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Protein

Methionine synthase

Gene

metH

Organism
Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Catalyzes the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Subsequently, remethylates the cofactor using methyltetrahydrofolate (By similarity).By similarity

Miscellaneous

L-homocysteine is bound via the zinc atom.By similarity

Catalytic activityi

5-methyltetrahydrofolate + L-homocysteine = tetrahydrofolate + L-methionine.

Cofactori

Protein has several cofactor binding sites:

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 (MetH route).
Proteins known to be involved in this subpathway in this organism are:
  1. Methionine synthase (metH)
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 (MetH route), the pathway L-methionine biosynthesis via de novo pathway and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi248ZincPROSITE-ProRule annotation1
Metal bindingi311ZincPROSITE-ProRule annotation1
Metal bindingi312ZincPROSITE-ProRule annotation1
Metal bindingi760Cobalt (cobalamin axial ligand)By similarity1
Binding sitei805CobalaminBy similarity1
Binding sitei948S-adenosyl-L-methionineBy similarity1
Binding sitei1136S-adenosyl-L-methionine; via carbonyl oxygenBy similarity1
Binding sitei1140Cobalamin; via carbonyl oxygenBy similarity1

GO - Molecular functioni

  • cobalamin binding Source: UniProtKB-KW
  • methionine synthase activity Source: TIGR
  • zinc ion binding Source: InterPro

GO - Biological processi

  • methionine biosynthetic process Source: TIGR
  • pteridine-containing compound metabolic process Source: InterPro

Keywordsi

Molecular functionMethyltransferase, Transferase
Biological processAmino-acid biosynthesis, Methionine biosynthesis
LigandCobalamin, Cobalt, Metal-binding, S-adenosyl-L-methionine, Zinc

Enzyme and pathway databases

BioCyciVCHO:VC0390-MONOMER
UniPathwayiUPA00051; UER00081

Names & Taxonomyi

Protein namesi
Recommended name:
Methionine synthase (EC:2.1.1.13)
Alternative name(s):
5-methyltetrahydrofolate--homocysteine methyltransferase
Methionine synthase, vitamin-B12 dependent
Short name:
MS
Gene namesi
Name:metH
Ordered Locus Names:VC_0390
OrganismiVibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
Taxonomic identifieri243277 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
Proteomesi
  • UP000000584 Componenti: Chromosome 1

Subcellular locationi

GO - Cellular componenti

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002045381 – 1226Methionine synthaseAdd BLAST1226

Proteomic databases

PRIDEiQ9KUW9

Interactioni

Protein-protein interaction databases

STRINGi243277.VC0390

Structurei

3D structure databases

ProteinModelPortaliQ9KUW9
SMRiQ9KUW9
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini6 – 326Hcy-bindingPROSITE-ProRule annotationAdd BLAST321
Domaini357 – 618Pterin-bindingPROSITE-ProRule annotationAdd BLAST262
Domaini651 – 745B12-binding N-terminalPROSITE-ProRule annotationAdd BLAST95
Domaini747 – 882B12-bindingPROSITE-ProRule annotationAdd BLAST136
Domaini898 – 1226AdoMet activationPROSITE-ProRule annotationAdd BLAST329

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni835 – 836Cobalamin-bindingBy similarity2
Regioni1191 – 1192S-adenosyl-L-methionine bindingBy similarity2

Domaini

Modular enzyme with four functionally distinct domains. The isolated Hcy-binding domain catalyzes methyl transfer from free methylcobalamin to homocysteine. The Hcy-binding domain in association with the pterin-binding domain catalyzes the methylation of cob(I)alamin by methyltetrahydrofolate and the methylation of homocysteine. The B12-binding domain binds the cofactor. The AdoMet activation domain binds S-adenosyl-L-methionine. Under aerobic conditions cob(I)alamin can be converted to inactive cob(II)alamin. Reductive methylation by S-adenosyl-L-methionine and flavodoxin regenerates methylcobalamin (By similarity).By similarity

Sequence similaritiesi

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiENOG4105C3R Bacteria
COG0646 LUCA
COG1410 LUCA
KOiK00548
OMAiKYPRPLN

Family and domain databases

CDDicd02069 methionine_synthase_B12_BD, 1 hit
Gene3Di1.10.1240.10, 1 hit
3.10.196.10, 3 hits
3.20.20.20, 1 hit
3.20.20.330, 1 hit
InterProiView protein in InterPro
IPR003759 Cbl-bd_cap
IPR006158 Cobalamin-bd
IPR036724 Cobalamin-bd_sf
IPR011005 Dihydropteroate_synth-like
IPR003726 HCY_dom
IPR036589 HCY_dom_sf
IPR033706 Met_synthase_B12-bd
IPR011822 MetH
IPR036594 Meth_synthase_dom
IPR000489 Pterin-binding_dom
IPR004223 VitB12-dep_Met_synth_activ_dom
IPR037010 VitB12-dep_Met_synth_activ_sf
PfamiView protein in Pfam
PF02310 B12-binding, 1 hit
PF02607 B12-binding_2, 1 hit
PF02965 Met_synt_B12, 1 hit
PF00809 Pterin_bind, 1 hit
PF02574 S-methyl_trans, 1 hit
PIRSFiPIRSF000381 MetH, 1 hit
SMARTiView protein in SMART
SM01018 B12-binding_2, 1 hit
SUPFAMiSSF47644 SSF47644, 1 hit
SSF51717 SSF51717, 1 hit
SSF52242 SSF52242, 1 hit
SSF56507 SSF56507, 1 hit
SSF82282 SSF82282, 1 hit
TIGRFAMsiTIGR02082 metH, 1 hit
PROSITEiView protein in PROSITE
PS50974 ADOMET_ACTIVATION, 1 hit
PS51332 B12_BINDING, 1 hit
PS51337 B12_BINDING_NTER, 1 hit
PS50970 HCY, 1 hit
PS50972 PTERIN_BINDING, 1 hit

Sequencei

Sequence statusi: Complete.

Q9KUW9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGKEVRQQLE QQLKQRILLI DGGMGTMIQS YKLQEEDYRG ARFVDWHCDL
60 70 80 90 100
KGNNDLLVLT QPQIIKEIHS AYLEAGADIL ETNTFNSTTI AMADYDMQSL
110 120 130 140 150
SAEINFAAAK LAREVADEWT AKDPSRPRYV AGVLGPTNRT CSISPDVNDP
160 170 180 190 200
GFRNVTFDGL VEAYSESTRA LIKGGSDLIL IETIFDTLNA KACAFAVDSV
210 220 230 240 250
FEELGISLPV MISGTITDAS GRTLSGQTTE AFYNALRHVR PISFGLNCAL
260 270 280 290 300
GPDELRQYVE ELSRISECYV SAHPNAGLPN AFGEYDLSAE EMAEHIAEWA
310 320 330 340 350
QAGFLNLVGG CCGTTPEHIA AIAKAVEGVK PRALPDLKVE CRLSGLEPLN
360 370 380 390 400
IGPETLFVNV GERTNVTGSA RFKRLIKEEQ YDEALDVARE QVENGAQIID
410 420 430 440 450
INMDEGMLDA EACMVRFLNL CASEPEISKV PVMVDSSKWE VIEAGLKCIQ
460 470 480 490 500
GKGIVNSISL KEGKEKFIAQ AKLVRRYGAA VIVMAFDEVG QADTRERKLE
510 520 530 540 550
ICRRAYHILV DEVGFPPEDI IFDPNIFAVA TGIDEHNNYA LDFINAVADI
560 570 580 590 600
KRELPHAMIS GGVSNVSFSF RGNNYVREAI HAVFLYHCFK HGMDMGIVNA
610 620 630 640 650
GQLEIYDNVP LKLREAVEDV ILNRRSDGTE RLLEIAEAYR ENSVGKEEDA
660 670 680 690 700
SALEWRAWPV AKRLEHALVK GITEFIVQDT EEARQQASKP LEVIEGPLMD
710 720 730 740 750
GMNVVGDLFG EGKMFLPQVV KSARVMKQAV AYLEPFINAQ KSGSTSNGKI
760 770 780 790 800
LLATVKGDVH DIGKNIVGVV LQCNNFEIID LGVMVPCEQI LKVAREQNVD
810 820 830 840 850
IIGLSGLITP SLDEMVHVAK EMERQGFELP LLIGGATTSK AHTAVKIEQN
860 870 880 890 900
YHAPVVYVNN ASRAVGVCTS LLSDEQRPGF IERLDLDYER TRDQHARKTP
910 920 930 940 950
KSRPVTLEQA RANKAALDWA NYTPPAPAKP GVHVFENIAL ATLRPYIDWT
960 970 980 990 1000
PFFMTWSLMG KYPAILEHEE VGEEAKRLFH DANALLDKVE REGLLKASGM
1010 1020 1030 1040 1050
CALFPAASVG DDIEVYSDES RTQVAHVLYN LRQQTEKPKG ANYCLSDYVA
1060 1070 1080 1090 1100
PKESGKRDWI GAFAVTGGIG ERALADAYKA QGDDYNAIMI QAVADRLAEA
1110 1120 1130 1140 1150
FAEYLHEKVR KEIWGYASDE NLSNDDLIRE RYQGIRPAPG YPACPEHTEK
1160 1170 1180 1190 1200
ATLWQMLNVE ETIGMSLTTS YAMWPGASVS GWYFSHPDSR YFAVAQIQPD
1210 1220
QLHSYAERKG WRLEEAEKWL APNLDA
Length:1,226
Mass (Da):135,793
Last modified:October 1, 2000 - v1
Checksum:i5CF4AB07A738D74F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE003852 Genomic DNA Translation: AAF93563.1
PIRiE82328
RefSeqiNP_230044.1, NC_002505.1
WP_000514261.1, NC_002505.1

Genome annotation databases

EnsemblBacteriaiAAF93563; AAF93563; VC_0390
GeneIDi2614987
KEGGivch:VC0390
PATRICifig|243277.26.peg.365

Similar proteinsi

Entry informationi

Entry nameiMETH_VIBCH
AccessioniPrimary (citable) accession number: Q9KUW9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: October 1, 2000
Last modified: February 28, 2018
This is version 107 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

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