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Protein

1-deoxy-D-xylulose-5-phosphate synthase

Gene

dxs

Organism
Corynebacterium glutamicum (strain R)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the acyloin condensation reaction between C atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D-xylulose-5-phosphate (DXP).UniRule annotation

Catalytic activityi

Pyruvate + D-glyceraldehyde 3-phosphate = 1-deoxy-D-xylulose 5-phosphate + CO2.UniRule annotation

Cofactori

Protein has several cofactor binding sites:
  • Mg2+UniRule annotationNote: Binds 1 Mg2+ ion per subunit.UniRule annotation
  • thiamine diphosphateUniRule annotationNote: Binds 1 thiamine pyrophosphate per subunit.UniRule annotation

Pathwayi: 1-deoxy-D-xylulose 5-phosphate biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes 1-deoxy-D-xylulose 5-phosphate from D-glyceraldehyde 3-phosphate and pyruvate.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. 1-deoxy-D-xylulose-5-phosphate synthase (dxs)
This subpathway is part of the pathway 1-deoxy-D-xylulose 5-phosphate biosynthesis, which is itself part of Metabolic intermediate biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes 1-deoxy-D-xylulose 5-phosphate from D-glyceraldehyde 3-phosphate and pyruvate, the pathway 1-deoxy-D-xylulose 5-phosphate biosynthesis and in Metabolic intermediate biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei73 – 731Thiamine pyrophosphateUniRule annotation
Metal bindingi146 – 1461MagnesiumUniRule annotation
Metal bindingi176 – 1761MagnesiumUniRule annotation
Binding sitei176 – 1761Thiamine pyrophosphateUniRule annotation
Binding sitei287 – 2871Thiamine pyrophosphateUniRule annotation
Binding sitei368 – 3681Thiamine pyrophosphateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Isoprene biosynthesis, Thiamine biosynthesis

Keywords - Ligandi

Magnesium, Metal-binding, Thiamine pyrophosphate

Enzyme and pathway databases

BioCyciCGLU340322:GJBE-1811-MONOMER.
UniPathwayiUPA00064; UER00091.

Names & Taxonomyi

Protein namesi
Recommended name:
1-deoxy-D-xylulose-5-phosphate synthaseUniRule annotation (EC:2.2.1.7UniRule annotation)
Alternative name(s):
1-deoxyxylulose-5-phosphate synthaseUniRule annotation
Short name:
DXP synthaseUniRule annotation
Short name:
DXPSUniRule annotation
Gene namesi
Name:dxsUniRule annotation
Ordered Locus Names:cgR_1731
OrganismiCorynebacterium glutamicum (strain R)
Taxonomic identifieri340322 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesCorynebacteriaceaeCorynebacterium
Proteomesi
  • UP000006698 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 6326321-deoxy-D-xylulose-5-phosphate synthasePRO_1000019020Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliA4QEQ9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni114 – 1163Thiamine pyrophosphate bindingUniRule annotation
Regioni147 – 1482Thiamine pyrophosphate bindingUniRule annotation

Sequence similaritiesi

Belongs to the transketolase family. DXPS subfamily.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000012986.
KOiK01662.
OMAiHAVGPFD.
OrthoDBiPOG091H015K.

Family and domain databases

Gene3Di3.40.50.920. 1 hit.
3.40.50.970. 3 hits.
HAMAPiMF_00315. DXP_synth. 1 hit.
InterProiIPR005477. Dxylulose-5-P_synthase.
IPR029061. THDP-binding.
IPR009014. Transketo_C/PFOR_II.
IPR005475. Transketolase-like_Pyr-bd.
IPR020826. Transketolase_BS.
IPR033248. Transketolase_C.
IPR033247. Transketolase_fam.
IPR005474. Transketolase_N.
[Graphical view]
PANTHERiPTHR11624. PTHR11624. 2 hits.
PfamiPF13292. DXP_synthase_N. 1 hit.
PF02779. Transket_pyr. 1 hit.
PF02780. Transketolase_C. 1 hit.
[Graphical view]
SMARTiSM00861. Transket_pyr. 1 hit.
[Graphical view]
SUPFAMiSSF52518. SSF52518. 2 hits.
SSF52922. SSF52922. 1 hit.
TIGRFAMsiTIGR00204. dxs. 1 hit.
PROSITEiPS00801. TRANSKETOLASE_1. 1 hit.
PS00802. TRANSKETOLASE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A4QEQ9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGILNSISTP ADLKALNDED LDALAKEIRT FLVDKVAATG GHLGPNLGVV
60 70 80 90 100
ELTIGLHRVF DSPQDPIIFD TSHQSYVHKI LTGRAKDFDS LRQKDGLSGY
110 120 130 140 150
TCRAESEHDW TESSHASAAL SYADGLSKAK QLDGDTTHSV VAVVGDGALT
160 170 180 190 200
GGMCWEALNN IAAGKDRKVV VVVNDNGRSY SPTIGGFAEN LAGLRMQPFY
210 220 230 240 250
DRFMEKGKTS LKSMGWVGER TFEALHAFKE GVKSTVIPTE MFPELGMKYV
260 270 280 290 300
GPVDGHNQKA VDNALKYAHD YDGPIIVHMV TEKGRGYAPA EQDLDELMHS
310 320 330 340 350
TGVIDPLTGA PKSASKPGWT SVFSDELVKI GAQNENVVAI TAAMAGPTGL
360 370 380 390 400
SKFEANFPNR FFDVGIAEQH AVTSAAGLAL GGKHPVVAIY STFLNRAFDQ
410 420 430 440 450
LLMDVGMLNQ PVTLVLDRSG VTGSDGASHN GVWDMALTSI VPGVQVAAPR
460 470 480 490 500
DEDSLRELLN EAISIDDGPT VVRFPKGDLP TPIVAIDTLE DGVDVLAYED
510 520 530 540 550
ATEDDAPSVL IVAVGERATV ALEVASRITQ HGVNVTVVDP RWIVPIPQSL
560 570 580 590 600
VALSDDHDLV ITIEDGVIHG GVGSLLSDAL NASEVDTPRR QIAVPQKYLD
610 620 630
HASRSEVFAD YGLDADGIET TVVGWLDSLF GE
Length:632
Mass (Da):67,458
Last modified:May 15, 2007 - v1
Checksum:i8A5574648BBDF7C8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP009044 Genomic DNA. Translation: BAF54725.1.
RefSeqiWP_011897357.1. NC_009342.1.

Genome annotation databases

EnsemblBacteriaiBAF54725; BAF54725; cgR_1731.
KEGGicgt:cgR_1731.
PATRICi21508070. VBICorGlu58097_1782.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP009044 Genomic DNA. Translation: BAF54725.1.
RefSeqiWP_011897357.1. NC_009342.1.

3D structure databases

ProteinModelPortaliA4QEQ9.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAF54725; BAF54725; cgR_1731.
KEGGicgt:cgR_1731.
PATRICi21508070. VBICorGlu58097_1782.

Phylogenomic databases

HOGENOMiHOG000012986.
KOiK01662.
OMAiHAVGPFD.
OrthoDBiPOG091H015K.

Enzyme and pathway databases

UniPathwayiUPA00064; UER00091.
BioCyciCGLU340322:GJBE-1811-MONOMER.

Family and domain databases

Gene3Di3.40.50.920. 1 hit.
3.40.50.970. 3 hits.
HAMAPiMF_00315. DXP_synth. 1 hit.
InterProiIPR005477. Dxylulose-5-P_synthase.
IPR029061. THDP-binding.
IPR009014. Transketo_C/PFOR_II.
IPR005475. Transketolase-like_Pyr-bd.
IPR020826. Transketolase_BS.
IPR033248. Transketolase_C.
IPR033247. Transketolase_fam.
IPR005474. Transketolase_N.
[Graphical view]
PANTHERiPTHR11624. PTHR11624. 2 hits.
PfamiPF13292. DXP_synthase_N. 1 hit.
PF02779. Transket_pyr. 1 hit.
PF02780. Transketolase_C. 1 hit.
[Graphical view]
SMARTiSM00861. Transket_pyr. 1 hit.
[Graphical view]
SUPFAMiSSF52518. SSF52518. 2 hits.
SSF52922. SSF52922. 1 hit.
TIGRFAMsiTIGR00204. dxs. 1 hit.
PROSITEiPS00801. TRANSKETOLASE_1. 1 hit.
PS00802. TRANSKETOLASE_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDXS_CORGB
AccessioniPrimary (citable) accession number: A4QEQ9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: May 15, 2007
Last modified: September 7, 2016
This is version 66 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

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. 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.