B2RMK4 (DXS_PORG3) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
1-deoxy-D-xylulose-5-phosphate synthase
EC=2.2.1.7

Alternative name(s):
1-deoxyxylulose-5-phosphate synthase
Short name=DXP synthase
Short name=DXPS

Gene names

Name:	dxs
Ordered Locus Names:	PGN_2081

Organism

Porphyromonas gingivalis (strain ATCC 33277 / DSM 20709 / JCM 12257) [Complete proteome] [HAMAP]

Taxonomic identifier

431947 [NCBI]

Taxonomic lineage

Bacteria › Bacteroidetes › Bacteroidia › Bacteroidales › Porphyromonadaceae › Porphyromonas

Protein attributes

Sequence length	634 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	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) By similarity. HAMAP MF_00315
Catalytic activity	Pyruvate + D-glyceraldehyde 3-phosphate = 1-deoxy-D-xylulose 5-phosphate + CO2. HAMAP MF_00315
Cofactor	Binds 1 thiamine pyrophosphate per subunit By similarity.
Pathway	Metabolic intermediate biosynthesis; 1-deoxy-D-xylulose 5-phosphate biosynthesis; 1-deoxy-D-xylulose 5-phosphate from D-glyceraldehyde 3-phosphate and pyruvate: step 1/1. HAMAP MF_00315
Subunit structure	Homodimer By similarity. HAMAP MF_00315
Sequence similarities	Belongs to the transketolase family. DXPS subfamily.

Ontologies

Keywords
Biological process	Isoprene biosynthesis Thiamine biosynthesis
Ligand	Thiamine pyrophosphate
Molecular function	Transferase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	terpenoid biosynthetic process Inferred from electronic annotation. Source: InterPro thiamine biosynthetic process Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	1-deoxy-D-xylulose-5-phosphate synthase activity Inferred from electronic annotation. Source: EC thiamine pyrophosphate binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 634	634	1-deoxy-D-xylulose-5-phosphate synthase HAMAP MF_00315		PRO_1000115755

Sequences

	Sequence		Length	Mass (Da)
	B2RMK4 [UniParc]. Last modified July 1, 2008. Version 1. Checksum: F18BEC685FB372C1	FASTA	634	70,303
	10 20 30 40 50 60 MMEVRPTTLI DHINSPADLR ALKPEQLPQV CRELRRYILE VLSVTPGHLG SSLGAVDFTV 70 80 90 100 110 120 ALHYVFDTPY DRIVWDVGHQ AYSHKILTGR REDFRHLRQW GGISGFPSPK ESEYDTFPAG 130 140 150 160 170 180 HASNSISAAL GMAVASAAKD EKRKVIAVIG DGSMTGGMAF EGLNNASSFP NNLLIILNDN 190 200 210 220 230 240 NMSIDRNVGG LNRYMVDILT SKTYNTIRYD LYKGLRKINL ISETNRKNLL RFNNSFKALL 250 260 270 280 290 300 ARESNLFEGF SIRYFGPVDG NNVLRLVEVL NQIKDMAGPK ILHLRTIKGK GYSPAEKQAT 310 320 330 340 350 360 IWHAPGEFDI KSGERKKGEN KPEPPKFQDV FGHTLVELAD RDERIVGVTP AMPTGCSMTF 370 380 390 400 410 420 LMKKYPNRAY DVGIAEGHAV TFSAGLAKEG LIPFCNIYSS FIQRGYDQVI HDVALSGSHV 430 440 450 460 470 480 VICLDRAGLV GEDGATHHGV FDMAFLRCVP DIVVASPLNE HELRNLMLTA YKGYDGPMVI 490 500 510 520 530 540 RYPRGKGVLT DWRNTPRLVE IARGRCLTEG EAIAFLSIGP IGNMVQKVVE RLAEKGVSAA 550 560 570 580 590 600 HYDMVFLKPL DEEMLHGIAK KFDTIISVED GCIQGGFGSA VMEFMADHDY HPRIRRVGVP 610 620 630 DRFIGQGSVP EQYADCGMDA DSLLHLTEEL LLHP

References

[1]

"Determination of the genome sequence of Porphyromonas gingivalis strain ATCC 33277 and genomic comparison with strain W83 revealed extensive genome rearrangements in P. gingivalis." Naito M., Hirakawa H., Yamashita A., Ohara N., Shoji M., Yukitake H., Nakayama K., Toh H., Yoshimura F., Kuhara S., Hattori M., Hayashi T., Nakayama K. DNA Res. 15:215-225(2008) [PubMed: 18524787] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 33277 / DSM 20709 / JCM 12257.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AP009380 Genomic DNA. Translation: BAG34599.1.
RefSeq	YP_001930196.1. NC_010729.1.
3D structure databases
ModBase	Search...
Protein-protein interaction databases
STRING	B2RMK4.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	6329559.
GenomeReviews	Gene locus PGN_2081 in contig AP009380_GR.
KEGG	pgn:PGN_2081.
PATRIC	22977131. VBIPorGin26334_2045.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HBG571647.
OMA	EAMNAHA.
ProtClustDB	PRK05444.
Family and domain databases
HAMAP	MF_00315. DXP_synth. [Tree]
InterPro	IPR005477. Dxylulose-5-P_synthase. IPR011766. TPP_enzyme-bd_C. IPR009014. Transketo_C/Pyr-ferredox_oxred. IPR015941. Transketolase-like_C. IPR005475. Transketolase-like_Pyr-bd. IPR020826. Transketolase_BS. IPR005476. Transketolase_C. [Graphical view]
Gene3D	G3DSA:3.40.50.920. Transketo_C_like. 1 hit.
KO	K01662.
Pfam	PF02775. TPP_enzyme_C. 1 hit. PF02779. Transket_pyr. 1 hit. PF02780. Transketolase_C. 1 hit. [Graphical view]
SMART	SM00861. Transket_pyr. 1 hit. [Graphical view]
SUPFAM	SSF52922. Transketo_C_like. 1 hit.
TIGRFAMs	TIGR00204. Dxs. 1 hit.
PROSITE	PS00801. TRANSKETOLASE_1. False negative. PS00802. TRANSKETOLASE_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DXS_PORG3

Accession

Primary (citable) accession number: B2RMK4

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 24, 2009
Last sequence update:	July 1, 2008
Last modified:	January 25, 2012
This is version 28 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program