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Protein

Hydroxymethylpyrimidine/phosphomethylpyrimidine kinase

Gene

thiD

Organism
Staphylococcus aureus (strain N315)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the phosphorylation of hydroxymethylpyrimidine phosphate (HMP-P) to HMP-PP, and of HMP to HMP-P.By similarity

Catalytic activityi

ATP + 4-amino-5-hydroxymethyl-2-methylpyrimidine = ADP + 4-amino-5-phosphonooxymethyl-2-methylpyrimidine.
ATP + 4-amino-2-methyl-5-phosphomethylpyrimidine = ADP + 4-amino-2-methyl-5-diphosphomethylpyrimidine.

Pathway: thiamine diphosphate biosynthesis

This protein is involved in step 2 and 3 of the subpathway that synthesizes 4-amino-2-methyl-5-diphosphomethylpyrimidine from 5-amino-1-(5-phospho-D-ribosyl)imidazole.
Proteins known to be involved in the 3 steps of the subpathway in this organism are:
  1. no protein annotated in this organism
  2. Hydroxymethylpyrimidine/phosphomethylpyrimidine kinase (thiD)
  3. Hydroxymethylpyrimidine/phosphomethylpyrimidine kinase (thiD)
This subpathway is part of the pathway thiamine diphosphate biosynthesis, which is itself part of Cofactor biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes 4-amino-2-methyl-5-diphosphomethylpyrimidine from 5-amino-1-(5-phospho-D-ribosyl)imidazole, the pathway thiamine diphosphate biosynthesis and in Cofactor biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei45 – 451SubstrateBy similarity

GO - Molecular functioni

GO - Biological processi

Keywords - Molecular functioni

Kinase, Transferase

Keywords - Biological processi

Thiamine biosynthesis

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciSAUR158879:GJCB-2029-MONOMER.
UniPathwayiUPA00060; UER00137.
UPA00060; UER00138.

Names & Taxonomyi

Protein namesi
Recommended name:
Hydroxymethylpyrimidine/phosphomethylpyrimidine kinase (EC:2.7.1.49, EC:2.7.4.7)
Alternative name(s):
Hydroxymethylpyrimidine kinase
Short name:
HMP kinase
Hydroxymethylpyrimidine phosphate kinase
Short name:
HMP-P kinase
Short name:
HMP-phosphate kinase
Short name:
HMPP kinase
Gene namesi
Name:thiD
Ordered Locus Names:SA1896
OrganismiStaphylococcus aureus (strain N315)
Taxonomic identifieri158879 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 276276Hydroxymethylpyrimidine/phosphomethylpyrimidine kinasePRO_0000192029Add
BLAST

2D gel databases

SWISS-2DPAGEP99124.

Structurei

3D structure databases

ProteinModelPortaliP99124.
SMRiP99124. Positions 5-263.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the ThiD family.Curated

Phylogenomic databases

eggNOGiCOG0351.
HOGENOMiHOG000225273.
KOiK00941.
OMAiGPLNHWA.
OrthoDBiEOG6XWV53.

Family and domain databases

Gene3Di3.40.1190.20. 1 hit.
InterProiIPR004399. HMP/HMP-P_kinase.
IPR013749. PM/HMP-P_kinase-1.
IPR029056. Ribokinase-like.
[Graphical view]
PfamiPF08543. Phos_pyr_kin. 1 hit.
[Graphical view]
SUPFAMiSSF53613. SSF53613. 1 hit.
TIGRFAMsiTIGR00097. HMP-P_kinase. 1 hit.

Sequencei

Sequence statusi: Complete.

P99124-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIKPKIALTI AGTDPTGGAG VMADLKSFHS CGVYGMGVVT SIVAQNTLGV
60 70 80 90 100
QHIHNLNHQW VDEQLDSVFN DTLPHAIKTG MIATADTMET IRHYLMQHES
110 120 130 140 150
IPYVIDPVML AKSGDSLMDN DTKQNLQHTL LPLADVVTPN LPEAEEITGL
160 170 180 190 200
TIDSEEKIMQ AGRIFINEIG SKGIIIKGGH SNDTDIAKDY LFTNEGVQTF
210 220 230 240 250
ENERFKTKHT HGTGCTFSAV ITAELAKGRP LFEAVHKAKK FISMSIQYTP
260 270
EIGRGRGPVN HFAYLKKEGL DDELSK
Length:276
Mass (Da):30,242
Last modified:October 11, 2004 - v1
Checksum:i4E42A1E6A6622004
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000018 Genomic DNA. Translation: BAB43180.1.
PIRiC90002.
RefSeqiNP_375201.1. NC_002745.2.
WP_000594954.1. NC_002745.2.

Genome annotation databases

EnsemblBacteriaiBAB43180; BAB43180; BAB43180.
KEGGisau:SA1896.
PATRICi19576248. VBIStaAur116463_2051.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000018 Genomic DNA. Translation: BAB43180.1.
PIRiC90002.
RefSeqiNP_375201.1. NC_002745.2.
WP_000594954.1. NC_002745.2.

3D structure databases

ProteinModelPortaliP99124.
SMRiP99124. Positions 5-263.
ModBaseiSearch...
MobiDBiSearch...

2D gel databases

SWISS-2DPAGEP99124.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAB43180; BAB43180; BAB43180.
KEGGisau:SA1896.
PATRICi19576248. VBIStaAur116463_2051.

Phylogenomic databases

eggNOGiCOG0351.
HOGENOMiHOG000225273.
KOiK00941.
OMAiGPLNHWA.
OrthoDBiEOG6XWV53.

Enzyme and pathway databases

UniPathwayiUPA00060; UER00137.
UPA00060; UER00138.
BioCyciSAUR158879:GJCB-2029-MONOMER.

Family and domain databases

Gene3Di3.40.1190.20. 1 hit.
InterProiIPR004399. HMP/HMP-P_kinase.
IPR013749. PM/HMP-P_kinase-1.
IPR029056. Ribokinase-like.
[Graphical view]
PfamiPF08543. Phos_pyr_kin. 1 hit.
[Graphical view]
SUPFAMiSSF53613. SSF53613. 1 hit.
TIGRFAMsiTIGR00097. HMP-P_kinase. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: N315.
  2. Cited for: IDENTIFICATION BY MASS SPECTROMETRY.
    Strain: N315.
  3. "Shotgun proteomic analysis of total and membrane protein extracts of S. aureus strain N315."
    Vaezzadeh A.R., Deshusses J., Lescuyer P., Hochstrasser D.F.
    Submitted (OCT-2007) to UniProtKB
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Strain: N315.

Entry informationi

Entry nameiTHID_STAAN
AccessioniPrimary (citable) accession number: P99124
Secondary accession number(s): Q99SG4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: October 11, 2004
Last modified: June 24, 2015
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

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.