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P55882

- THID_SALTY

UniProt

P55882 - THID_SALTY

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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

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
Complete GO annotation...

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 – 117Combined sources
Beta strandi16 – 183Combined sources
Helixi19 – 2911Combined sources
Beta strandi33 – 4513Combined sources
Beta strandi48 – 547Combined sources
Helixi57 – 6812Combined sources
Beta strandi74 – 785Combined sources
Helixi84 – 9613Combined sources
Beta strandi101 – 1055Combined sources
Helixi119 – 12810Combined sources
Helixi130 – 1323Combined sources
Beta strandi134 – 1374Combined sources
Helixi140 – 1478Combined sources
Helixi155 – 16713Combined sources
Beta strandi171 – 1766Combined sources
Beta strandi188 – 1903Combined sources
Beta strandi195 – 1973Combined sources
Helixi211 – 22212Combined sources
Helixi223 – 2253Combined sources
Beta strandi226 – 2283Combined sources
Helixi229 – 24416Combined sources
Helixi245 – 2495Combined sources
Beta strandi254 – 2563Combined sources
Turni261 – 2655Combined sources

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

« Hide

        10         20         30         40         50
MQRINALTIA GTDPSGGAGI QADLKTFSAL GAYGCSVITA LVAQNTCGVQ
60 70 80 90 100
SVYRIEPDFV AAQLDSVFSD VRIDTTKIGM LAETDIVEAV AERLQRHHVR
110 120 130 140 150
NVVLDTVMLA KSGDPLLSPS AIETLRVRLL PQVSLITPNL PEAAALLDAP
160 170 180 190 200
HARTEQEMLA QGRALLAMGC EAVLMKGGHL EDAQSPDWLF TREGEQRFSA
210 220 230 240 250
PRVNTKNTHG TGCTLSAALA ALRPRHRSWG ETVNEAKAWL SAALAQADTL
260
EVGKGIGPVH HFHAWW
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

« Hide 'large scale' publications
  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 29, 2014
This is version 101 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