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Protein

Spermine synthase

Gene

SPMS

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalytic activityi

S-adenosyl 3-(methylthio)propylamine + spermidine = S-methyl-5'-thioadenosine + spermine.1 Publication

Pathwayi: spermine biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes spermine from spermidine.
Proteins known to be involved in this subpathway in this organism are:
  1. Spermine synthase (SPMS)
This subpathway is part of the pathway spermine biosynthesis, which is itself part of Amine and polyamine biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes spermine from spermidine, the pathway spermine biosynthesis and in Amine and polyamine biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei99 – 991S-adenosylmethioninamineBy similarity
Binding sitei129 – 1291SpermidineBy similarity
Binding sitei130 – 1301S-adenosylmethioninamineBy similarity
Binding sitei154 – 1541SpermidineBy similarity
Binding sitei174 – 1741S-adenosylmethioninamineBy similarity
Active sitei224 – 2241Proton acceptorBy similarity
Binding sitei292 – 2921PutrescineBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Polyamine biosynthesis

Enzyme and pathway databases

BioCyciARA:GQT-2500-MONOMER.
ARA:GQT-2501-MONOMER.
ARA:GQT-2502-MONOMER.
ARA:GQT-2503-MONOMER.
ARA:GQT-2504-MONOMER.
ReactomeiR-ATH-351202. Metabolism of polyamines.
UniPathwayiUPA00249; UER00315.

Names & Taxonomyi

Protein namesi
Recommended name:
Spermine synthase (EC:2.5.1.22)
Short name:
SPMSY
Alternative name(s):
Spermidine aminopropyltransferase
Gene namesi
Name:SPMS
Synonyms:SPDS3
Ordered Locus Names:At5g53120
ORF Names:MFH8.5
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

TAIRiAT5G53120.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 359359Spermine synthasePRO_0000397673Add
BLAST

Proteomic databases

PRIDEiQ94BN2.

Expressioni

Tissue specificityi

Expressed predominantly in stem internodes, flower buds and roots.1 Publication

Inductioni

Up-regulated by abscisic acid and salt stress.2 Publications

Gene expression databases

ExpressionAtlasiQ94BN2. baseline and differential.
GenevisibleiQ94BN2. AT.

Interactioni

Subunit structurei

Heterodimer. Component of a multiprotein complex. Interacts with SPDSYN1 and SPDSYN2.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
SPDSYN1Q9ZUB34EBI-1770109,EBI-1770123
SPDSYN2O486614EBI-1770109,EBI-1770100

Protein-protein interaction databases

BioGridi20637. 4 interactions.
IntActiQ94BN2. 2 interactions.

Structurei

3D structure databases

ProteinModelPortaliQ94BN2.
SMRiQ94BN2. Positions 47-353.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini53 – 304252PABSAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni205 – 2062S-adenosylmethioninamine bindingBy similarity

Sequence similaritiesi

Phylogenomic databases

HOGENOMiHOG000256147.
InParanoidiQ94BN2.
KOiK00797.
PhylomeDBiQ94BN2.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
HAMAPiMF_00198. Spermidine_synth.
InterProiIPR030374. PABS.
IPR030373. PABS_CS.
IPR029063. SAM-dependent_MTases.
IPR001045. Spermi_synthase.
IPR030668. Spermi_synthase_euk.
[Graphical view]
PIRSFiPIRSF000502. Spermidine_synth. 1 hit.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00417. speE. 1 hit.
PROSITEiPS01330. PABS_1. 1 hit.
PS51006. PABS_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

Note: A number of isoforms are produced. According to EST sequences.

Isoform 1 (identifier: Q94BN2-1) [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
MEGDVGIGLV CQNTMDGKAS NGNGLEKTVP SCCLKAMACV PEDDAKCHST
60 70 80 90 100
VVSGWFSEPH PRSGKKGGKA VYFNNPMWPG EAHSLKVEKV LFKDKSDFQE
110 120 130 140 150
VLVFESATYG KVLVLDGIVQ LTEKDECAYQ EMIAHLPLCS ISSPKNVLVV
160 170 180 190 200
GGGDGGVLRE ISRHSSVEVI DICEIDKMVI DVSKKFFPEL AVGFDDPRVQ
210 220 230 240 250
LHIGDAAEFL RKSPEGKYDA IIVDSSDPVG PALALVEKPF FETLARALKP
260 270 280 290 300
GGVLCNMAES MWLHTHLIED MISICRQTFK SVHYAWSSVP TYPSGVIGFV
310 320 330 340 350
LCSTEGPAVD FKNPINPIEK LDGAMTHKRE LKFYNSDMHR AAFALPTFLR

REVASLLAS
Length:359
Mass (Da):39,239
Last modified:December 1, 2001 - v1
Checksum:i5251D28EBB98865D
GO

Sequence cautioni

The sequence AAM64782.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence BAB08415.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti40 – 401V → E in BAH19534 (PubMed:19423640).Curated
Sequence conflicti204 – 2041G → S in AAM64782 (Ref. 5) Curated
Sequence conflicti224 – 2241D → N in AAL11565 (PubMed:14593172).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB025622 Genomic DNA. Translation: BAB08415.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED96305.1.
CP002688 Genomic DNA. Translation: AED96306.1.
CP002688 Genomic DNA. Translation: AED96307.1.
CP002688 Genomic DNA. Translation: AED96308.1.
CP002688 Genomic DNA. Translation: AED96309.1.
AF424571 mRNA. Translation: AAL11565.1.
AY040013 mRNA. Translation: AAK64170.1.
AY079367 mRNA. Translation: AAL85098.1.
BT000742 mRNA. Translation: AAN31883.1.
AK316822 mRNA. Translation: BAH19534.1.
AY087226 mRNA. Translation: AAM64782.1. Different initiation.
RefSeqiNP_001078748.1. NM_001085279.1. [Q94BN2-1]
NP_001078749.1. NM_001085280.1. [Q94BN2-1]
NP_568785.1. NM_124691.3. [Q94BN2-1]
NP_851178.1. NM_180847.2. [Q94BN2-1]
NP_851179.1. NM_180848.3. [Q94BN2-1]
UniGeneiAt.21042.
At.49166.

Genome annotation databases

EnsemblPlantsiAT5G53120.1; AT5G53120.1; AT5G53120. [Q94BN2-1]
AT5G53120.2; AT5G53120.2; AT5G53120. [Q94BN2-1]
AT5G53120.3; AT5G53120.3; AT5G53120. [Q94BN2-1]
AT5G53120.4; AT5G53120.4; AT5G53120. [Q94BN2-1]
AT5G53120.5; AT5G53120.5; AT5G53120. [Q94BN2-1]
GeneIDi835392.
KEGGiath:AT5G53120.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB025622 Genomic DNA. Translation: BAB08415.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED96305.1.
CP002688 Genomic DNA. Translation: AED96306.1.
CP002688 Genomic DNA. Translation: AED96307.1.
CP002688 Genomic DNA. Translation: AED96308.1.
CP002688 Genomic DNA. Translation: AED96309.1.
AF424571 mRNA. Translation: AAL11565.1.
AY040013 mRNA. Translation: AAK64170.1.
AY079367 mRNA. Translation: AAL85098.1.
BT000742 mRNA. Translation: AAN31883.1.
AK316822 mRNA. Translation: BAH19534.1.
AY087226 mRNA. Translation: AAM64782.1. Different initiation.
RefSeqiNP_001078748.1. NM_001085279.1. [Q94BN2-1]
NP_001078749.1. NM_001085280.1. [Q94BN2-1]
NP_568785.1. NM_124691.3. [Q94BN2-1]
NP_851178.1. NM_180847.2. [Q94BN2-1]
NP_851179.1. NM_180848.3. [Q94BN2-1]
UniGeneiAt.21042.
At.49166.

3D structure databases

ProteinModelPortaliQ94BN2.
SMRiQ94BN2. Positions 47-353.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi20637. 4 interactions.
IntActiQ94BN2. 2 interactions.

Proteomic databases

PRIDEiQ94BN2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G53120.1; AT5G53120.1; AT5G53120. [Q94BN2-1]
AT5G53120.2; AT5G53120.2; AT5G53120. [Q94BN2-1]
AT5G53120.3; AT5G53120.3; AT5G53120. [Q94BN2-1]
AT5G53120.4; AT5G53120.4; AT5G53120. [Q94BN2-1]
AT5G53120.5; AT5G53120.5; AT5G53120. [Q94BN2-1]
GeneIDi835392.
KEGGiath:AT5G53120.

Organism-specific databases

TAIRiAT5G53120.

Phylogenomic databases

HOGENOMiHOG000256147.
InParanoidiQ94BN2.
KOiK00797.
PhylomeDBiQ94BN2.

Enzyme and pathway databases

UniPathwayiUPA00249; UER00315.
BioCyciARA:GQT-2500-MONOMER.
ARA:GQT-2501-MONOMER.
ARA:GQT-2502-MONOMER.
ARA:GQT-2503-MONOMER.
ARA:GQT-2504-MONOMER.
ReactomeiR-ATH-351202. Metabolism of polyamines.

Miscellaneous databases

PROiQ94BN2.

Gene expression databases

ExpressionAtlasiQ94BN2. baseline and differential.
GenevisibleiQ94BN2. AT.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
HAMAPiMF_00198. Spermidine_synth.
InterProiIPR030374. PABS.
IPR030373. PABS_CS.
IPR029063. SAM-dependent_MTases.
IPR001045. Spermi_synthase.
IPR030668. Spermi_synthase_euk.
[Graphical view]
PIRSFiPIRSF000502. Spermidine_synth. 1 hit.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00417. speE. 1 hit.
PROSITEiPS01330. PABS_1. 1 hit.
PS51006. PABS_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Structural analysis of Arabidopsis thaliana chromosome 5. XI."
    Kaneko T., Katoh T., Asamizu E., Sato S., Nakamura Y., Kotani H., Tabata S.
    Submitted (APR-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  2. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  3. "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].
    Strain: cv. Columbia.
  4. "Analysis of multiple occurrences of alternative splicing events in Arabidopsis thaliana using novel sequenced full-length cDNAs."
    Iida K., Fukami-Kobayashi K., Toyoda A., Sakaki Y., Kobayashi M., Seki M., Shinozaki K.
    DNA Res. 16:155-164(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Rosette leaf.
  5. "Full-length cDNA from Arabidopsis thaliana."
    Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A.
    Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  6. "Characterization of the spermidine synthase-related gene family in Arabidopsis thaliana."
    Hanzawa Y., Imai A., Michael A.J., Komeda Y., Takahashi T.
    FEBS Lett. 527:176-180(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION, INDUCTION BY ABSCISIC ACID, TISSUE SPECIFICITY.
  7. "A polyamine metabolon involving aminopropyl transferase complexes in Arabidopsis."
    Panicot M., Minguet E.G., Ferrando A., Alcazar R., Blazquez M.A., Carbonell J., Altabella T., Koncz C., Tiburcio A.F.
    Plant Cell 14:2539-2551(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH SPDSYN1 AND SPDSYN2.
  8. "Putative spermine synthases from Thalassiosira pseudonana and Arabidopsis thaliana synthesize thermospermine rather than spermine."
    Knott J.M., Romer P., Sumper M.
    FEBS Lett. 581:3081-3086(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, CATALYTIC ACTIVITY.
  9. "Quantitative analysis of plant polyamines including thermospermine during growth and salinity stress."
    Naka Y., Watanabe K., Sagor G.H., Niitsu M., Pillai M.A., Kusano T., Takahashi Y.
    Plant Physiol. Biochem. 48:527-533(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION BY SALT.

Entry informationi

Entry nameiSPSY_ARATH
AccessioniPrimary (citable) accession number: Q94BN2
Secondary accession number(s): B9DFL7
, Q8LBG3, Q944S0, Q9FGM4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 5, 2010
Last sequence update: December 1, 2001
Last modified: May 11, 2016
This is version 105 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

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

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.