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Protein

Methionine synthase

Gene

metH

Organism
Vibrio fischeri (strain ATCC 700601 / ES114)
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 bindingi249ZincPROSITE-ProRule annotation1
Metal bindingi312ZincPROSITE-ProRule annotation1
Metal bindingi313ZincPROSITE-ProRule annotation1
Metal bindingi761Cobalt (cobalamin axial ligand)By similarity1
Binding sitei806CobalaminBy similarity1
Binding sitei949S-adenosyl-L-methionineBy similarity1
Binding sitei1137S-adenosyl-L-methionine; via carbonyl oxygenBy similarity1
Binding sitei1141Cobalamin; via carbonyl oxygenBy similarity1

GO - Molecular functioni

GO - Biological processi

Keywordsi

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

Enzyme and pathway databases

BioCyciVFIS312309:G1G40-342-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:VF_0337
OrganismiVibrio fischeri (strain ATCC 700601 / ES114)
Taxonomic identifieri312309 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeAliivibrio
Proteomesi
  • UP000000537 Componenti: Chromosome I

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002045391 – 1226Methionine synthaseAdd BLAST1226

Proteomic databases

PRIDEiQ5E814

Interactioni

Protein-protein interaction databases

STRINGi312309.VF_0337

Structurei

3D structure databases

ProteinModelPortaliQ5E814
SMRiQ5E814
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini7 – 327Hcy-bindingPROSITE-ProRule annotationAdd BLAST321
Domaini358 – 619Pterin-bindingPROSITE-ProRule annotationAdd BLAST262
Domaini652 – 746B12-binding N-terminalPROSITE-ProRule annotationAdd BLAST95
Domaini748 – 883B12-bindingPROSITE-ProRule annotationAdd BLAST136
Domaini899 – 1226AdoMet activationPROSITE-ProRule annotationAdd BLAST328

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni836 – 837Cobalamin-bindingBy similarity2
Regioni1192 – 1193S-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
HOGENOMiHOG000251409
KOiK00548
OMAiKYPRPLN
OrthoDBiPOG091H030I

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.

Q5E814-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAGSNIKVQI EKQLSERILL IDGGMGTMIQ GYKFEEEDYR GERFNKWHCD
60 70 80 90 100
LKGNNDLLVL SQPQIIRDIH EAYLEAGADI LETNTFNATT IAMADYDMES
110 120 130 140 150
LSEEINFEAA KLAREVADKW TEKTPNKPRY VAGVLGPTNR TCSISPDVND
160 170 180 190 200
PGFRNVSFDE LVEAYSESTR ALIRGGSDLI LIETIFDTLN AKACSFAVES
210 220 230 240 250
VFEELDITLP VMISGTITDA SGRTLSGQTT EAFYNALRHV KPISFGLNCA
260 270 280 290 300
LGPDELREYV SDLSRISECY VSAHPNAGLP NAFGEYDLSP EDMAEHVAEW
310 320 330 340 350
ASSGFLNLIG GCCGTTPEHI RQMALVVEGV KPRQLPELPV ACRLSGLEPL
360 370 380 390 400
TIEKDSLFIN VGERTNVTGS ARFKRLIKEE LYDEALSVAQ EQVENGAQII
410 420 430 440 450
DINMDEGMLD AEACMVRFLN LCASEPEISK VPVMVDSSKW EVIEAGLKCI
460 470 480 490 500
QGKGIVNSIS LKEGKEKFVH QAKLIRRYGA AVIVMAFDEV GQADTRERKI
510 520 530 540 550
EICTNAYNIL VDEVGFPPED IIFDPNIFAV ATGIDEHNNY AVDFIEAVGD
560 570 580 590 600
IKRTLPHAMI SGGVSNVSFS FRGNNYVREA IHAVFLYHCF KNGMDMGIVN
610 620 630 640 650
AGQLEIYDNV PEDLREAVED VVLNRRDDST ERLLDIATEY LERAVGKVED
660 670 680 690 700
KSALEWRDWP VEKRLEHSLV KGITEFIVED TEEARINAEK PIEVIEGPLM
710 720 730 740 750
DGMNVVGDLF GEGKMFLPQV VKSARVMKQA VAHLEPFINA SKEVGATNGK
760 770 780 790 800
ILLATVKGDV HDIGKNIVGV VLQCNNYEII DLGVMVSCET ILKVAKEENV
810 820 830 840 850
DIIGLSGLIT PSLDEMVHVA KEMERQGFDL PLLIGGATTS KAHTAVKIEQ
860 870 880 890 900
NYSQPVVYVN NASRAVGVCT SLLSDELKPS FVEKLDIDYE RVREQHSRKQ
910 920 930 940 950
PRTKPVTLEV ARANKVAIDW ASYTPPVPLK PGVHIFDNFD VSTLRNYIDW
960 970 980 990 1000
TPFFMTWSLV GKYPKILDHE EVGEEAKRLF KDANDLLDRV EKEGLLKARG
1010 1020 1030 1040 1050
MCALFPASSV GDDIEVYTDE SRTKVAKVLH NLRQQTEKPK GFNYCLSDYI
1060 1070 1080 1090 1100
APKESGKNDW IGGFAVTGGI GERELADEYK ANGDDYNAIM IQAVADRLAE
1110 1120 1130 1140 1150
AFAEYLHEKV RKEIWGYSPN ETLSNDDLIR EKYQGIRPAP GYPACPEHTE
1160 1170 1180 1190 1200
KGALWELMNV EESIGMSLTS SYAMWPGASV SGMYFSHPDS RYFAIAQIQQ
1210 1220
DQAESYADRK GWNMLEAEKW LGPNLN
Length:1,226
Mass (Da):136,369
Last modified:March 15, 2005 - v1
Checksum:iA1464CA5E141F3BD
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000020 Genomic DNA Translation: AAW84832.1
RefSeqiWP_011261140.1, NC_006840.2
YP_203720.1, NC_006840.2

Genome annotation databases

EnsemblBacteriaiAAW84832; AAW84832; VF_0337
GeneIDi3277291
KEGGivfi:VF_0337
PATRICifig|312309.11.peg.328

Similar proteinsi

Entry informationi

Entry nameiMETH_VIBF1
AccessioniPrimary (citable) accession number: Q5E814
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: March 15, 2005
Last modified: May 23, 2018
This is version 93 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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Main funding by: National Institutes of Health