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Protein

Hydroxymethylglutaryl-CoA synthase

Gene

HMGS

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

Functioni

This enzyme condenses acetyl-CoA with acetoacetyl-CoA to form HMG-CoA, which is the substrate for HMG-CoA reductase. Devoided of acetoacetyl-CoA thiolase (AACT) activity. Required for the development of both tapetosomes and elaioplasts in tapetal cells and for pollen viability during pollen tube elongation.1 Publication

Catalytic activityi

Acetyl-CoA + H2O + acetoacetyl-CoA = (S)-3-hydroxy-3-methylglutaryl-CoA + CoA.1 PublicationPROSITE-ProRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei83 – 831Proton donor/acceptorPROSITE-ProRule annotation
Active sitei117 – 1171Acyl-thioester intermediatePROSITE-ProRule annotation
Active sitei247 – 2471Proton donor/acceptorPROSITE-ProRule annotation

GO - Molecular functioni

  1. hydroxymethylglutaryl-CoA synthase activity Source: TAIR

GO - Biological processi

  1. isopentenyl diphosphate biosynthetic process, mevalonate pathway Source: TAIR
  2. sterol biosynthetic process Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Lipid biosynthesis, Lipid metabolism, Steroid biosynthesis, Steroid metabolism, Sterol biosynthesis, Sterol metabolism

Enzyme and pathway databases

BioCyciARA:AT4G11820-MONOMER.
ARA:GQT-1470-MONOMER.
MetaCyc:AT4G11820-MONOMER.
BRENDAi2.3.3.10. 399.
ReactomeiREACT_187634. PPARA activates gene expression.
REACT_252096. Synthesis of Ketone Bodies.
REACT_258444. Cholesterol biosynthesis.
REACT_261238. Activation of gene expression by SREBF (SREBP).
UniPathwayiUPA00058; UER00102.

Names & Taxonomyi

Protein namesi
Recommended name:
Hydroxymethylglutaryl-CoA synthase (EC:2.3.3.10)
Short name:
HMG-CoA synthase
Alternative name(s):
3-hydroxy-3-methylglutaryl coenzyme A synthase
Protein EMBRYO DEFECTIVE 2778
Protein FLAKY POLLEN 1
Gene namesi
Name:HMGS
Synonyms:EMB2778, FKP1, MVA1
Ordered Locus Names:At4g11820
ORF Names:T26M18.30
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 4

Organism-specific databases

TAIRiAT4G11820.

Subcellular locationi

GO - Cellular componenti

  1. cytosol Source: TAIR
  2. plasmodesma Source: TAIR
Complete GO annotation...

Pathology & Biotechi

Disruption phenotypei

Defect in pollen adhesion to the stigma resulting in male sterility under normal growth conditions.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 461461Hydroxymethylglutaryl-CoA synthasePRO_0000213756Add
BLAST

Proteomic databases

PaxDbiP54873.
PRIDEiP54873.

Expressioni

Tissue specificityi

Highly expressed in flower buds, pollen grains and anthers in the tapetal cells, at an intermediate levels in roots and weakly in leaves.1 Publication

Gene expression databases

GenevestigatoriP54873.

Structurei

3D structure databases

ProteinModelPortaliP54873.
SMRiP54873. Positions 2-451.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the HMG-CoA synthase family.Curated

Phylogenomic databases

eggNOGiCOG3425.
HOGENOMiHOG000012351.
InParanoidiP54873.
KOiK01641.
OMAiRDFTLND.
PhylomeDBiP54873.

Family and domain databases

Gene3Di3.40.47.10. 2 hits.
InterProiIPR000590. HMG_CoA_synt_AS.
IPR013746. HMG_CoA_synt_C_dom.
IPR013528. HMG_CoA_synth_N.
IPR010122. HMG_CoA_synthase_euk.
IPR016039. Thiolase-like.
IPR016038. Thiolase-like_subgr.
[Graphical view]
PfamiPF08540. HMG_CoA_synt_C. 1 hit.
PF01154. HMG_CoA_synt_N. 1 hit.
[Graphical view]
SUPFAMiSSF53901. SSF53901. 3 hits.
TIGRFAMsiTIGR01833. HMG-CoA-S_euk. 1 hit.
PROSITEiPS01226. HMG_COA_SYNTHASE. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: P54873-1) [UniParc]FASTAAdd to Basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MAKNVGILAM DIYFPPTCVQ QEALEAHDGA SKGKYTIGLG QDCLAFCTEL
60 70 80 90 100
EDVISMSFNA VTSLFEKYKI DPNQIGRLEV GSETVIDKSK SIKTFLMQLF
110 120 130 140 150
EKCGNTDVEG VDSTNACYGG TAALLNCVNW VESNSWDGRY GLVICTDSAV
160 170 180 190 200
YAEGPARPTG GAAAIAMLIG PDAPIVFESK LRASHMAHVY DFYKPNLASE
210 220 230 240 250
YPVVDGKLSQ TCYLMALDSC YKHLCNKFEK IEGKEFSIND ADYIVFHSPY
260 270 280 290 300
NKLVQKSFAR LLYNDFLRNA SSIDEAAKEK FTPYSSLTLD ESYQSRDLEK
310 320 330 340 350
VSQQIAKPFY DAKVQPTTLI PKEVGNMYTA SLYAAFASLI HKKHNDLAGK
360 370 380 390 400
RVVMFSYGSG STATMFSLRL NDNKPPFSIS NIASVMDVGG KLKARHEYAP
410 420 430 440 450
EKFVETMKLM EHRYGAKDFV TTKEGIIDLL APGTYYLKEV DSLYRRFYGK
460
KGEDGSVANG H
Length:461
Mass (Da):51,094
Last modified:June 6, 2002 - v2
Checksum:iF44908369AFBC5A8
GO
Isoform 2 (identifier: P54873-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-55: Missing.

Show »
Length:406
Mass (Da):45,205
Checksum:i41CED5FD425BC13A
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti306 – 3061A → S in CAA58763. (PubMed:8566777)Curated
Sequence conflicti342 – 3421K → N in CAA58763. (PubMed:8566777)Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 5555Missing in isoform 2. 1 PublicationVSP_008902Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X83882 mRNA. Translation: CAA58763.1.
U79160 mRNA. Translation: AAD00297.1.
U79161 Genomic DNA. Translation: AAD00298.1.
AL078606 Genomic DNA. Translation: CAB44320.1.
AL161532 Genomic DNA. Translation: CAB78225.1.
CP002687 Genomic DNA. Translation: AEE83052.1.
CP002687 Genomic DNA. Translation: AEE83053.1.
AY140008 mRNA. Translation: AAM98150.1.
BT008492 mRNA. Translation: AAP37851.1.
PIRiT09341.
RefSeqiNP_192919.1. NM_117251.2. [P54873-1]
NP_849361.1. NM_179030.1. [P54873-2]
UniGeneiAt.5362.

Genome annotation databases

EnsemblPlantsiAT4G11820.2; AT4G11820.2; AT4G11820. [P54873-1]
GeneIDi826788.
KEGGiath:AT4G11820.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X83882 mRNA. Translation: CAA58763.1.
U79160 mRNA. Translation: AAD00297.1.
U79161 Genomic DNA. Translation: AAD00298.1.
AL078606 Genomic DNA. Translation: CAB44320.1.
AL161532 Genomic DNA. Translation: CAB78225.1.
CP002687 Genomic DNA. Translation: AEE83052.1.
CP002687 Genomic DNA. Translation: AEE83053.1.
AY140008 mRNA. Translation: AAM98150.1.
BT008492 mRNA. Translation: AAP37851.1.
PIRiT09341.
RefSeqiNP_192919.1. NM_117251.2. [P54873-1]
NP_849361.1. NM_179030.1. [P54873-2]
UniGeneiAt.5362.

3D structure databases

ProteinModelPortaliP54873.
SMRiP54873. Positions 2-451.
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PaxDbiP54873.
PRIDEiP54873.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT4G11820.2; AT4G11820.2; AT4G11820. [P54873-1]
GeneIDi826788.
KEGGiath:AT4G11820.

Organism-specific databases

TAIRiAT4G11820.

Phylogenomic databases

eggNOGiCOG3425.
HOGENOMiHOG000012351.
InParanoidiP54873.
KOiK01641.
OMAiRDFTLND.
PhylomeDBiP54873.

Enzyme and pathway databases

UniPathwayiUPA00058; UER00102.
BioCyciARA:AT4G11820-MONOMER.
ARA:GQT-1470-MONOMER.
MetaCyc:AT4G11820-MONOMER.
BRENDAi2.3.3.10. 399.
ReactomeiREACT_187634. PPARA activates gene expression.
REACT_252096. Synthesis of Ketone Bodies.
REACT_258444. Cholesterol biosynthesis.
REACT_261238. Activation of gene expression by SREBF (SREBP).

Gene expression databases

GenevestigatoriP54873.

Family and domain databases

Gene3Di3.40.47.10. 2 hits.
InterProiIPR000590. HMG_CoA_synt_AS.
IPR013746. HMG_CoA_synt_C_dom.
IPR013528. HMG_CoA_synth_N.
IPR010122. HMG_CoA_synthase_euk.
IPR016039. Thiolase-like.
IPR016038. Thiolase-like_subgr.
[Graphical view]
PfamiPF08540. HMG_CoA_synt_C. 1 hit.
PF01154. HMG_CoA_synt_N. 1 hit.
[Graphical view]
SUPFAMiSSF53901. SSF53901. 3 hits.
TIGRFAMsiTIGR01833. HMG-CoA-S_euk. 1 hit.
PROSITEiPS01226. HMG_COA_SYNTHASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Isolation and characterization of a cDNA encoding Arabidopsis thaliana 3-hydroxy-3-methylglutaryl-coenzyme A synthase."
    Montamat F., Guilloton M., Karst F., Delrot S.
    Gene 167:197-201(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), CATALYTIC ACTIVITY.
    Strain: cv. Landsberg erecta.
  2. "Post-transcriptional regulation of HMG-CoA synthase expression in Arabidopsis thaliana."
    Connolly E.L., Learned R.M.
    Submitted (NOV-1996) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORM 1).
  3. "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana."
    Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T., Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B., Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M., de Simone V., Obermaier B.
    , Mache R., Mueller M., Kreis M., Delseny M., Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D., Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J., Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B., Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J., Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R., Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M., Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C., Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J., Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S., Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A., Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M., Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D., Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E., Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S., Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R., Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M., Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E., Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P., Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K., Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K., de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K., Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M., Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G., Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K., Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K., Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W., Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H., Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B., Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J., Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K., O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N., Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A., Martienssen R., McCombie W.R.
    Nature 402:769-777(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  4. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  5. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Strain: cv. Columbia.
  6. "The Arabidopsis FLAKY POLLEN1 gene encodes a 3-hydroxy-3-methylglutaryl-coenzyme A synthase required for development of tapetum-specific organelles and fertility of pollen grains."
    Ishiguro S., Nishimori Y., Yamada M., Saito H., Suzuki T., Nakagawa T., Miyake H., Okada K., Nakamura K.
    Plant Cell Physiol. 51:896-911(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY, DISRUPTION PHENOTYPE.

Entry informationi

Entry nameiHMCS_ARATH
AccessioniPrimary (citable) accession number: P54873
Secondary accession number(s): Q8L721, Q9S707
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: June 6, 2002
Last modified: January 7, 2015
This is version 125 of the entry and version 2 of the sequence. [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

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.