UniProtKB - Q05982 (NDKA_RAT)
Protein
Nucleoside diphosphate kinase A
Gene
Nme1
Organism
Rattus norvegicus (Rat)
Status
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. 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. During GZMA-mediated cell death, works in concert with TREX1. NME1 nicks one strand of DNA and TREX1 removes bases from the free 3' end to enhance DNA damage and prevent DNA end reannealing and rapid repair (By similarity).By similarity
Catalytic activityi
Cofactori
Mg2+By similarity
Activity regulationi
Autophosphorylation at His-118 increases serine/threonine protein kinase activity of the enzyme. Interaction with the SET complex inhibits exonuclease activity (By similarity).By similarity
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Binding sitei | 12 | ATPBy similarity | 1 | |
Binding sitei | 60 | ATPBy similarity | 1 | |
Binding sitei | 88 | ATPBy similarity | 1 | |
Binding sitei | 94 | ATPBy similarity | 1 | |
Binding sitei | 105 | ATPBy similarity | 1 | |
Binding sitei | 115 | ATPBy similarity | 1 | |
Active sitei | 118 | Pros-phosphohistidine intermediateBy similarity | 1 |
GO - Molecular functioni
- ATP binding Source: RGD
- deoxyribonuclease activity Source: RGD
- enzyme binding Source: RGD
- gamma-tubulin binding Source: RGD
- GTP binding Source: RGD
- identical protein binding Source: RGD
- intermediate filament binding Source: RGD
- magnesium ion binding Source: RGD
- nucleoside diphosphate kinase activity Source: RGD
- ribosomal small subunit binding Source: RGD
- RNA polymerase II transcription regulatory region sequence-specific DNA binding Source: RGD
- single-stranded DNA binding Source: RGD
GO - Biological processi
- cell differentiation Source: UniProtKB-KW
- cellular response to drug Source: RGD
- cellular response to fatty acid Source: RGD
- cellular response to glucose stimulus Source: RGD
- CTP biosynthetic process Source: InterPro
- endocytosis Source: UniProtKB-KW
- GTP biosynthetic process Source: InterPro
- hippocampus development Source: RGD
- lactation Source: RGD
- mammary gland development Source: RGD
- negative regulation of gene expression Source: RGD
- negative regulation of myeloid leukocyte differentiation Source: RGD
- nucleoside diphosphate phosphorylation Source: RGD
- positive regulation of DNA binding Source: RGD
- positive regulation of epithelial cell proliferation Source: RGD
- positive regulation of neuron projection development Source: RGD
- response to amine Source: RGD
- response to cAMP Source: RGD
- response to drug Source: RGD
- response to testosterone Source: RGD
- UTP biosynthetic process Source: InterPro
Keywordsi
Molecular function | Kinase, Transferase |
Biological process | Differentiation, Endocytosis, Neurogenesis, Nucleotide metabolism |
Ligand | ATP-binding, Magnesium, Metal-binding, Nucleotide-binding |
Enzyme and pathway databases
Reactomei | R-RNO-499943, Interconversion of nucleotide di- and triphosphates |
SABIO-RKi | Q05982 |
Names & Taxonomyi
Protein namesi | Recommended name: Nucleoside diphosphate kinase A (EC:2.7.4.6)Short name: NDK A Short name: NDP kinase A Alternative name(s): Metastasis inhibition factor NM23 Tumor metastatic process-associated protein |
Gene namesi | Name:Nme1 |
Organismi | Rattus norvegicus (Rat) |
Taxonomic identifieri | 10116 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Myomorpha › Muroidea › Muridae › Murinae › Rattus |
Proteomesi |
|
Organism-specific databases
RGDi | 70497, Nme1 |
Subcellular locationi
Cytoskeleton
- centrosome Source: RGD
Cytosol
- cytosol Source: RGD
Mitochondrion
- mitochondrial outer membrane Source: CACAO
Nucleus
- nucleus Source: RGD
Plasma Membrane
- ruffle membrane Source: RGD
Other locations
- membrane Source: RGD
- perinuclear region of cytoplasm Source: RGD
Keywords - Cellular componenti
Cytoplasm, NucleusPathology & Biotechi
Involvement in diseasei
This protein is found in reduced amount in tumor cells of high metastatic potential.
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000137116 | 1 – 152 | Nucleoside diphosphate kinase AAdd BLAST | 152 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Cross-linki | 100 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity | ||
Modified residuei | 120 | PhosphoserineBy similarity | 1 | |
Modified residuei | 122 | PhosphoserineBy similarity | 1 | |
Modified residuei | 125 | PhosphoserineBy similarity | 1 |
Keywords - PTMi
Isopeptide bond, Phosphoprotein, Ubl conjugationProteomic databases
jPOSTi | Q05982 |
PaxDbi | Q05982 |
PRIDEi | Q05982 |
PTM databases
iPTMneti | Q05982 |
PhosphoSitePlusi | Q05982 |
Expressioni
Gene expression databases
Bgeei | ENSRNOG00000002693, Expressed in frontal cortex and 21 other tissues |
Genevisiblei | Q05982, RN |
Interactioni
Subunit structurei
Hexamer of two different chains: A and B (A6, A5B, A4B2, A3B3, A2B4, AB5, B6).
Interacts with PRUNE1.
Component of the SET complex, composed of at least ANP32A, APEX1, HMGB2, NME1, SET and TREX1. Within this complex, interacts directly with SET.
Also interacts with TREX1, but only following translocation to the nucleus.
By similarityBinary interactionsi
Q05982
With | #Exp. | IntAct |
---|---|---|
MEN1 - isoform 2 [O00255-2] from Homo sapiens. | 5 | EBI-1165329,EBI-9869387 |
GO - Molecular functioni
- enzyme binding Source: RGD
- gamma-tubulin binding Source: RGD
- identical protein binding Source: RGD
Protein-protein interaction databases
BioGRIDi | 251322, 2 interactors |
CORUMi | Q05982 |
IntActi | Q05982, 1 interactor |
STRINGi | 10116.ENSRNOP00000003658 |
Family & Domainsi
Sequence similaritiesi
Belongs to the NDK family.Curated
Phylogenomic databases
eggNOGi | KOG0888, Eukaryota |
GeneTreei | ENSGT00940000162213 |
HOGENOMi | CLU_060216_6_3_1 |
InParanoidi | Q05982 |
OMAi | KIVAMKM |
OrthoDBi | 1334716at2759 |
PhylomeDBi | Q05982 |
TreeFami | TF106373 |
Family and domain databases
Gene3Di | 3.30.70.141, 1 hit |
HAMAPi | MF_00451, NDP_kinase, 1 hit |
InterProi | View protein in InterPro IPR034907, NDK-like_dom IPR036850, NDK-like_dom_sf IPR001564, Nucleoside_diP_kinase IPR023005, Nucleoside_diP_kinase_AS |
Pfami | View protein in Pfam PF00334, NDK, 1 hit |
PRINTSi | PR01243, NUCDPKINASE |
SMARTi | View protein in SMART SM00562, NDK, 1 hit |
SUPFAMi | SSF54919, SSF54919, 1 hit |
PROSITEi | View protein in PROSITE PS00469, NDP_KINASES, 1 hit |
i Sequence
Sequence statusi: Complete.
Q05982-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MANSERTFIA IKPDGVQRGL VGEIIKRFEQ KGFRLVGLKF IQASEDLLKE
60 70 80 90 100
HYIDLKDRPF FSGLVKYMHS GPVVAMVWEG LNVVKTGRVM LGETNPADSK
110 120 130 140 150
PGTIRGDFCI QVGRNIIHGS DSVESAEKEI SLWFQPEELV DYKSCAQNWI
YE
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | D13374 mRNA Translation: BAA02635.1 |
PIRi | A45208 |
RefSeqi | NP_612557.1, NM_138548.2 XP_017452467.1, XM_017596978.1 XP_017452468.1, XM_017596979.1 |
Genome annotation databases
Ensembli | ENSRNOT00000003658; ENSRNOP00000003658; ENSRNOG00000002693 |
GeneIDi | 191575 |
KEGGi | rno:191575 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | D13374 mRNA Translation: BAA02635.1 |
PIRi | A45208 |
RefSeqi | NP_612557.1, NM_138548.2 XP_017452467.1, XM_017596978.1 XP_017452468.1, XM_017596979.1 |
3D structure databases
SMRi | Q05982 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 251322, 2 interactors |
CORUMi | Q05982 |
IntActi | Q05982, 1 interactor |
STRINGi | 10116.ENSRNOP00000003658 |
PTM databases
iPTMneti | Q05982 |
PhosphoSitePlusi | Q05982 |
Proteomic databases
jPOSTi | Q05982 |
PaxDbi | Q05982 |
PRIDEi | Q05982 |
Genome annotation databases
Ensembli | ENSRNOT00000003658; ENSRNOP00000003658; ENSRNOG00000002693 |
GeneIDi | 191575 |
KEGGi | rno:191575 |
Organism-specific databases
CTDi | 4830 |
RGDi | 70497, Nme1 |
Phylogenomic databases
eggNOGi | KOG0888, Eukaryota |
GeneTreei | ENSGT00940000162213 |
HOGENOMi | CLU_060216_6_3_1 |
InParanoidi | Q05982 |
OMAi | KIVAMKM |
OrthoDBi | 1334716at2759 |
PhylomeDBi | Q05982 |
TreeFami | TF106373 |
Enzyme and pathway databases
Reactomei | R-RNO-499943, Interconversion of nucleotide di- and triphosphates |
SABIO-RKi | Q05982 |
Miscellaneous databases
PROi | PR:Q05982 |
Gene expression databases
Bgeei | ENSRNOG00000002693, Expressed in frontal cortex and 21 other tissues |
Genevisiblei | Q05982, RN |
Family and domain databases
Gene3Di | 3.30.70.141, 1 hit |
HAMAPi | MF_00451, NDP_kinase, 1 hit |
InterProi | View protein in InterPro IPR034907, NDK-like_dom IPR036850, NDK-like_dom_sf IPR001564, Nucleoside_diP_kinase IPR023005, Nucleoside_diP_kinase_AS |
Pfami | View protein in Pfam PF00334, NDK, 1 hit |
PRINTSi | PR01243, NUCDPKINASE |
SMARTi | View protein in SMART SM00562, NDK, 1 hit |
SUPFAMi | SSF54919, SSF54919, 1 hit |
PROSITEi | View protein in PROSITE PS00469, NDP_KINASES, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | NDKA_RAT | |
Accessioni | Q05982Primary (citable) accession number: Q05982 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | February 1, 1994 |
Last sequence update: | February 1, 1994 | |
Last modified: | April 7, 2021 | |
This is version 170 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
Direct protein sequencing, Reference proteomeDocuments
- SIMILARITY comments
Index of protein domains and families