Q05982 (NDKA_RAT) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Nucleoside diphosphate kinase A
Short name=NDK A
Short name=NDP kinase A
EC=2.7.4.6

Alternative name(s):
Metastasis inhibition factor NM23
Tumor metastatic process-associated protein

Gene names

Name:

Nme1

Organism

Rattus norvegicus (Rat)

Taxonomic identifier

10116 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Rattus

Protein attributes

Sequence length	152 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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. Possesses nucleoside-diphosphate kinase, serine/threonine-specific protein kinase, geranyl and farnesyl pyrophosphate kinase, histidine protein kinase and 3'-5' exonuclease activities. Involved in cell proliferation, differentiation and development, signal transduction, G protein-coupled receptor endocytosis, and gene expression. Required for neural development including neural patterning and cell fate determination By similarity.
Catalytic activity	ATP + nucleoside diphosphate = ADP + nucleoside triphosphate.
Cofactor	Magnesium By similarity.
Enzyme regulation	Autophosphorylation at His-118 increases serine/threonine protein kinase activity of the enzyme. Interaction with the SET complex inhibits exonuclease activity By similarity.
Subunit structure	Hexamer of two different chains: A and B (A6, A5B, A4B2, A3B3, A2B4, AB5, B6). Interacts with SET and PRUNE By similarity.
Subcellular location	Cytoplasm. Nucleus.
Involvement in disease	Note=This protein is found in reduced amount in tumor cells of high metastatic potential.
Sequence similarities	Belongs to the NDK family.

Ontologies

Keywords
Biological process	Differentiation Endocytosis Neurogenesis Nucleotide metabolism
Cellular component	Cytoplasm Nucleus
Ligand	ATP-binding Magnesium Metal-binding Nucleotide-binding
Molecular function	Kinase Transferase
PTM	Acetylation Isopeptide bond Phosphoprotein Ubl conjugation
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological process	CTP biosynthetic process Inferred from electronic annotation. Source: InterPro GTP biosynthetic process Inferred from electronic annotation. Source: InterPro UTP biosynthetic process Inferred from electronic annotation. Source: InterPro cellular response to drug Inferred from expression pattern. Source: RGD cellular response to fatty acid Inferred from expression pattern. Source: RGD cellular response to glucose stimulus Inferred from expression pattern. Source: RGD endocytosis Inferred from electronic annotation. Source: UniProtKB-KW hippocampus development Inferred from expression pattern. Source: RGD negative regulation of gene expression Inferred from direct assay. Source: RGD negative regulation of myeloid leukocyte differentiation Inferred from direct assay. Source: RGD positive regulation of neuron projection development Inferred from mutant phenotype. Source: RGD response to amine stimulus Inferred from expression pattern. Source: RGD response to cAMP Inferred from expression pattern. Source: RGD response to testosterone stimulus Inferred from expression pattern. Source: RGD
Cellular component	centrosome Inferred from direct assay. Source: RGD cytosol Inferred from direct assay. Source: RGD membrane fraction Inferred from direct assay. Source: RGD nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell perinuclear region of cytoplasm Inferred from direct assay. Source: RGD
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW RNA polymerase II regulatory region sequence-specific DNA binding Inferred from direct assay. Source: RGD gamma-tubulin binding Inferred from direct assay. Source: RGD intermediate filament binding Inferred from physical interaction. Source: RGD nucleoside diphosphate kinase activity Inferred from direct assay. Source: RGD protein kinase binding Inferred from physical interaction. Source: RGD single-stranded DNA binding Inferred from direct assay. Source: RGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
MEN1	O00255	5	EBI-1165329,EBI-592789	From a different organism.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Initiator methionine	1	1	Removed By similarity
	Chain	2 – 152	151	Nucleoside diphosphate kinase A		PRO_0000137116
Sites
	Active site	118	1	Pros-phosphohistidine intermediate By similarity
	Binding site	12	1	ATP By similarity
	Binding site	60	1	ATP By similarity
	Binding site	88	1	ATP By similarity
	Binding site	94	1	ATP By similarity
	Binding site	105	1	ATP By similarity
	Binding site	115	1	ATP By similarity
Amino acid modifications
	Modified residue	2	1	N-acetylalanine By similarity
	Modified residue	52	1	Phosphotyrosine By similarity
	Modified residue	56	1	N6-acetyllysine By similarity
	Modified residue	94	1	Phosphothreonine By similarity
	Cross-link	100		Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q05982 [UniParc]. Last modified February 1, 1994. Version 1. Checksum: 32C49E6271195C3B	FASTA	152	17,193
	10 20 30 40 50 60 MANSERTFIA IKPDGVQRGL VGEIIKRFEQ KGFRLVGLKF IQASEDLLKE HYIDLKDRPF 70 80 90 100 110 120 FSGLVKYMHS GPVVAMVWEG LNVVKTGRVM LGETNPADSK PGTIRGDFCI QVGRNIIHGS 130 140 150 DSVESAEKEI SLWFQPEELV DYKSCAQNWI YE

References

[1]	"A second form (beta isoform) of nucleoside diphosphate kinase from rat. Isolation and characterization of complementary and genomic DNA and expression." Shimada N., Ishikawa N., Munakata Y., Toda T., Watanabe K., Kimura N. J. Biol. Chem. 268:2583-2589(1993) [PubMed: 8381409] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]	Lubec G., Afjehi-Sadat L., Chen W.-Q., Kang S.U. Submitted (JUL-2007) to UniProtKB Cited for: PROTEIN SEQUENCE OF 7-26; 40-66 AND 89-114, MASS SPECTROMETRY. Strain: Sprague-Dawley. Tissue: Brain, Hippocampus and Spinal cord.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	D13374 mRNA. Translation: BAA02635.1.
IPI	IPI00194404.
PIR	A45208.
RefSeq	NP_612557.1. NM_138548.1.
UniGene	Rn.6236.
3D structure databases
ProteinModelPortal	Q05982.
SMR	Q05982. Positions 2-152.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q05982. 1 interaction.
STRING	Q05982.
PTM databases
PhosphoSite	Q05982.
Proteomic databases
PRIDE	Q05982.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSRNOT00000003658; ENSRNOP00000003658; ENSRNOG00000002693.
GeneID	191575.
KEGG	rno:191575.
NMPDR	fig|10116.3.peg.5895.
UCSC	NM_138548. rat.
Organism-specific databases
CTD	4830.
RGD	70497. Nme1.
Phylogenomic databases
eggNOG	maNOG10260.
HOVERGEN	HBG000423.
InParanoid	Q05982.
OMA	KSCAQNW.
OrthoDB	EOG4S1T8G.
PhylomeDB	Q05982.
Gene expression databases
ArrayExpress	Q05982.
Genevestigator	Q05982.
GermOnline	ENSRNOG00000002693. Rattus norvegicus.
Family and domain databases
InterPro	IPR001564. Nucleoside_diP_kinase. IPR023005. Nucleoside_diP_kinase_AS. [Graphical view]
Gene3D	G3DSA:3.30.70.141. NDK. 1 hit.
KO	K00940.
PANTHER	PTHR11349. Nuc_diP_kinase_core. 1 hit.
Pfam	PF00334. NDK. 1 hit. [Graphical view]
PRINTS	PR01243. NUCDPKINASE.
SMART	SM00562. NDK. 1 hit. [Graphical view]
SUPFAM	SSF54919. NDK. 1 hit.
PROSITE	PS00469. NDP_KINASES. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	622659.

Entry information

Entry name

NDKA_RAT

Accession

Primary (citable) accession number: Q05982

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1994
Last sequence update:	February 1, 1994
Last modified:	November 16, 2011
This is version 93 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program