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Q9SWE5

- HAL3A_ARATH

UniProt

Q9SWE5 - HAL3A_ARATH

Protein

Phosphopantothenoylcysteine decarboxylase

Gene

HAL3A

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 111 (01 Oct 2014)
      Sequence version 1 (01 May 2000)
      Previous versions | rss
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    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

    Binds 1 FMN per subunit.

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei140 – 1401FMN; via carbonyl oxygen2 Publications
    Binding sitei142 – 1421Substrate; via amide nitrogen
    Active sitei175 – 1751Proton donor
    Binding sitei183 – 1831Substrate; via amide nitrogen

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi28 – 303FMN2 Publications
    Nucleotide bindingi53 – 553FMN2 Publications
    Nucleotide bindingi106 – 1094FMN2 Publications

    GO - Molecular functioni

    1. phosphopantothenoylcysteine decarboxylase activity Source: TAIR

    GO - Biological processi

    1. coenzyme A biosynthetic process Source: TAIR
    2. hyperosmotic salinity response Source: TAIR
    3. regulation of growth Source: UniProtKB-KW

    Keywords - Molecular functioni

    Decarboxylase, Lyase

    Keywords - Biological processi

    Coenzyme A biosynthesis, Growth regulation, Stress response

    Keywords - Ligandi

    Flavoprotein, FMN

    Enzyme and pathway databases

    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
    ProteomesiUP000006548: Chromosome 3

    Organism-specific databases

    TAIRiAT3G18030.

    Subcellular locationi

    GO - Cellular componenti

    1. cytosol Source: TAIR

    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)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi30 – 301V → I: No effect on activity. 1 Publication
    Mutagenesisi33 – 331I → L or V: No effect on activity. 1 Publication
    Mutagenesisi34 – 341K → N or R: No effect on activity. 1 Publication
    Mutagenesisi34 – 341K → Q: Small decrease of activity. 1 Publication
    Mutagenesisi90 – 901H → N: Complete loss of activity. 1 Publication
    Mutagenesisi95 – 951R → Q: Very low activity. Can reduce the oxidied intermediate. 1 Publication
    Mutagenesisi142 – 1421N → D: Complete loss of activity. 1 Publication
    Mutagenesisi145 – 1451M → L: Complete loss of activity. 1 Publication
    Mutagenesisi174 – 1741A → S: Significantly reduced activity. Can reduce the oxidied intermediate. 1 Publication
    Mutagenesisi174 – 1741A → V: No effect. 1 Publication
    Mutagenesisi175 – 1751C → S: Complete loss of activity. 1 Publication
    Mutagenesisi177 – 1771D → N: Very low activity. Can reduce the oxidied intermediate. 1 Publication
    Mutagenesisi179 – 1791G → A: Very low activity. Can reduce the oxidied intermediate. 1 Publication
    Mutagenesisi181 – 1811G → A: Significantly reduced activity. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 209209Phosphopantothenoylcysteine decarboxylasePRO_0000182032Add
    BLAST

    Proteomic databases

    PaxDbiQ9SWE5.
    PRIDEiQ9SWE5.

    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

    GenevestigatoriQ9SWE5.

    Interactioni

    Subunit structurei

    Homotrimer.2 Publications

    Protein-protein interaction databases

    BioGridi6660. 1 interaction.

    Structurei

    Secondary structure

    1
    209
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi21 – 266
    Helixi30 – 345
    Helixi35 – 439
    Beta strandi46 – 527
    Helixi55 – 584
    Helixi62 – 643
    Beta strandi70 – 723
    Helixi76 – 805
    Helixi89 – 968
    Beta strandi98 – 1058
    Helixi107 – 1159
    Helixi121 – 1277
    Beta strandi135 – 1395
    Helixi143 – 1475
    Helixi149 – 16113
    Beta strandi169 – 1724
    Beta strandi178 – 1825
    Helixi186 – 19914

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1E20X-ray2.02A1-209[»]
    1MVLX-ray2.00A1-209[»]
    1MVNX-ray2.21A1-209[»]
    ProteinModelPortaliQ9SWE5.
    SMRiQ9SWE5. Positions 18-202.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ9SWE5.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni172 – 1743Substrate binding

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiCOG0452.
    HOGENOMiHOG000187629.
    InParanoidiQ9SWE5.
    KOiK01598.
    OMAiKHFYNPQ.
    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

    MENGKRDRQD MEVNTTPRKP RVLLAASGSV AAIKFGNLCH CFTEWAEVRA    50
    VVTKSSLHFL DKLSLPQEVT LYTDEDEWSS WNKIGDPVLH IELRRWADVL 100
    VIAPLSANTL GKIAGGLCDN LLTCIIRAWD YTKPLFVAPA MNTLMWNNPF 150
    TERHLLSLDE LGITLIPPIK KRLACGDYGN GAMAEPSLIY STVRLFWESQ 200
    AHQQTGGTS 209
    Length:209
    Mass (Da):23,355
    Last modified:May 1, 2000 - v1
    Checksum:i3AB1BB364F8E40DE
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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_112684.4.
    UniGeneiAt.24652.

    Genome annotation databases

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

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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 .
    RefSeqi NP_188430.1. NM_112684.4.
    UniGenei At.24652.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1E20 X-ray 2.02 A 1-209 [» ]
    1MVL X-ray 2.00 A 1-209 [» ]
    1MVN X-ray 2.21 A 1-209 [» ]
    ProteinModelPortali Q9SWE5.
    SMRi Q9SWE5. Positions 18-202.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 6660. 1 interaction.

    Proteomic databases

    PaxDbi Q9SWE5.
    PRIDEi Q9SWE5.

    Protocols and materials databases

    DNASUi 821327.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT3G18030.1 ; AT3G18030.1 ; AT3G18030 .
    GeneIDi 821327.
    KEGGi ath:AT3G18030.

    Organism-specific databases

    TAIRi AT3G18030.

    Phylogenomic databases

    eggNOGi COG0452.
    HOGENOMi HOG000187629.
    InParanoidi Q9SWE5.
    KOi K01598.
    OMAi KHFYNPQ.
    PhylomeDBi Q9SWE5.

    Enzyme and pathway databases

    UniPathwayi UPA00241 ; UER00354 .

    Miscellaneous databases

    EvolutionaryTracei Q9SWE5.

    Gene expression databases

    Genevestigatori Q9SWE5.

    Family and domain databases

    Gene3Di 3.40.50.1950. 1 hit.
    InterProi IPR003382. Flavoprotein.
    [Graphical view ]
    Pfami PF02441. Flavoprotein. 1 hit.
    [Graphical view ]
    SUPFAMi SSF52507. SSF52507. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Arabidopsis thaliana AtHAL3: a flavoprotein related to salt and osmotic tolerance and plant growth."
      Espinosa-Ruiz A., Belles J.M., Serrano R., Culianez-Macia F.A.
      Plant J. 20:529-539(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], TISSUE SPECIFICITY, INDUCTION.
      Strain: cv. Columbia.
    2. "Structural analysis of Arabidopsis thaliana chromosome 3. II. Sequence features of the 4,251,695 bp regions covered by 90 P1, TAC and BAC clones."
      Kaneko T., Katoh T., Sato S., Nakamura Y., Asamizu E., Tabata S.
      DNA Res. 7:217-221(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Columbia.
    3. The Arabidopsis Information Resource (TAIR)
      Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
      Cited for: GENOME REANNOTATION.
      Strain: cv. Columbia.
    4. "Arabidopsis ORF clones."
      Shinn P., Chen H., Cheuk R.F., Kim C.J., Ecker J.R.
      Submitted (SEP-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Strain: cv. Columbia.
    5. "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs."
      Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.
      , Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y., Shinozaki K.
      Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Strain: cv. Columbia.
    6. "Arabidopsis thaliana flavoprotein AtHAL3a catalyzes the decarboxylation of 4'-Phosphopantothenoylcysteine to 4'-phosphopantetheine, a key step in coenzyme A biosynthesis."
      Kupke T., Hernandez-Acosta P., Steinbacher S., Culianez-Macia F.A.
      J. Biol. Chem. 276:19190-19196(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: CHARACTERIZATION OF ACTIVITY, MUTAGENESIS OF HIS-90.
    7. "Molecular characterization of the Arabidopsis thaliana flavoprotein AtHAL3a reveals the general reaction mechanism of 4'-phosphopantothenoylcysteine decarboxylases."
      Hernandez-Acosta P., Schmid D.G., Jung G., Culianez-Macia F.A., Kupke T.
      J. Biol. Chem. 277:20490-20498(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: CHARACTERIZATION OF ACTIVITY, MUTAGENESIS OF VAL-30; ILE-33; LYS-34; ARG-95; ASN-142; MET-145; ALA-174; CYS-175; ASP-177; GLY-179 AND GLY-181.
    8. "4'-phosphopantetheine and coenzyme A biosynthesis in plants."
      Kupke T., Hernandez-Acosta P., Culianez-Macia F.A.
      J. Biol. Chem. 278:38229-38237(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
      Strain: cv. Columbia.
    9. "An Arabidopsis mutant impaired in coenzyme A biosynthesis is sugar dependent for seedling establishment."
      Rubio S., Larson T.R., Gonzalez-Guzman M., Alejandro S., Graham I.A., Serrano R., Rodriguez P.L.
      Plant Physiol. 140:830-843(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, DISRUPTION PHENOTYPE.
    10. "The X-ray structure of the FMN-binding protein AtHal3 provides the structural basis for the activity of a regulatory subunit involved in signal transduction."
      Albert A., Martinez-Ripoll M., Espinosa-Ruiz A., Yenush L., Culianez-Macia F.A., Serrano R.
      Structure 8:961-969(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS) IN COMPLEX WITH FMN.
    11. "Crystal structure of the plant PPC decarboxylase AtHAL3a complexed with an ene-thiol reaction intermediate."
      Steinbacher S., Hernandez-Acosta P., Bieseler B., Blaesse M., Huber R., Culianez-Macia F.A., Kupke T.
      J. Mol. Biol. 327:193-202(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.21 ANGSTROMS) OF MUTANT SER-175 IN COMPLEX WITH SUBSTRATE ANALOG AND FMN.

    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: October 1, 2014
    This is version 111 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

    External Data

    Dasty 3