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Protein

NAD kinase 1

Gene

nadK1

Organism
Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP.UniRule annotation2 Publications

Catalytic activityi

ATP + NAD+ = ADP + NADP+.UniRule annotation1 Publication

Cofactori

a divalent metal cationUniRule annotation

Enzyme regulationi

Competitively inhibited by 5'-thioacetyladenosine (TAA) and di-(5'-thioadenosine) (DTA).2 Publications

Kineticsi

Kcat is 13.78 sec(-1) for kinase activity with ATP (at pH 7.5 and 30 degrees Celsius). Kcat is 13.12 sec(-1) for kinase activity with NAD (at pH 7.5 and 30 degrees Celsius).

  1. KM=2.8 mM for ATP (at pH 7.5 and 30 degrees Celsius)1 Publication
  1. Vmax=6.67 µmol/min/mg enzyme (at pH 7.5 and 30 degrees Celsius)1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei45Proton acceptorUniRule annotation1 Publication1
Binding sitei46NAD; via amide nitrogenUniRule annotation1 Publication1
Binding sitei148NADUniRule annotation1
Binding sitei150NAD1 Publication1
Binding sitei158NAD; via carbonyl oxygenUniRule annotation1 Publication1
Binding sitei223NADUniRule annotation1 Publication1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi45 – 46NADUniRule annotation1 Publication2
Nucleotide bindingi122 – 123NADUniRule annotation1 Publication2
Nucleotide bindingi161 – 166NADUniRule annotation1 Publication6

GO - Molecular functioni

  • ATP binding Source: UniProtKB
  • metal ion binding Source: UniProtKB-HAMAP
  • NAD+ kinase activity Source: UniProtKB
  • NAD binding Source: UniProtKB

GO - Biological processi

  • NAD metabolic process Source: InterPro
  • NADP biosynthetic process Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Kinase, Transferase

Keywords - Ligandi

ATP-binding, NAD, NADP, Nucleotide-binding

Enzyme and pathway databases

BRENDAi2.7.1.23. 3045.

Names & Taxonomyi

Protein namesi
Recommended name:
NAD kinase 1UniRule annotation (EC:2.7.1.23UniRule annotation)
Alternative name(s):
ATP-dependent NAD kinaseUniRule annotation
Gene namesi
Name:nadK1UniRule annotation
Ordered Locus Names:lmo0968
OrganismiListeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
Taxonomic identifieri169963 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesListeriaceaeListeria
Proteomesi
  • UP000000817 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi45D → N: Only minor changes in the structure and a 10-fold decrease in the kinase activity. 1 Publication1
Mutagenesisi223H → E: Twice less active than the wild-type. Its activity toward DTA is increased 2-fold. 2 Publications1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001206321 – 264NAD kinase 1Add BLAST264

Proteomic databases

PaxDbiQ8Y8D7.

Interactioni

Subunit structurei

Homotetramer.2 Publications

Protein-protein interaction databases

STRINGi169963.lmo0968.

Structurei

Secondary structure

1264
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 7Combined sources6
Helixi11 – 24Combined sources14
Turni26 – 28Combined sources3
Beta strandi33 – 35Combined sources3
Beta strandi37 – 44Combined sources8
Helixi45 – 54Combined sources10
Helixi56 – 58Combined sources3
Turni59 – 61Combined sources3
Beta strandi63 – 71Combined sources9
Beta strandi74 – 76Combined sources3
Helixi80 – 82Combined sources3
Helixi83 – 91Combined sources9
Beta strandi96 – 112Combined sources17
Beta strandi115 – 131Combined sources17
Beta strandi133 – 139Combined sources7
Beta strandi142 – 155Combined sources14
Helixi158 – 161Combined sources4
Helixi163 – 166Combined sources4
Beta strandi178 – 185Combined sources8
Beta strandi189 – 191Combined sources3
Beta strandi199 – 202Combined sources4
Beta strandi207 – 213Combined sources7
Beta strandi217 – 221Combined sources5
Beta strandi224 – 228Combined sources5
Beta strandi230 – 247Combined sources18
Helixi253 – 261Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2I1WX-ray2.34A/B/C/D1-264[»]
2I29X-ray2.10A1-264[»]
2I2AX-ray2.10A1-264[»]
2I2BX-ray2.10A1-264[»]
2I2CX-ray1.85A1-264[»]
2I2DX-ray2.22A1-264[»]
2I2FX-ray1.90A1-264[»]
2Q5FX-ray1.90A1-264[»]
3V7UX-ray1.97A1-264[»]
3V7WX-ray2.01A1-264[»]
3V7YX-ray1.97A1-264[»]
3V80X-ray2.03A1-264[»]
3V8MX-ray2.48A1-264[»]
3V8NX-ray2.38A1-264[»]
3V8PX-ray2.29A1-264[»]
3V8QX-ray2.37A1-264[»]
3V8RX-ray2.39A1-264[»]
4DY6X-ray2.20A1-264[»]
5DHPX-ray2.27A/B/C/D1-264[»]
5DHQX-ray2.29A/B/C/D1-264[»]
5DHRX-ray2.31A/B/C/D1-264[»]
5DHSX-ray2.62A/B/C/D1-264[»]
5DHTX-ray2.59A/B/C/D1-264[»]
5DHUX-ray2.33A/B/C/D1-264[»]
ProteinModelPortaliQ8Y8D7.
SMRiQ8Y8D7.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ8Y8D7.

Family & Domainsi

Sequence similaritiesi

Belongs to the NAD kinase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105F91. Bacteria.
COG0061. LUCA.
HOGENOMiHOG000275803.
KOiK00858.
OMAiHHIVSLQ.
PhylomeDBiQ8Y8D7.

Family and domain databases

Gene3Di2.60.200.30. 1 hit.
3.40.50.10330. 1 hit.
HAMAPiMF_00361. NAD_kinase. 1 hit.
InterProiIPR017438. ATP-NAD_kinase_dom_1.
IPR017437. ATP-NAD_kinase_PpnK-typ_all-b.
IPR016064. NAD/diacylglycerol_kinase.
IPR002504. NADK.
[Graphical view]
PANTHERiPTHR20275. PTHR20275. 1 hit.
PfamiPF01513. NAD_kinase. 1 hit.
[Graphical view]
SUPFAMiSSF111331. SSF111331. 1 hit.

Sequencei

Sequence statusi: Complete.

Q8Y8D7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKYMITSKGD EKSDLLRLNM IAGFGEYDME YDDVEPEIVI SIGGDGTFLS
60 70 80 90 100
AFHQYEERLD EIAFIGIHTG HLGFYADWRP AEADKLVKLL AKGEYQKVSY
110 120 130 140 150
PLLKTTVKYG IGKKEATYLA LNESTVKSSG GPFVVDVVIN DIHFERFRGD
160 170 180 190 200
GLCMSTPSGT TAYNKSLGGA LMHPSIEAMQ LTEMASINNR VYRTIGSPLV
210 220 230 240 250
FPKHHVVSLQ PVNDKDFQIS VDHLSILHRD VQEIRYEVSA KKIHFARFRS
260
FPFWRRVHDS FIED
Length:264
Mass (Da):29,933
Last modified:March 1, 2002 - v1
Checksum:i00E0BCC4CAD30653
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL591977 Genomic DNA. Translation: CAC99046.1.
PIRiAH1195.
RefSeqiNP_464493.1. NC_003210.1.
WP_003729850.1. NC_003210.1.

Genome annotation databases

EnsemblBacteriaiCAC99046; CAC99046; CAC99046.
GeneIDi986453.
KEGGilmo:lmo0968.
PATRICi20311034. VBILisMon69206_0995.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL591977 Genomic DNA. Translation: CAC99046.1.
PIRiAH1195.
RefSeqiNP_464493.1. NC_003210.1.
WP_003729850.1. NC_003210.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2I1WX-ray2.34A/B/C/D1-264[»]
2I29X-ray2.10A1-264[»]
2I2AX-ray2.10A1-264[»]
2I2BX-ray2.10A1-264[»]
2I2CX-ray1.85A1-264[»]
2I2DX-ray2.22A1-264[»]
2I2FX-ray1.90A1-264[»]
2Q5FX-ray1.90A1-264[»]
3V7UX-ray1.97A1-264[»]
3V7WX-ray2.01A1-264[»]
3V7YX-ray1.97A1-264[»]
3V80X-ray2.03A1-264[»]
3V8MX-ray2.48A1-264[»]
3V8NX-ray2.38A1-264[»]
3V8PX-ray2.29A1-264[»]
3V8QX-ray2.37A1-264[»]
3V8RX-ray2.39A1-264[»]
4DY6X-ray2.20A1-264[»]
5DHPX-ray2.27A/B/C/D1-264[»]
5DHQX-ray2.29A/B/C/D1-264[»]
5DHRX-ray2.31A/B/C/D1-264[»]
5DHSX-ray2.62A/B/C/D1-264[»]
5DHTX-ray2.59A/B/C/D1-264[»]
5DHUX-ray2.33A/B/C/D1-264[»]
ProteinModelPortaliQ8Y8D7.
SMRiQ8Y8D7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi169963.lmo0968.

Proteomic databases

PaxDbiQ8Y8D7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAC99046; CAC99046; CAC99046.
GeneIDi986453.
KEGGilmo:lmo0968.
PATRICi20311034. VBILisMon69206_0995.

Phylogenomic databases

eggNOGiENOG4105F91. Bacteria.
COG0061. LUCA.
HOGENOMiHOG000275803.
KOiK00858.
OMAiHHIVSLQ.
PhylomeDBiQ8Y8D7.

Enzyme and pathway databases

BRENDAi2.7.1.23. 3045.

Miscellaneous databases

EvolutionaryTraceiQ8Y8D7.

Family and domain databases

Gene3Di2.60.200.30. 1 hit.
3.40.50.10330. 1 hit.
HAMAPiMF_00361. NAD_kinase. 1 hit.
InterProiIPR017438. ATP-NAD_kinase_dom_1.
IPR017437. ATP-NAD_kinase_PpnK-typ_all-b.
IPR016064. NAD/diacylglycerol_kinase.
IPR002504. NADK.
[Graphical view]
PANTHERiPTHR20275. PTHR20275. 1 hit.
PfamiPF01513. NAD_kinase. 1 hit.
[Graphical view]
SUPFAMiSSF111331. SSF111331. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiNADK1_LISMO
AccessioniPrimary (citable) accession number: Q8Y8D7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 25, 2002
Last sequence update: March 1, 2002
Last modified: November 2, 2016
This is version 92 of the entry and version 1 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

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 one 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.