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Protein

Phosphomethylpyrimidine synthase

Gene

thiC

Organism
Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / NBRC 12614 / NCIMB 9131 / NCTC 9757)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Catalyzes the synthesis of the hydroxymethylpyrimidine phosphate (HMP-P) moiety of thiamine from aminoimidazole ribotide (AIR) in a radical S-adenosyl-L-methionine (SAM)-dependent reaction.UniRule annotation

Catalytic activityi

5-amino-1-(5-phospho-D-ribosyl)imidazole + S-adenosyl-L-methionine = 4-amino-2-methyl-5-(phosphomethyl)pyrimidine + 5'-deoxyadenosine + L-methionine + formate + CO.UniRule annotation

Cofactori

[4Fe-4S] clusterUniRule annotationNote: Binds 1 [4Fe-4S] cluster per subunit. The cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine.UniRule annotation

Pathwayi: thiamine diphosphate biosynthesis

This protein is involved in the pathway thiamine diphosphate biosynthesis, which is part of Cofactor biosynthesis.UniRule annotation
View all proteins of this organism that are known to be involved in the pathway thiamine diphosphate biosynthesis and in Cofactor biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei237SubstrateUniRule annotation1
Binding sitei266SubstrateUniRule annotation1
Binding sitei295SubstrateUniRule annotation1
Binding sitei331SubstrateUniRule annotation1
Binding sitei431SubstrateUniRule annotation1
Metal bindingi435ZincUniRule annotation1
Binding sitei458SubstrateUniRule annotation1
Metal bindingi499ZincUniRule annotation1
Metal bindingi579Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi582Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi587Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLyase
Biological processThiamine biosynthesis
Ligand4Fe-4S, Iron, Iron-sulfur, Metal-binding, S-adenosyl-L-methionine, Zinc

Enzyme and pathway databases

BioCyciCVIO243365:G1G08-224-MONOMER
UniPathwayiUPA00060

Names & Taxonomyi

Protein namesi
Recommended name:
Phosphomethylpyrimidine synthaseUniRule annotation (EC:4.1.99.17UniRule annotation)
Alternative name(s):
Hydroxymethylpyrimidine phosphate synthaseUniRule annotation
Short name:
HMP-P synthaseUniRule annotation
Short name:
HMP-phosphate synthaseUniRule annotation
Short name:
HMPP synthaseUniRule annotation
Thiamine biosynthesis protein ThiCUniRule annotation
Gene namesi
Name:thiCUniRule annotation
Ordered Locus Names:CV_0235
OrganismiChromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / NBRC 12614 / NCIMB 9131 / NCTC 9757)
Taxonomic identifieri243365 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaNeisserialesChromobacteriaceaeChromobacterium
Proteomesi
  • UP000001424 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001527951 – 632Phosphomethylpyrimidine synthaseAdd BLAST632

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi243365.CV_0235

Structurei

3D structure databases

ProteinModelPortaliQ7P1H8
SMRiQ7P1H8
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni351 – 353Substrate bindingUniRule annotation3
Regioni392 – 395Substrate bindingUniRule annotation4

Sequence similaritiesi

Belongs to the ThiC family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105CBF Bacteria
COG0422 LUCA
HOGENOMiHOG000224484
KOiK03147
OMAiTWELFRD
OrthoDBiPOG091H02FB

Family and domain databases

Gene3Di3.20.20.540, 1 hit
HAMAPiMF_00089 ThiC, 1 hit
InterProiView protein in InterPro
IPR037509 ThiC
IPR025747 ThiC-associated_dom
IPR038521 ThiC/Bza_sf
IPR002817 ThiC/BzaA/B
PANTHERiPTHR30557 PTHR30557, 1 hit
PfamiView protein in Pfam
PF13667 ThiC-associated, 1 hit
PF01964 ThiC_Rad_SAM, 1 hit
SFLDiSFLDF00407 phosphomethylpyrimidine_syntha, 1 hit
TIGRFAMsiTIGR00190 thiC, 1 hit

Sequencei

Sequence statusi: Complete.

Q7P1H8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNAPVNKQMV VDAAAIQPLP NSRKIYVEGS RPDIQVPMRE IRQADTPTQF
60 70 80 90 100
GGEKNPPIFV YDTSGPYSDP AARIDIQSGL APLRAAWIAQ RGDCEQLPGL
110 120 130 140 150
SSEYGRAREA DPKLAELRFN LQRKPRRAKA GRNVTQMHYA RRGIVTPEME
160 170 180 190 200
FVAIRENLNR RAYVESLQAA GNRRLLDLMT RQHQGQSFGA HLPEEITPEF
210 220 230 240 250
VREEIAAGRA IIPANINHPE SEPMIIGRNF LVKINGNIGN SAVTSSISEE
260 270 280 290 300
VDKMTWGIRW GADTIMDLST GKNIHETREW ILRNSPVPIG TVPIYQALEK
310 320 330 340 350
VNGKAEDLSW EIFRDTLIEQ AEQGVDYFTI HAGVRLAYVP MTANRMTGIV
360 370 380 390 400
SRGGSIMAKW CLAHHRENFL YTHFEDICEI MKAYDVAFSL GDGLRPGSAW
410 420 430 440 450
DANDEAQLSE LKTLGELTEI AWKHDVQVMI EGPGHVPMQL IKENMDKELE
460 470 480 490 500
WCREAPFYTL GPLTTDIAPG YDHITSAIGA AQIGWYGTAM LCYVTQKEHL
510 520 530 540 550
GLPNKHDVKE GIITYKLAAH AADLAKGHPG AQIRDNALSK ARFEFRWEDQ
560 570 580 590 600
FNLGLDPDKA RDFHDETLPK DSAKVAHFCS MCGPHFCSMK ITQDVREYAA
610 620 630
SQGVGEQDAL RLGMREKAIE FVKGGGKLYD KV
Length:632
Mass (Da):70,644
Last modified:December 15, 2003 - v1
Checksum:iFB7308052CE65441
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE016825 Genomic DNA Translation: AAQ57914.1
RefSeqiWP_011133790.1, NC_005085.1

Genome annotation databases

EnsemblBacteriaiAAQ57914; AAQ57914; CV_0235
GeneIDi24946048
KEGGicvi:CV_0235

Similar proteinsi

Entry informationi

Entry nameiTHIC_CHRVO
AccessioniPrimary (citable) accession number: Q7P1H8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 24, 2004
Last sequence update: December 15, 2003
Last modified: March 28, 2018
This is version 92 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
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Main funding by: National Institutes of Health