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Protein

Nucleoside diphosphate kinase IV, chloroplastic/mitochondrial

Gene

NDK4

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Major role in the synthesis of nucleoside triphosphates other than ATP. The ATP gamma phosphate is transferred to the NDP beta phosphate via a ping-pong mechanism, using a phosphorylated active-site intermediate. Shows the highest specificity towards GDP (By similarity).By similarity

Catalytic activityi

ATP + nucleoside diphosphate = ADP + nucleoside triphosphate.

Cofactori

Mg2+By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei95 – 951ATPBy similarity
Binding sitei143 – 1431ATPBy similarity
Binding sitei171 – 1711ATPBy similarity
Binding sitei177 – 1771ATPBy similarity
Binding sitei188 – 1881ATPBy similarity
Binding sitei198 – 1981ATPBy similarity
Active sitei201 – 2011Pros-phosphohistidine intermediateBy similarity

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • nucleoside diphosphate kinase activity Source: GO_Central
  • zinc ion binding Source: TAIR

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Kinase, Transferase

Keywords - Biological processi

Nucleotide metabolism

Keywords - Ligandi

ATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciARA:AT4G23900-MONOMER.
ReactomeiR-ATH-499943. Synthesis and interconversion of nucleotide di- and triphosphates.

Names & Taxonomyi

Protein namesi
Recommended name:
Nucleoside diphosphate kinase IV, chloroplastic/mitochondrial (EC:2.7.4.6)
Short name:
NDK IV
Short name:
NDP kinase IV
Short name:
NDPK IV
Alternative name(s):
Nucleoside diphosphate kinase 4
Gene namesi
Name:NDK4
Ordered Locus Names:At4g23900
ORF Names:T32A16.70
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 4

Organism-specific databases

TAIRiAT4G23900.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Mitochondrion, Plastid, Thylakoid

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 8484Chloroplast and mitochondrionBy similarityAdd
BLAST
Chaini85 – 237153Nucleoside diphosphate kinase IV, chloroplastic/mitochondrialPRO_0000019436Add
BLAST

Proteomic databases

PaxDbiQ8LAH8.
PRIDEiQ8LAH8.

PTM databases

iPTMnetiQ8LAH8.

Expressioni

Gene expression databases

ExpressionAtlasiQ8LAH8. baseline and differential.
GenevisibleiQ8LAH8. AT.

Interactioni

Subunit structurei

Homohexamer.Curated

Protein-protein interaction databases

STRINGi3702.AT4G23900.1.

Structurei

3D structure databases

ProteinModelPortaliQ8LAH8.
SMRiQ8LAH8. Positions 85-235.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the NDK family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiKOG0888. Eukaryota.
COG0105. LUCA.
HOGENOMiHOG000224564.
InParanoidiQ8LAH8.
KOiK00940.
PhylomeDBiQ8LAH8.

Family and domain databases

HAMAPiMF_00451. NDP_kinase.
InterProiIPR001564. Nucleoside_diP_kinase.
IPR023005. Nucleoside_diP_kinase_AS.
[Graphical view]
PfamiPF00334. NDK. 1 hit.
[Graphical view]
PRINTSiPR01243. NUCDPKINASE.
SMARTiSM00562. NDK. 1 hit.
[Graphical view]
PROSITEiPS00469. NDP_KINASES. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q8LAH8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSQICRSAS RAARSLLSSA KNARFFSEGR AIGAASVVHA TGKVPQYASN
60 70 80 90 100
FGKSGSGFVS NSWITGLLAL PAAAFMLQDQ EALAAEMERT FIAIKPDGVQ
110 120 130 140 150
RGLISEIITR FERKGYKLVG IKVMVPSKGF AQKHYHDLKE RPFFNGLCNF
160 170 180 190 200
LSSGPVVAMV WEGEGVIRYG RKLIGATDPQ KSEPGTIRGD LAVVVGRNII
210 220 230
HGSDGPETAK DEISLWFKPE ELVSYTSNAE KWIYGQN
Length:237
Mass (Da):25,773
Last modified:March 15, 2004 - v2
Checksum:i0CC2B487E3D376FA
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti36 – 361S → T in AAM65336 (Ref. 5) Curated
Sequence conflicti66 – 661G → R in AAM65336 (Ref. 5) Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL078468 Genomic DNA. Translation: CAB43890.1.
AL161560 Genomic DNA. Translation: CAB81308.1.
CP002687 Genomic DNA. Translation: AEE84824.1.
AB044970 Genomic DNA. Translation: BAB19789.1.
AK117895 mRNA. Translation: BAC42534.1.
AY087800 mRNA. Translation: AAM65336.1.
PIRiT08909.
RefSeqiNP_567690.1. NM_118522.3.
UniGeneiAt.32397.

Genome annotation databases

EnsemblPlantsiAT4G23900.1; AT4G23900.1; AT4G23900.
GeneIDi828490.
GrameneiAT4G23900.1; AT4G23900.1; AT4G23900.
KEGGiath:AT4G23900.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL078468 Genomic DNA. Translation: CAB43890.1.
AL161560 Genomic DNA. Translation: CAB81308.1.
CP002687 Genomic DNA. Translation: AEE84824.1.
AB044970 Genomic DNA. Translation: BAB19789.1.
AK117895 mRNA. Translation: BAC42534.1.
AY087800 mRNA. Translation: AAM65336.1.
PIRiT08909.
RefSeqiNP_567690.1. NM_118522.3.
UniGeneiAt.32397.

3D structure databases

ProteinModelPortaliQ8LAH8.
SMRiQ8LAH8. Positions 85-235.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT4G23900.1.

PTM databases

iPTMnetiQ8LAH8.

Proteomic databases

PaxDbiQ8LAH8.
PRIDEiQ8LAH8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT4G23900.1; AT4G23900.1; AT4G23900.
GeneIDi828490.
GrameneiAT4G23900.1; AT4G23900.1; AT4G23900.
KEGGiath:AT4G23900.

Organism-specific databases

TAIRiAT4G23900.

Phylogenomic databases

eggNOGiKOG0888. Eukaryota.
COG0105. LUCA.
HOGENOMiHOG000224564.
InParanoidiQ8LAH8.
KOiK00940.
PhylomeDBiQ8LAH8.

Enzyme and pathway databases

BioCyciARA:AT4G23900-MONOMER.
ReactomeiR-ATH-499943. Synthesis and interconversion of nucleotide di- and triphosphates.

Miscellaneous databases

PROiQ8LAH8.

Gene expression databases

ExpressionAtlasiQ8LAH8. baseline and differential.
GenevisibleiQ8LAH8. AT.

Family and domain databases

HAMAPiMF_00451. NDP_kinase.
InterProiIPR001564. Nucleoside_diP_kinase.
IPR023005. Nucleoside_diP_kinase_AS.
[Graphical view]
PfamiPF00334. NDK. 1 hit.
[Graphical view]
PRINTSiPR01243. NUCDPKINASE.
SMARTiSM00562. NDK. 1 hit.
[Graphical view]
PROSITEiPS00469. NDP_KINASES. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Arabidopsis NDP kinase gene NDK4."
    Yabe N., Hashimoto K., Hasunuma K.
    Submitted (JUN-2000) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: cv. Columbia.
  2. "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana."
    Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T., Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B., Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M., de Simone V., Obermaier B.
    , Mache R., Mueller M., Kreis M., Delseny M., Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D., Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J., Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B., Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J., Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R., Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M., Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C., Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J., Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S., Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A., Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M., Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D., Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E., Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S., Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R., Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M., Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E., Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P., Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K., Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K., de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K., Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M., Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G., Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K., Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K., Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W., Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H., Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B., Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J., Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K., O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N., Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A., Martienssen R., McCombie W.R.
    Nature 402:769-777(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  5. "Full-length cDNA from Arabidopsis thaliana."
    Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A.
    Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  6. "Proteomic approach to identify novel mitochondrial proteins in Arabidopsis."
    Kruft V., Eubel H., Jaensch L., Werhahn W., Braun H.-P.
    Plant Physiol. 127:1694-1710(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 85-102, SUBCELLULAR LOCATION.
    Tissue: Leaf and Stem.
  7. "Experimental analysis of the Arabidopsis mitochondrial proteome highlights signaling and regulatory components, provides assessment of targeting prediction programs, and indicates plant-specific mitochondrial proteins."
    Heazlewood J.L., Tonti-Filippini J.S., Gout A.M., Day D.A., Whelan J., Millar A.H.
    Plant Cell 16:241-256(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    Strain: cv. Landsberg erecta.

Entry informationi

Entry nameiNDK4_ARATH
AccessioniPrimary (citable) accession number: Q8LAH8
Secondary accession number(s): Q9T0A5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 15, 2004
Last sequence update: March 15, 2004
Last modified: July 6, 2016
This is version 112 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  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.