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Protein

Deoxynucleotide monophosphate kinase

Gene

1

Organism
Enterobacteria phage T4 (Bacteriophage T4)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Phosphorylates dGMP, dTMP and 5-hydroxymethyl-dCMP while excluding dCMP and dAMP. The phosphorylation of 5-hydroxymethyl-dCMP represents the first step in the replacement of cytosine by hydroxymethylcytosine in new viral DNA genomes.1 Publication

Catalytic activityi

ATP + deoxynucleoside phosphate = ADP + deoxynucleoside diphosphate.

GO - Molecular functioni

Complete GO annotation...

Keywords - Molecular functioni

Kinase, Transferase

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Deoxynucleotide monophosphate kinase (EC:2.7.4.13)
Short name:
DNK
Short name:
dNMP kinase
Alternative name(s):
Gp1
Gene namesi
Name:1
OrganismiEnterobacteria phage T4 (Bacteriophage T4)
Taxonomic identifieri10665 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stageCaudoviralesMyoviridaeTevenvirinaeT4likevirus
Virus hostiEscherichia coli [TaxID: 562]
ProteomesiUP000009087 Componenti: Genome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 241241Deoxynucleotide monophosphate kinasePRO_0000164948Add
BLAST

Interactioni

Subunit structurei

Homodimer.

Structurei

Secondary structure

1
241
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 76Combined sources
Helixi14 – 2411Combined sources
Beta strandi27 – 293Combined sources
Helixi34 – 4714Combined sources
Turni48 – 503Combined sources
Beta strandi51 – 533Combined sources
Helixi58 – 614Combined sources
Turni62 – 654Combined sources
Helixi76 – 9116Combined sources
Beta strandi101 – 1066Combined sources
Beta strandi108 – 1103Combined sources
Helixi112 – 12312Combined sources
Helixi131 – 1399Combined sources
Turni140 – 1423Combined sources
Helixi143 – 1464Combined sources
Helixi151 – 16313Combined sources
Beta strandi169 – 1735Combined sources
Helixi179 – 1879Combined sources
Beta strandi191 – 1966Combined sources
Helixi207 – 2093Combined sources
Beta strandi219 – 2224Combined sources
Helixi227 – 23913Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1DEKX-ray2.00A/B1-241[»]
1DELX-ray2.20A/B1-241[»]
ProteinModelPortaliP04531.
SMRiP04531. Positions 1-241.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP04531.

Family & Domainsi

Sequence similaritiesi

Belongs to the dNMP kinase family.Curated

Family and domain databases

Gene3Di1.10.238.70. 1 hit.
3.40.50.300. 1 hit.
InterProiIPR023191. DNMP_kinase_N_dom.
IPR027417. P-loop_NTPase.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.

Sequencei

Sequence statusi: Complete.

P04531-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKLIFLSGVK RSGKDTTADF IMSNYSAVKY QLAGPIKDAL AYAWGVFAAN
60 70 80 90 100
TDYPCLTRKE FEGIDYDRET NLNLTKLEVI TIMEQAFCYL NGKSPIKGVF
110 120 130 140 150
VFDDEGKESV NFVAFNKITD VINNIEDQWS VRRLMQALGT DLIVNNFDRM
160 170 180 190 200
YWVKLFALDY LDKFNSGYDY YIVPDTRQDH EMDAARAMGA TVIHVVRPGQ
210 220 230 240
KSNDTHITEA GLPIRDGDLV ITNDGSLEEL FSKIKNTLKV L
Length:241
Mass (Da):27,329
Last modified:August 13, 1987 - v1
Checksum:i61AD2375CC94BDE8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X03016 Genomic DNA. Translation: CAA26800.1.
AF158101 Genomic DNA. Translation: AAD42414.1.
X14845 Genomic DNA. Translation: CAA32953.1.
PIRiC92919. KIBPD4.
RefSeqiNP_049752.1. NC_000866.4.

Genome annotation databases

GeneIDi1258557.
KEGGivg:1258557.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X03016 Genomic DNA. Translation: CAA26800.1.
AF158101 Genomic DNA. Translation: AAD42414.1.
X14845 Genomic DNA. Translation: CAA32953.1.
PIRiC92919. KIBPD4.
RefSeqiNP_049752.1. NC_000866.4.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1DEKX-ray2.00A/B1-241[»]
1DELX-ray2.20A/B1-241[»]
ProteinModelPortaliP04531.
SMRiP04531. Positions 1-241.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi1258557.
KEGGivg:1258557.

Miscellaneous databases

EvolutionaryTraceiP04531.

Family and domain databases

Gene3Di1.10.238.70. 1 hit.
3.40.50.300. 1 hit.
InterProiIPR023191. DNMP_kinase_N_dom.
IPR027417. P-loop_NTPase.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence organization and control of transcription in the bacteriophage T4 tRNA region."
    Broida J., Abelson J.
    J. Mol. Biol. 185:545-563(1985) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "Nucleotide sequence of the bacteriophage T4 gene 57 and a deduced amino acid sequence."
    Herrmann R.
    Nucleic Acids Res. 10:1105-1112(1982) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 148-241.
  4. "Sequencing, cloning and overexpression of genes of bacteriophage T4 between map positions 74.325 and 77.184."
    Koch T., Lamm N., Rueger W.
    Nucleic Acids Res. 17:4392-4392(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-27.
  5. "The enzymology of virus-infected bacteria. X. A biochemical-genetic study of the deoxynucleotide kinase induced by wild type and amber mutants of phage T4."
    Duckworth D.H., Bessman M.J.
    J. Biol. Chem. 242:2877-2885(1967) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  6. "Crystal structure of bacteriophage T4 deoxynucleotide kinase with its substrates dGMP and ATP."
    Teplyakov A., Sebastiao P., Obmolova G., Perrakis A., Brush G.S., Bessman M.J., Wilson K.S.
    EMBO J. 15:3487-3497(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS).

Entry informationi

Entry nameiDNMK_BPT4
AccessioniPrimary (citable) accession number: P04531
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 13, 1987
Last sequence update: August 13, 1987
Last modified: May 27, 2015
This is version 88 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.