Combined sources13
Beta strandi169 – 172Combined sources4
Beta strandi178 – 182Combined sources5
Helixi186 – 199Combined sources14

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1E20X-ray2.02A1-209[»]
1MVLX-ray2.00A1-209[»]
1MVNX-ray2.21A1-209[»]
ProteinModelPortaliQ9SWE5.
SMRiQ9SWE5.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9SWE5.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni172 – 174Substrate binding3

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG0672. Eukaryota.
COG0452. LUCA.
HOGENOMiHOG000187629.
KOiK01598.
OMAiKHFYSPQ.
OrthoDBiEOG09360KXU.
PhylomeDBiQ9SWE5.

Family and domain databases

Gene3Di3.40.50.1950. 1 hit.
InterProiIPR003382. Flavoprotein.
[Graphical view]
PfamiPF02441. Flavoprotein. 1 hit.
[Graphical view]
SUPFAMiSSF52507. SSF52507. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9SWE5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MENGKRDRQD MEVNTTPRKP RVLLAASGSV AAIKFGNLCH CFTEWAEVRA
60 70 80 90 100
VVTKSSLHFL DKLSLPQEVT LYTDEDEWSS WNKIGDPVLH IELRRWADVL
110 120 130 140 150
VIAPLSANTL GKIAGGLCDN LLTCIIRAWD YTKPLFVAPA MNTLMWNNPF
160 170 180 190 200
TERHLLSLDE LGITLIPPIK KRLACGDYGN GAMAEPSLIY STVRLFWESQ

AHQQTGGTS
Length:209
Mass (Da):23,355
Last modified:May 1, 2000 - v1
Checksum:i3AB1BB364F8E40DE
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF166262 Genomic DNA. Translation: AAD51616.1.
AB026641 Genomic DNA. Translation: BAB01331.1.
CP002686 Genomic DNA. Translation: AEE76036.1.
BT014781 mRNA. Translation: AAT41764.1.
BT015689 mRNA. Translation: AAU29466.1.
AK228559 mRNA. Translation: BAF00478.1.
RefSeqiNP_188430.1. NM_112684.5.
UniGeneiAt.24652.

Genome annotation databases

EnsemblPlantsiAT3G18030.1; AT3G18030.1; AT3G18030.
GeneIDi821327.
GrameneiAT3G18030.1; AT3G18030.1; AT3G18030.
KEGGiath:AT3G18030.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF166262 Genomic DNA. Translation: AAD51616.1.
AB026641 Genomic DNA. Translation: BAB01331.1.
CP002686 Genomic DNA. Translation: AEE76036.1.
BT014781 mRNA. Translation: AAT41764.1.
BT015689 mRNA. Translation: AAU29466.1.
AK228559 mRNA. Translation: BAF00478.1.
RefSeqiNP_188430.1. NM_112684.5.
UniGeneiAt.24652.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1E20X-ray2.02A1-209[»]
1MVLX-ray2.00A1-209[»]
1MVNX-ray2.21A1-209[»]
ProteinModelPortaliQ9SWE5.
SMRiQ9SWE5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi6660. 1 interactor.
STRINGi3702.AT3G18030.1.

Proteomic databases

PaxDbiQ9SWE5.

Protocols and materials databases

DNASUi821327.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G18030.1; AT3G18030.1; AT3G18030.
GeneIDi821327.
GrameneiAT3G18030.1; AT3G18030.1; AT3G18030.
KEGGiath:AT3G18030.

Organism-specific databases

TAIRiAT3G18030.

Phylogenomic databases

eggNOGiKOG0672. Eukaryota.
COG0452. LUCA.
HOGENOMiHOG000187629.
KOiK01598.
OMAiKHFYSPQ.
OrthoDBiEOG09360KXU.
PhylomeDBiQ9SWE5.

Enzyme and pathway databases

UniPathwayiUPA00241; UER00354.
BRENDAi4.1.1.36. 399.
ReactomeiR-ATH-196783. Coenzyme A biosynthesis.

Miscellaneous databases

EvolutionaryTraceiQ9SWE5.
PROiQ9SWE5.

Gene expression databases

GenevisibleiQ9SWE5. AT.

Family and domain databases

Gene3Di3.40.50.1950. 1 hit.
InterProiIPR003382. Flavoprotein.
[Graphical view]
PfamiPF02441. Flavoprotein. 1 hit.
[Graphical view]
SUPFAMiSSF52507. SSF52507. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiHAL3A_ARATH
AccessioniPrimary (citable) accession number: Q9SWE5
Secondary accession number(s): Q6ID92
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 21, 2001
Last sequence update: May 1, 2000
Last modified: November 30, 2016
This is version 125 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. 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.