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P55882

- THID_SALTY

UniProt

P55882 - THID_SALTY

Protein

Hydroxymethylpyrimidine/phosphomethylpyrimidine kinase

Gene

thiD

Organism
Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 100 (01 Oct 2014)
      Sequence version 2 (23 Jan 2002)
      Previous versions | rss
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    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.

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei44 – 441Substrate1 Publication

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-KW
    2. hydroxymethylpyrimidine kinase activity Source: UniProtKB-EC
    3. phosphomethylpyrimidine kinase activity Source: UniProtKB-EC

    GO - Biological processi

    1. thiamine biosynthetic process Source: UniProtKB-KW
    2. thiamine diphosphate biosynthetic process Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Kinase, Transferase

    Keywords - Biological processi

    Thiamine biosynthesis

    Keywords - Ligandi

    ATP-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciRETL1328306-WGS:GSTH-6200-MONOMER.
    SENT99287:GCTI-2159-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:STM2146
    OrganismiSalmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
    Taxonomic identifieri99287 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella
    ProteomesiUP000001014: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 266266Hydroxymethylpyrimidine/phosphomethylpyrimidine kinasePRO_0000192026Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.1 Publication

    Protein-protein interaction databases

    STRINGi99287.STM2146.

    Structurei

    Secondary structure

    1
    266
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi5 – 117
    Beta strandi16 – 183
    Helixi19 – 2911
    Beta strandi33 – 4513
    Beta strandi48 – 547
    Helixi57 – 6812
    Beta strandi74 – 785
    Helixi84 – 9613
    Beta strandi101 – 1055
    Helixi119 – 12810
    Helixi130 – 1323
    Beta strandi134 – 1374
    Helixi140 – 1478
    Helixi155 – 16713
    Beta strandi171 – 1766
    Beta strandi188 – 1903
    Beta strandi195 – 1973
    Helixi211 – 22212
    Helixi223 – 2253
    Beta strandi226 – 2283
    Helixi229 – 24416
    Helixi245 – 2495
    Beta strandi254 – 2563
    Turni261 – 2655

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1JXHX-ray2.30A/B1-266[»]
    1JXIX-ray2.64A/B1-266[»]
    1LLJmodel-A1-266[»]
    ProteinModelPortaliP55882.
    SMRiP55882. Positions 1-266.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP55882.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the ThiD family.Curated

    Phylogenomic databases

    eggNOGiCOG0351.
    HOGENOMiHOG000225275.
    KOiK00941.
    OMAiTNHWAYS.
    OrthoDBiEOG6XWV53.
    PhylomeDBiP55882.

    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.

    P55882-1 [UniParc]FASTAAdd to Basket

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    MQRINALTIA GTDPSGGAGI QADLKTFSAL GAYGCSVITA LVAQNTCGVQ    50
    SVYRIEPDFV AAQLDSVFSD VRIDTTKIGM LAETDIVEAV AERLQRHHVR 100
    NVVLDTVMLA KSGDPLLSPS AIETLRVRLL PQVSLITPNL PEAAALLDAP 150
    HARTEQEMLA QGRALLAMGC EAVLMKGGHL EDAQSPDWLF TREGEQRFSA 200
    PRVNTKNTHG TGCTLSAALA ALRPRHRSWG ETVNEAKAWL SAALAQADTL 250
    EVGKGIGPVH HFHAWW 266
    Length:266
    Mass (Da):28,544
    Last modified:January 23, 2002 - v2
    Checksum:iF8B94332E1616368
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti44 – 441Q → E in AAB66492. (PubMed:9244280)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U87940 Genomic DNA. Translation: AAB66492.1.
    AE006468 Genomic DNA. Translation: AAL21049.1.
    RefSeqiNP_461090.1. NC_003197.1.

    Genome annotation databases

    EnsemblBacteriaiAAL21049; AAL21049; STM2146.
    GeneIDi1253667.
    KEGGistm:STM2146.
    PATRICi32382881. VBISalEnt20916_2271.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U87940 Genomic DNA. Translation: AAB66492.1 .
    AE006468 Genomic DNA. Translation: AAL21049.1 .
    RefSeqi NP_461090.1. NC_003197.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1JXH X-ray 2.30 A/B 1-266 [» ]
    1JXI X-ray 2.64 A/B 1-266 [» ]
    1LLJ model - A 1-266 [» ]
    ProteinModelPortali P55882.
    SMRi P55882. Positions 1-266.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 99287.STM2146.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAL21049 ; AAL21049 ; STM2146 .
    GeneIDi 1253667.
    KEGGi stm:STM2146.
    PATRICi 32382881. VBISalEnt20916_2271.

    Phylogenomic databases

    eggNOGi COG0351.
    HOGENOMi HOG000225275.
    KOi K00941.
    OMAi TNHWAYS.
    OrthoDBi EOG6XWV53.
    PhylomeDBi P55882.

    Enzyme and pathway databases

    UniPathwayi UPA00060 ; UER00137 .
    UPA00060 ; UER00138 .
    BioCyci RETL1328306-WGS:GSTH-6200-MONOMER.
    SENT99287:GCTI-2159-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei P55882.

    Family and domain databases

    Gene3Di 3.40.1190.20. 1 hit.
    InterProi IPR004399. HMP/HMP-P_kinase.
    IPR013749. PM/HMP-P_kinase-1.
    IPR029056. Ribokinase-like.
    [Graphical view ]
    Pfami PF08543. Phos_pyr_kin. 1 hit.
    [Graphical view ]
    SUPFAMi SSF53613. SSF53613. 1 hit.
    TIGRFAMsi TIGR00097. HMP-P_kinase. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Identification and characterization of an operon in Salmonella typhimurium involved in thiamine biosynthesis."
      Petersen L.A., Downs D.M.
      J. Bacteriol. 179:4894-4900(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: LT2.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: LT2 / SGSC1412 / ATCC 700720.
    3. "Crystal structure of 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate kinase from Salmonella typhimurium at 2.3 A resolution."
      Cheng G., Bennett E.M., Begley T.P., Ealick S.E.
      Structure 10:225-235(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS) OF APOENZYME AND IN COMPLEX WITH SUBSTRATE, SUBUNIT.

    Entry informationi

    Entry nameiTHID_SALTY
    AccessioniPrimary (citable) accession number: P55882
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1997
    Last sequence update: January 23, 2002
    Last modified: October 1, 2014
    This is version 100 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3