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Protein

Malate synthase G

Gene

glcB

Organism
Variovorax paradoxus (strain S110)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Involved in the glycolate utilization. Catalyzes the condensation and subsequent hydrolysis of acetyl-coenzyme A (acetyl-CoA) and glyoxylate to form malate and CoA.UniRule annotation

Catalytic activityi

Acetyl-CoA + H2O + glyoxylate = (S)-malate + CoA.UniRule annotation

Cofactori

Mg2+UniRule annotation

Pathway: glyoxylate cycle

This protein is involved in step 2 of the subpathway that synthesizes (S)-malate from isocitrate.UniRule annotation
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. no protein annotated in this organism
  2. Malate synthase G (glcB)
This subpathway is part of the pathway glyoxylate cycle, which is itself part of Carbohydrate metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes (S)-malate from isocitrate, the pathway glyoxylate cycle and in Carbohydrate metabolism.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei118 – 1181Acetyl-CoA; via carbonyl oxygenUniRule annotation
Binding sitei275 – 2751Acetyl-CoAUniRule annotation
Binding sitei312 – 3121Acetyl-CoAUniRule annotation
Active sitei339 – 3391Proton acceptorUniRule annotation
Binding sitei339 – 3391GlyoxylateUniRule annotation
Metal bindingi428 – 4281MagnesiumUniRule annotation
Binding sitei428 – 4281GlyoxylateUniRule annotation
Metal bindingi456 – 4561MagnesiumUniRule annotation
Binding sitei537 – 5371Acetyl-CoA; via carbonyl oxygenUniRule annotation
Active sitei632 – 6321Proton donorUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Glyoxylate bypass, Tricarboxylic acid cycle

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciVPAR543728:GHLL-453-MONOMER.
UniPathwayiUPA00703; UER00720.

Names & Taxonomyi

Protein namesi
Recommended name:
Malate synthase GUniRule annotation (EC:2.3.3.9UniRule annotation)
Gene namesi
Name:glcBUniRule annotation
Ordered Locus Names:Vapar_0452
OrganismiVariovorax paradoxus (strain S110)
Taxonomic identifieri543728 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeVariovorax
ProteomesiUP000000453 Componenti: Chromosome 1

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 724724Malate synthase GPRO_1000212378Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei618 – 6181Cysteine sulfenic acid (-SOH)UniRule annotation

Keywords - PTMi

Oxidation

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi543728.Vapar_0452.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni125 – 1262Acetyl-CoA bindingUniRule annotation
Regioni453 – 4564Glyoxylate bindingUniRule annotation

Sequence similaritiesi

Belongs to the malate synthase family. GlcB subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG2225.
HOGENOMiHOG000220740.
KOiK01638.
OMAiPKMHGPD.
OrthoDBiEOG6HJ286.

Family and domain databases

Gene3Di2.170.170.11. 2 hits.
HAMAPiMF_00641. Malate_synth_G.
InterProiIPR011076. Malate_synth-like.
IPR023310. Malate_synth_G_beta_sub_dom.
IPR001465. Malate_synthase.
IPR006253. Malate_synthG.
[Graphical view]
PfamiPF01274. Malate_synthase. 1 hit.
[Graphical view]
SUPFAMiSSF51645. SSF51645. 1 hit.
TIGRFAMsiTIGR01345. malate_syn_G. 1 hit.

Sequencei

Sequence statusi: Complete.

C5CJB5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTARTTTHGL QVATELHRFI EDKVLPASGV ASDVFWKGFD AIVHDLAPKN
60 70 80 90 100
IALLAERDRL QAELDAWHKK NPGPIADMPA YRAFLEKIGY LLPQPKGAKA
110 120 130 140 150
TTANVDSELA LQAGPQLVVP ILNARYALNA ANARWGSLYD ALYGTDAIPE
160 170 180 190 200
TGGAEKGKGY NPVRGAKVIE FARNVLDQAA PLENGSHKMA TGYSVKDGKL
210 220 230 240 250
VVALQSSSTG LADPAQFVGY QGDAAAPSSV LLKHNGIHLD IRIDRSTPIG
260 270 280 290 300
KGDAAGVSDL VLEAALSTIL DLEDSVAVVD AADKVVAYSN WLGIVEGTLT
310 320 330 340 350
EEVAKGGKTF TRGLNPDREY TGADGRPVKL HGRSLMFLRN VGHLMTNPAV
360 370 380 390 400
LYAGGKEIPE GILDAVVTTT IAMIDLKRKG NSRTGSIYIV KPKMHGPAEV
410 420 430 440 450
AFASELFGRV EQLLGLPANT VKLGIMDEER RTSVNLKACI AEAAARVAFI
460 470 480 490 500
NTGFLDRTGD EMHTAMHGGP MIRKGDMKSS AWIGAYEKNN VLVGLSCGLR
510 520 530 540 550
GKAQIGKGMW AMPDLMAAML EQKIAHPKAG ANTAWVPSPT AATLHALHYH
560 570 580 590 600
QVSVTAVQQE LEKIDADAER DNILNALLQV PIAPAANWTE AEKQQEIDNN
610 620 630 640 650
VQGILGYVVR WIDQGVGCSK VPDIHNVGLM EDRATLRISS QHIANWLLHG
660 670 680 690 700
VVTKAQVDET FQRMAKVVDE QNAGDPVYQP MAGHFDTSAA YKAAQDLVFK
710 720
GIEQPSGYTE PLLHAWRLKV KGEV
Length:724
Mass (Da):77,864
Last modified:July 28, 2009 - v1
Checksum:i4CE67206D0446EFE
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001635 Genomic DNA. Translation: ACS17115.1.
RefSeqiWP_012745615.1. NC_012791.1.
YP_002942381.1. NC_012791.1.

Genome annotation databases

EnsemblBacteriaiACS17115; ACS17115; Vapar_0452.
KEGGivap:Vapar_0452.
PATRICi24001300. VBIVarPar36677_0464.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001635 Genomic DNA. Translation: ACS17115.1.
RefSeqiWP_012745615.1. NC_012791.1.
YP_002942381.1. NC_012791.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi543728.Vapar_0452.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACS17115; ACS17115; Vapar_0452.
KEGGivap:Vapar_0452.
PATRICi24001300. VBIVarPar36677_0464.

Phylogenomic databases

eggNOGiCOG2225.
HOGENOMiHOG000220740.
KOiK01638.
OMAiPKMHGPD.
OrthoDBiEOG6HJ286.

Enzyme and pathway databases

UniPathwayiUPA00703; UER00720.
BioCyciVPAR543728:GHLL-453-MONOMER.

Family and domain databases

Gene3Di2.170.170.11. 2 hits.
HAMAPiMF_00641. Malate_synth_G.
InterProiIPR011076. Malate_synth-like.
IPR023310. Malate_synth_G_beta_sub_dom.
IPR001465. Malate_synthase.
IPR006253. Malate_synthG.
[Graphical view]
PfamiPF01274. Malate_synthase. 1 hit.
[Graphical view]
SUPFAMiSSF51645. SSF51645. 1 hit.
TIGRFAMsiTIGR01345. malate_syn_G. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "Complete genome sequence of the metabolically versatile plant growth-promoting endophyte, Variovorax paradoxus S110."
    Han J.I., Choi H.K., Lee S.W., Orwin P.M., Kim J., Laroe S.L., Kim T.G., O'Neil J., Leadbetter J.R., Lee S.Y., Hur C.G., Spain J.C., Ovchinnikova G., Goodwin L., Han C.
    J. Bacteriol. 193:1183-1190(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: S110.

Entry informationi

Entry nameiMASZ_VARPS
AccessioniPrimary (citable) accession number: C5CJB5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: July 28, 2009
Last modified: May 27, 2015
This is version 43 of the entry and version 1 of the sequence. [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

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.