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Protein

5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase 1

Gene

MS1

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

Functioni

Catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine resulting in methionine formation.1 Publication

Catalytic activityi

5-methyltetrahydropteroyltri-L-glutamate + L-homocysteine = tetrahydropteroyltri-L-glutamate + L-methionine.

Cofactori

Zn2+Note: Binds 2 Zn2+ ions per subunit.

Kineticsi

  1. KM=60 µM for 5-methyltetrahydrofolate1 Publication
  1. Vmax=26.5 nmol/min/mg enzyme toward 5-methyltetrahydrofolate1 Publication

Pathwayi: L-methionine biosynthesis via de novo pathway

This protein is involved in step 1 of the subpathway that synthesizes L-methionine from L-homocysteine (MetE route).
Proteins known to be involved in this subpathway in this organism are:
  1. 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase 2 (MS2), 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase 3, chloroplastic (MS3), 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase 1 (MS1)
This subpathway is part of the pathway L-methionine biosynthesis via de novo pathway, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes L-methionine from L-homocysteine (MetE route), the pathway L-methionine biosynthesis via de novo pathway and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei490L-homocysteine1
Binding sitei5675-methyltetrahydrofolate1 Publication1
Binding sitei605L-homocysteine1
Metal bindingi647Zinc 11
Metal bindingi649Zinc 11
Metal bindingi658Zinc 21
Metal bindingi662Zinc 21
Metal bindingi733Zinc 11

GO - Molecular functioni

  • 5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity Source: GO_Central
  • copper ion binding Source: TAIR
  • methionine synthase activity Source: TAIR
  • zinc ion binding Source: UniProtKB

GO - Biological processi

  • homocysteine metabolic process Source: GO_Central
  • response to cadmium ion Source: TAIR
  • response to salt stress Source: TAIR
  • response to zinc ion Source: TAIR
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

Amino-acid biosynthesis, Methionine biosynthesis

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciARA:AT5G17920-MONOMER.
BRENDAi2.1.1.14. 399.
SABIO-RKO50008.
UniPathwayiUPA00051; UER00082.

Names & Taxonomyi

Protein namesi
Recommended name:
5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase 1 (EC:2.1.1.14)
Alternative name(s):
Cobalamin-independent methionine synthase 1
Short name:
AtMS1
Vitamin-B12-independent methionine synthase 1
Gene namesi
Name:MS1
Synonyms:CIMS
Ordered Locus Names:At5g17920
ORF Names:MPI7.9
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

TAIRiAT5G17920.

Subcellular locationi

GO - Cellular componenti

  • apoplast Source: TAIR
  • chloroplast Source: TAIR
  • chloroplast stroma Source: TAIR
  • cytosol Source: TAIR
  • membrane Source: TAIR
  • peroxisome Source: TAIR
  • plasma membrane Source: TAIR
  • plasmodesma Source: TAIR
  • vacuolar membrane Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000986961 – 7655-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase 1Add BLAST765

Proteomic databases

PaxDbiO50008.
PRIDEiO50008.

2D gel databases

SWISS-2DPAGEO50008.

PTM databases

iPTMnetiO50008.

Expressioni

Tissue specificityi

Expressed in leaves, stems, flowers, siliques and seeds.1 Publication

Gene expression databases

GenevisibleiO50008. AT.

Interactioni

Protein-protein interaction databases

BioGridi16936. 8 interactors.
IntActiO50008. 2 interactors.
STRINGi3702.AT5G17920.1.

Structurei

Secondary structure

1765
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi16 – 26Combined sources11
Helixi31 – 51Combined sources21
Beta strandi58 – 60Combined sources3
Helixi67 – 74Combined sources8
Helixi80 – 82Combined sources3
Beta strandi86 – 88Combined sources3
Helixi91 – 99Combined sources9
Beta strandi102 – 104Combined sources3
Beta strandi109 – 111Combined sources3
Beta strandi118 – 120Combined sources3
Helixi136 – 146Combined sources11
Beta strandi152 – 156Combined sources5
Helixi158 – 163Combined sources6
Beta strandi169 – 171Combined sources3
Helixi177 – 180Combined sources4
Helixi181 – 197Combined sources17
Beta strandi202 – 206Combined sources5
Helixi208 – 211Combined sources4
Helixi216 – 228Combined sources13
Turni230 – 233Combined sources4
Beta strandi235 – 241Combined sources7
Helixi249 – 255Combined sources7
Beta strandi263 – 270Combined sources8
Helixi274 – 280Combined sources7
Beta strandi287 – 293Combined sources7
Beta strandi295 – 297Combined sources3
Helixi303 – 316Combined sources14
Beta strandi322 – 328Combined sources7
Helixi330 – 332Combined sources3
Helixi337 – 339Combined sources3
Helixi345 – 348Combined sources4
Helixi354 – 368Combined sources15
Helixi374 – 389Combined sources16
Turni391 – 393Combined sources3
Helixi397 – 400Combined sources4
Turni401 – 405Combined sources5
Beta strandi411 – 413Combined sources3
Helixi416 – 418Combined sources3
Helixi420 – 426Combined sources7
Helixi463 – 479Combined sources17
Beta strandi484 – 486Combined sources3
Helixi498 – 501Combined sources4
Beta strandi504 – 508Combined sources5
Beta strandi515 – 518Combined sources4
Beta strandi521 – 523Combined sources3
Helixi541 – 546Combined sources6
Beta strandi554 – 559Combined sources6
Helixi561 – 566Combined sources6
Beta strandi568 – 570Combined sources3
Beta strandi572 – 574Combined sources3
Helixi576 – 596Combined sources21
Beta strandi601 – 605Combined sources5
Turni607 – 612Combined sources6
Helixi617 – 619Combined sources3
Helixi620 – 635Combined sources16
Beta strandi640 – 647Combined sources8
Turni654 – 656Combined sources3
Helixi657 – 661Combined sources5
Beta strandi666 – 669Combined sources4
Beta strandi672 – 675Combined sources4
Helixi679 – 683Combined sources5
Turni684 – 687Combined sources4
Beta strandi691 – 693Combined sources3
Beta strandi696 – 698Combined sources3
Beta strandi702 – 704Combined sources3
Helixi708 – 720Combined sources13
Beta strandi724 – 727Combined sources4
Beta strandi735 – 738Combined sources4
Helixi740 – 759Combined sources20

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1U1HX-ray2.55A1-765[»]
1U1JX-ray2.40A1-765[»]
1U1UX-ray2.95A1-765[»]
1U22X-ray2.65A1-765[»]
ProteinModelPortaliO50008.
SMRiO50008.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO50008.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni437 – 439L-homocysteine binding3
Regioni521 – 5225-methyltetrahydrofolate binding2

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG2263. Eukaryota.
COG0620. LUCA.
HOGENOMiHOG000246221.
InParanoidiO50008.
KOiK00549.
OMAiTPEQKDW.
OrthoDBiEOG093602ZG.
PhylomeDBiO50008.

Family and domain databases

HAMAPiMF_00172. Meth_synth. 1 hit.
InterProiIPR013215. Cbl-indep_Met_Synth_N.
IPR006276. Cobalamin-indep_Met_synthase.
IPR002629. Met_Synth_C/arc.
[Graphical view]
PfamiPF08267. Meth_synt_1. 1 hit.
PF01717. Meth_synt_2. 1 hit.
[Graphical view]
PIRSFiPIRSF000382. MeTrfase_B12_ind. 1 hit.
TIGRFAMsiTIGR01371. met_syn_B12ind. 1 hit.

Sequencei

Sequence statusi: Complete.

O50008-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASHIVGYPR MGPKRELKFA LESFWDGKST AEDLQKVSAD LRSSIWKQMS
60 70 80 90 100
AAGTKFIPSN TFAHYDQVLD TTAMLGAVPP RYGYTGGEIG LDVYFSMARG
110 120 130 140 150
NASVPAMEMT KWFDTNYHYI VPELGPEVNF SYASHKAVNE YKEAKALGVD
160 170 180 190 200
TVPVLVGPVS YLLLSKAAKG VDKSFELLSL LPKILPIYKE VITELKAAGA
210 220 230 240 250
TWIQLDEPVL VMDLEGQKLQ AFTGAYAELE STLSGLNVLV ETYFADIPAE
260 270 280 290 300
AYKTLTSLKG VTAFGFDLVR GTKTLDLVKA GFPEGKYLFA GVVDGRNIWA
310 320 330 340 350
NDFAASLSTL QALEGIVGKD KLVVSTSCSL LHTAVDLINE TKLDDEIKSW
360 370 380 390 400
LAFAAQKVVE VNALAKALAG QKDEALFSAN AAALASRRSS PRVTNEGVQK
410 420 430 440 450
AAAALKGSDH RRATNVSARL DAQQKKLNLP ILPTTTIGSF PQTVELRRVR
460 470 480 490 500
REYKAKKVSE EDYVKAIKEE IKKVVDLQEE LDIDVLVHGE PERNDMVEYF
510 520 530 540 550
GEQLSGFAFT ANGWVQSYGS RCVKPPVIYG DVSRPKAMTV FWSAMAQSMT
560 570 580 590 600
SRPMKGMLTG PVTILNWSFV RNDQPRHETC YQIALAIKDE VEDLEKGGIG
610 620 630 640 650
VIQIDEAALR EGLPLRKSEH AFYLDWAVHS FRITNCGVQD STQIHTHMCY
660 670 680 690 700
SHFNDIIHSI IDMDADVITI ENSRSDEKLL SVFREGVKYG AGIGPGVYDI
710 720 730 740 750
HSPRIPSSEE IADRVNKMLA VLEQNILWVN PDCGLKTRKY TEVKPALKNM
760
VDAAKLIRSQ LASAK
Length:765
Mass (Da):84,357
Last modified:June 1, 1998 - v1
Checksum:i2EA01908B5951154
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti270R → L in AAL09712 (PubMed:14593172).Curated1
Sequence conflicti282F → S in CAE55863 (PubMed:15024005).Curated1
Sequence conflicti295G → R in AAN31836 (PubMed:14593172).Curated1
Sequence conflicti351L → M in CAE55863 (PubMed:15024005).Curated1
Sequence conflicti442Q → R in AAN31836 (PubMed:14593172).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U97200 mRNA. Translation: AAC50037.1.
AJ608673 mRNA. Translation: CAE55863.1.
AB011480 Genomic DNA. Translation: BAB11226.1.
CP002688 Genomic DNA. Translation: AED92486.1.
CP002688 Genomic DNA. Translation: AED92487.1.
AF370522 mRNA. Translation: AAK43899.1.
AY048201 mRNA. Translation: AAK82464.1.
AY056098 mRNA. Translation: AAL06986.1.
AY057478 mRNA. Translation: AAL09712.1.
AY057499 mRNA. Translation: AAL09740.1.
AY069876 mRNA. Translation: AAL47432.1.
AY070771 mRNA. Translation: AAL50108.1.
AY091692 mRNA. Translation: AAM10291.1.
BT000691 mRNA. Translation: AAN31836.1.
RefSeqiNP_001078599.1. NM_001085130.2.
NP_197294.1. NM_121798.4.
UniGeneiAt.22340.
At.24550.
At.71028.

Genome annotation databases

EnsemblPlantsiAT5G17920.1; AT5G17920.1; AT5G17920.
AT5G17920.2; AT5G17920.2; AT5G17920.
GeneIDi831660.
GrameneiAT5G17920.1; AT5G17920.1; AT5G17920.
AT5G17920.2; AT5G17920.2; AT5G17920.
KEGGiath:AT5G17920.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U97200 mRNA. Translation: AAC50037.1.
AJ608673 mRNA. Translation: CAE55863.1.
AB011480 Genomic DNA. Translation: BAB11226.1.
CP002688 Genomic DNA. Translation: AED92486.1.
CP002688 Genomic DNA. Translation: AED92487.1.
AF370522 mRNA. Translation: AAK43899.1.
AY048201 mRNA. Translation: AAK82464.1.
AY056098 mRNA. Translation: AAL06986.1.
AY057478 mRNA. Translation: AAL09712.1.
AY057499 mRNA. Translation: AAL09740.1.
AY069876 mRNA. Translation: AAL47432.1.
AY070771 mRNA. Translation: AAL50108.1.
AY091692 mRNA. Translation: AAM10291.1.
BT000691 mRNA. Translation: AAN31836.1.
RefSeqiNP_001078599.1. NM_001085130.2.
NP_197294.1. NM_121798.4.
UniGeneiAt.22340.
At.24550.
At.71028.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1U1HX-ray2.55A1-765[»]
1U1JX-ray2.40A1-765[»]
1U1UX-ray2.95A1-765[»]
1U22X-ray2.65A1-765[»]
ProteinModelPortaliO50008.
SMRiO50008.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi16936. 8 interactors.
IntActiO50008. 2 interactors.
STRINGi3702.AT5G17920.1.

PTM databases

iPTMnetiO50008.

2D gel databases

SWISS-2DPAGEO50008.

Proteomic databases

PaxDbiO50008.
PRIDEiO50008.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G17920.1; AT5G17920.1; AT5G17920.
AT5G17920.2; AT5G17920.2; AT5G17920.
GeneIDi831660.
GrameneiAT5G17920.1; AT5G17920.1; AT5G17920.
AT5G17920.2; AT5G17920.2; AT5G17920.
KEGGiath:AT5G17920.

Organism-specific databases

TAIRiAT5G17920.

Phylogenomic databases

eggNOGiKOG2263. Eukaryota.
COG0620. LUCA.
HOGENOMiHOG000246221.
InParanoidiO50008.
KOiK00549.
OMAiTPEQKDW.
OrthoDBiEOG093602ZG.
PhylomeDBiO50008.

Enzyme and pathway databases

UniPathwayiUPA00051; UER00082.
BioCyciARA:AT5G17920-MONOMER.
BRENDAi2.1.1.14. 399.
SABIO-RKO50008.

Miscellaneous databases

EvolutionaryTraceiO50008.
PROiO50008.

Gene expression databases

GenevisibleiO50008. AT.

Family and domain databases

HAMAPiMF_00172. Meth_synth. 1 hit.
InterProiIPR013215. Cbl-indep_Met_Synth_N.
IPR006276. Cobalamin-indep_Met_synthase.
IPR002629. Met_Synth_C/arc.
[Graphical view]
PfamiPF08267. Meth_synt_1. 1 hit.
PF01717. Meth_synt_2. 1 hit.
[Graphical view]
PIRSFiPIRSF000382. MeTrfase_B12_ind. 1 hit.
TIGRFAMsiTIGR01371. met_syn_B12ind. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiMETE1_ARATH
AccessioniPrimary (citable) accession number: O50008
Secondary accession number(s): Q6KCR2, Q8H162, Q93ZK3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: June 1, 1998
Last modified: November 30, 2016
This is version 143 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.