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Protein

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

Gene

dxs

Organism
Hyphomonas neptunium (strain ATCC 15444)
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 sitei79 – 791Thiamine pyrophosphateUniRule annotation
Metal bindingi151 – 1511MagnesiumUniRule annotation
Metal bindingi180 – 1801MagnesiumUniRule annotation
Binding sitei180 – 1801Thiamine pyrophosphateUniRule annotation
Binding sitei287 – 2871Thiamine pyrophosphateUniRule annotation
Binding sitei369 – 3691Thiamine 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

BioCyciHNEP228405:GI69-1838-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:HNE_1838
OrganismiHyphomonas neptunium (strain ATCC 15444)
Taxonomic identifieri228405 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesHyphomonadaceaeHyphomonas
Proteomesi
  • UP000001959 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 6406401-deoxy-D-xylulose-5-phosphate synthasePRO_1000019034Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi228405.HNE_1838.

Structurei

3D structure databases

ProteinModelPortaliQ0C154.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni120 – 1223Thiamine pyrophosphate bindingUniRule annotation
Regioni152 – 1532Thiamine pyrophosphate bindingUniRule annotation

Sequence similaritiesi

Belongs to the transketolase family. DXPS subfamily.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C2V. Bacteria.
COG1154. LUCA.
HOGENOMiHOG000012988.
KOiK01662.
OMAiHAVGPFD.
OrthoDBiEOG6BKJ6P.

Family and domain databases

Gene3Di3.40.50.920. 1 hit.
3.40.50.970. 3 hits.
HAMAPiMF_00315. DXP_synth.
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. 3 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.

Q0C154-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTETRPNRLL DAIDTPSDLK GRSRADLKQI AAEVREEVVD VVSVTGGHLG
60 70 80 90 100
SGLGVVELTV AIHSVFDTPD DKLVWDVGHQ CYPHKILTGR KDRMRTLRQG
110 120 130 140 150
GGLSGFTKRS ESEYDPFGAA HASTSISAGL GFAKSRDLQN KDNHVICVIG
160 170 180 190 200
DGSMSAGMAY EAMNNAGADR SRMIVILNDN DMSIAPPVGA MSHYFSRLVS
210 220 230 240 250
SRPYRGLRRI AKKVVQPMGL ESPARRAEEY LRGFAMGGTL FEEMGFYYIG
260 270 280 290 300
PVDGHDLDTL LDLLENIKAM QDGPILLHVV TQKGKGYAPA ENSADKYHGV
310 320 330 340 350
SKFSVVTGEQ AKGAGGPPSY QKVFGQTLAK LGETDDKICA ITAAMPSGTS
360 370 380 390 400
TDIFGKKFPD RHFDVGIAEQ HAVTFAAGLA ADGMKPFCAI YSTFLQRGYD
410 420 430 440 450
QVVHDVAIQQ LPVRFAIDRA GLVGADGATH AGSFDIGYLG ALPGFVCMAP
460 470 480 490 500
SDEAELARMV LTSLEIDDRP SAVRYPRGEG VGVVIPDLLK PLEIGKGRVV
510 520 530 540 550
REGTSIAILS YGTRLQEALK AAEMLAAQGL SATVADARFA KPLDNELIER
560 570 580 590 600
LAREHEVLVT IEEGSRGGFG SFVLEHLANC GGLDAGLKVR VMTLPDVFQD
610 620 630 640
HDTPAAMYDQ AGLTARHIAA RAIEALGRGD LSAIERLASA
Length:640
Mass (Da):68,527
Last modified:October 17, 2006 - v1
Checksum:i6945AC9139189A8A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000158 Genomic DNA. Translation: ABI76402.1.
RefSeqiWP_011646839.1. NC_008358.1.

Genome annotation databases

EnsemblBacteriaiABI76402; ABI76402; HNE_1838.
KEGGihne:HNE_1838.
PATRICi32216507. VBIHypNep17450_1840.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000158 Genomic DNA. Translation: ABI76402.1.
RefSeqiWP_011646839.1. NC_008358.1.

3D structure databases

ProteinModelPortaliQ0C154.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi228405.HNE_1838.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABI76402; ABI76402; HNE_1838.
KEGGihne:HNE_1838.
PATRICi32216507. VBIHypNep17450_1840.

Phylogenomic databases

eggNOGiENOG4105C2V. Bacteria.
COG1154. LUCA.
HOGENOMiHOG000012988.
KOiK01662.
OMAiHAVGPFD.
OrthoDBiEOG6BKJ6P.

Enzyme and pathway databases

UniPathwayiUPA00064; UER00091.
BioCyciHNEP228405:GI69-1838-MONOMER.

Family and domain databases

Gene3Di3.40.50.920. 1 hit.
3.40.50.970. 3 hits.
HAMAPiMF_00315. DXP_synth.
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. 3 hits.
SSF52922. SSF52922. 1 hit.
TIGRFAMsiTIGR00204. dxs. 1 hit.
PROSITEiPS00801. TRANSKETOLASE_1. 1 hit.
PS00802. TRANSKETOLASE_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 15444.

Entry informationi

Entry nameiDXS_HYPNA
AccessioniPrimary (citable) accession number: Q0C154
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: October 17, 2006
Last modified: May 11, 2016
This is version 72 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

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.