Q8IV63 (VRK3_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
May 1, 2013.
Version 102.
History...
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: Inactive serine/threonine-protein kinase VRK3 Alternative name(s): Serine/threonine-protein pseudokinase VRK3 Vaccinia-related kinase 3 | ||
| Gene names |
| ||
| Organism | Homo sapiens (Human) [Reference proteome] | ||
| Taxonomic identifier | 9606 [NCBI] | ||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo![]() |
Protein attributes
| Sequence length | 474 AA. |
| Sequence status | Complete. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Function | Inactive kinase that suppresses ERK activity by promoting phosphatase activity of DUSP3 which specifically dephosphorylates and inactivates ERK in the nucleus By similarity. Ref.6 Ref.12 |
| Subunit structure | Interacts with DUSP3 By similarity. Interacts with RAN. Ref.7 |
| Subcellular location | |
| Sequence similarities | Belongs to the protein kinase superfamily. CK1 Ser/Thr protein kinase family. VRK subfamily. Contains 1 protein kinase domain. |
| Caution | Inactive as a kinase due to its inability to bind ATP (Ref.12). |
Ontologies
| Keywords | |
|---|---|
| Cellular component | Nucleus |
| Coding sequence diversity | Alternative splicing Polymorphism |
| Ligand | Nucleotide-binding |
| PTM | Phosphoprotein |
| Technical term | 3D-structure Complete proteome Reference proteome |
| Gene Ontology (GO) | |
| Cellular_component | nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell |
| Molecular_function | ATP binding Inferred from electronic annotation. Source: InterPro protein kinase activityInferred from electronic annotation. Source: InterPro |
| Complete GO annotation... | |
Alternative products
| This entry describes 3 isoforms produced by alternative splicing. [Align] [Select] | ||||||
| Isoform 1 (identifier: Q8IV63-1) This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. | ||||||
| Isoform 2 (identifier: Q8IV63-2) The sequence of this isoform differs from the canonical sequence as follows: 407-412: FVDKPG → LPWDSF 413-474: Missing. | ||||||
| Note: No experimental confirmation available. | ||||||
| Isoform 3 (identifier: Q8IV63-3) The sequence of this isoform differs from the canonical sequence as follows: 47-96: Missing. | ||||||
| Note: No experimental confirmation available. |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||||||||||||||||||||||||||||||||||||||||||||||
Molecule processing | |||||||||||||||||||||||||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 474 | 474 | Inactive serine/threonine-protein kinase VRK3 | PRO_0000086808 | |||||||||||||||||||||||||||||||||||||||||||||||||
Regions | |||||||||||||||||||||||||||||||||||||||||||||||||||||
| Domain | 166 – 457 | 292 | Protein kinase | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Motif | 49 – 64 | 16 | Nuclear localization signal Ref.6 | ||||||||||||||||||||||||||||||||||||||||||||||||||
Amino acid modifications | |||||||||||||||||||||||||||||||||||||||||||||||||||||
| Modified residue | 55 | 1 | Phosphoserine Ref.8 | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Modified residue | 59 | 1 | Phosphoserine Ref.8 | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Modified residue | 82 | 1 | Phosphoserine Ref.9 Ref.10 Ref.11 | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Modified residue | 83 | 1 | Phosphoserine Ref.9 Ref.10 Ref.11 | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Modified residue | 90 | 1 | Phosphoserine Ref.9 | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Modified residue | 115 | 1 | Phosphoserine Ref.11 | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Modified residue | 122 | 1 | Phosphoserine Ref.11 | ||||||||||||||||||||||||||||||||||||||||||||||||||
Natural variations | |||||||||||||||||||||||||||||||||||||||||||||||||||||
| Alternative sequence | 47 – 96 | 50 | Missing in isoform 3. | VSP_043409 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Alternative sequence | 407 – 412 | 6 | FVDKPG → LPWDSF in isoform 2. | VSP_008544 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Alternative sequence | 413 – 474 | 62 | Missing in isoform 2. | VSP_008545 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Natural variant | 59 | 1 | S → F. Ref.13 Corresponds to variant rs2033262 [ dbSNP | Ensembl ]. | VAR_041295 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Natural variant | 105 | 1 | P → T. Ref.13 Corresponds to variant rs11547882 [ dbSNP | Ensembl ]. | VAR_041296 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Natural variant | 170 | 1 | S → P. Corresponds to variant rs11547881 [ dbSNP | Ensembl ]. | VAR_051682 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Natural variant | 171 | 1 | F → L. Ref.13 Corresponds to variant rs11547883 [ dbSNP | Ensembl ]. | VAR_041297 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Natural variant | 188 | 1 | T → A. Corresponds to variant rs11879620 [ dbSNP | Ensembl ]. | VAR_051683 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Natural variant | 268 | 1 | S → L. Ref.13 Corresponds to variant rs10410075 [ dbSNP | Ensembl ]. | VAR_041298 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Natural variant | 288 | 1 | C → Y. Ref.13 Corresponds to variant rs10409482 [ dbSNP | Ensembl ]. | VAR_041299 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Natural variant | 304 | 1 | H → L. Corresponds to variant rs35261919 [ dbSNP | Ensembl ]. | VAR_051684 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Natural variant | 370 | 1 | R → C. Ref.13 Corresponds to variant rs35331034 [ dbSNP | Ensembl ]. | VAR_041300 | |||||||||||||||||||||||||||||||||||||||||||||||||
| Natural variant | 371 | 1 | S → G. Ref.13 Corresponds to variant rs56407496 [ dbSNP | Ensembl ]. | VAR_041301 | |||||||||||||||||||||||||||||||||||||||||||||||||
Experimental info | |||||||||||||||||||||||||||||||||||||||||||||||||||||
| Sequence conflict | 161 | 1 | K → E in AAP47180. Ref.2 | ||||||||||||||||||||||||||||||||||||||||||||||||||
Secondary structure | |||||||||||||||||||||||||||||||||||||||||||||||||||||
Helix Strand Turn | |||||||||||||||||||||||||||||||||||||||||||||||||||||
| Beta strand | 157 – 159 | 3 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Beta strand | 165 – 175 | 11 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Beta strand | 178 – 185 | 8 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Beta strand | 200 – 206 | 7 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 211 – 221 | 11 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 224 – 233 | 10 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Beta strand | 246 – 250 | 5 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Turn | 251 – 253 | 3 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Beta strand | 254 – 260 | 7 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 266 – 272 | 7 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 274 – 276 | 3 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 280 – 299 | 20 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Beta strand | 311 – 315 | 5 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Beta strand | 318 – 324 | 7 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 327 – 329 | 3 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 335 – 337 | 3 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Turn | 354 – 356 | 3 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 359 – 362 | 4 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 369 – 385 | 17 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 391 – 393 | 3 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 397 – 409 | 13 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 426 – 436 | 11 | |||||||||||||||||||||||||||||||||||||||||||||||||||
| Helix | 446 – 459 | 14 | |||||||||||||||||||||||||||||||||||||||||||||||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "Vaccinia related kinase 3 (VRK3)." Nezu J. Submitted (AUG-1999) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1). Tissue: Liver. |
| [2] | "Cloning and characterization of a novel human VRK3 gene." Ni X., Xie Y., Mao Y. Submitted (MAY-2002) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1). |
| [3] | "Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. Sugano S.Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 3). Tissue: Testis and Trachea. |
| [4] | "The DNA sequence and biology of human chromosome 19." Grimwood J., Gordon L.A., Olsen A.S., Terry A., Schmutz J., Lamerdin J.E., Hellsten U., Goodstein D., Couronne O., Tran-Gyamfi M., Aerts A., Altherr M., Ashworth L., Bajorek E., Black S., Branscomb E., Caenepeel S., Carrano A.V. Lucas S.M.Nature 428:529-535(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [5] | "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2). Tissue: Brain and Skin. |
| [6] | "Characterization of three paralogous members of the Mammalian vaccinia related kinase family." Nichols R.J., Traktman P. J. Biol. Chem. 279:7934-7946(2004) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION, NUCLEAR LOCALIZATION SIGNAL. |
| [7] | "Proteomics identification of nuclear Ran GTPase as an inhibitor of human VRK1 and VRK2 (vaccinia-related kinase) activities." Sanz-Garcia M., Lopez-Sanchez I., Lazo P.A. Mol. Cell. Proteomics 7:2199-2214(2008) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH RAN. |
| [8] | "A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-55 AND SER-59, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [9] | "Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions." Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K. Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-82; SER-83 AND SER-90, MASS SPECTROMETRY. Tissue: Leukemic T-cell. |
| [10] | "Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis." Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M. Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-82 AND SER-83, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [11] | "System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation." Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B. Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-82; SER-83; SER-115 AND SER-122, MASS SPECTROMETRY. |
| [12] | "Structure of the pseudokinase VRK3 reveals a degraded catalytic site, a highly conserved kinase fold, and a putative regulatory binding site." Scheeff E.D., Eswaran J., Bunkoczi G., Knapp S., Manning G. Structure 17:128-138(2009) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS) OF 146-474, FUNCTION, LACK OF CATALYTIC ACTIVITY. |
| [13] | "Patterns of somatic mutation in human cancer genomes." Greenman C., Stephens P., Smith R., Dalgliesh G.L., Hunter C., Bignell G., Davies H., Teague J., Butler A., Stevens C., Edkins S., O'Meara S., Vastrik I., Schmidt E.E., Avis T., Barthorpe S., Bhamra G., Buck G. Stratton M.R.Nature 446:153-158(2007) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANTS [LARGE SCALE ANALYSIS] PHE-59; THR-105; LEU-171; LEU-268; TYR-288; CYS-370 AND GLY-371. |
Cross-references
Sequence databases | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| EMBL GenBank DDBJ | AB031052 mRNA. Translation: BAA90769.1. AF514788 mRNA. Translation: AAP47180.1. AK292918 mRNA. Translation: BAF85607.1. AK303010 mRNA. Translation: BAG64141.1. AC011452 Genomic DNA. No translation available. BC023556 mRNA. Translation: AAH23556.1. BC095449 mRNA. Translation: AAH95449.1. | ||||||||||||
| IPI | IPI00009291. IPI00375335. IPI00641769. | ||||||||||||
| RefSeq | NP_001020949.1. NM_001025778.1. NP_057524.3. NM_016440.3. | ||||||||||||
| UniGene | Hs.443330. | ||||||||||||
3D structure databases | |||||||||||||
| PDBe RCSB PDB PDBj |
| ||||||||||||
| ProteinModelPortal | Q8IV63. | ||||||||||||
| ModBase | Search... | ||||||||||||
Protein-protein interaction databases | |||||||||||||
| IntAct | Q8IV63. 3 interactions. | ||||||||||||
| STRING | 9606.ENSP00000324636. | ||||||||||||
PTM databases | |||||||||||||
| PhosphoSite | Q8IV63. | ||||||||||||
Polymorphism databases | |||||||||||||
| DMDM | 45593724. | ||||||||||||
Proteomic databases | |||||||||||||
| PaxDb | Q8IV63. | ||||||||||||
| PRIDE | Q8IV63. | ||||||||||||
Protocols and materials databases | |||||||||||||
| DNASU | 51231. | ||||||||||||
| StructuralBiologyKnowledgebase | Search... | ||||||||||||
Genome annotation databases | |||||||||||||
| Ensembl | ENST00000316763; ENSP00000324636; ENSG00000105053. ENST00000377011; ENSP00000366210; ENSG00000105053. ENST00000594092; ENSP00000472541; ENSG00000105053. ENST00000594948; ENSP00000473171; ENSG00000105053. ENST00000599538; ENSP00000469880; ENSG00000105053. ENST00000601341; ENSP00000470156; ENSG00000105053. | ||||||||||||
| GeneID | 51231. | ||||||||||||
| KEGG | hsa:51231. | ||||||||||||
| UCSC | uc002prg.2. human. uc002prk.2. human. | ||||||||||||
Organism-specific databases | |||||||||||||
| CTD | 51231. | ||||||||||||
| GeneCards | GC19M050479. | ||||||||||||
| HGNC | HGNC:18996. VRK3. | ||||||||||||
| HPA | HPA016040. | ||||||||||||
| neXtProt | NX_Q8IV63. | ||||||||||||
| PharmGKB | PA134923990. | ||||||||||||
| GenAtlas | Search... | ||||||||||||
Phylogenomic databases | |||||||||||||
| eggNOG | NOG298316. | ||||||||||||
| HOGENOM | HOG000293191. | ||||||||||||
| HOVERGEN | HBG047756. | ||||||||||||
| InParanoid | Q8IV63. | ||||||||||||
| KO | K08816. | ||||||||||||
| OMA | YEEKPPY. | ||||||||||||
| OrthoDB | EOG48WC2Q. | ||||||||||||
| PhylomeDB | Q8IV63. | ||||||||||||
Gene expression databases | |||||||||||||
| ArrayExpress | Q8IV63. | ||||||||||||
| Bgee | Q8IV63. | ||||||||||||
| CleanEx | HS_VRK3. | ||||||||||||
| Genevestigator | Q8IV63. | ||||||||||||
| GermOnline | ENSG00000105053. Homo sapiens. | ||||||||||||
Family and domain databases | |||||||||||||
| InterPro | IPR011009. Kinase-like_dom. IPR000719. Prot_kinase_cat_dom. [Graphical view] | ||||||||||||
| Pfam | PF00069. Pkinase. 1 hit. [Graphical view] | ||||||||||||
| SUPFAM | SSF56112. Kinase_like. 1 hit. | ||||||||||||
| PROSITE | PS00107. PROTEIN_KINASE_ATP. False negative. PS50011. PROTEIN_KINASE_DOM. 1 hit. PS00108. PROTEIN_KINASE_ST. False negative. [Graphical view] | ||||||||||||
| ProtoNet | Search... | ||||||||||||
Other | |||||||||||||
| ChiTaRS | VRK3. human. | ||||||||||||
| EvolutionaryTrace | Q8IV63. | ||||||||||||
| GenomeRNAi | 51231. | ||||||||||||
| NextBio | 54332. | ||||||||||||
Entry information
| Entry name | VRK3_HUMAN | ||||||||
| Accession | Primary (citable) accession number: Q8IV63 Secondary accession number(s): A6NEG5 Q9P2V8 | ||||||||
| Entry history |
| ||||||||
| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation program | Chordata Protein Annotation Program | ||||||||
| Disclaimer | Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care. | ||||||||
Relevant documents
| Human and mouse protein kinases Human and mouse protein kinases: classification and index |
| Human chromosome 19 Human chromosome 19: entries, gene names and cross-references to MIM |
| Human entries with polymorphisms or disease mutations List of human entries with polymorphisms or disease mutations |
| Human polymorphisms and disease mutations Index of human polymorphisms and disease mutations |
| PDB cross-references Index of Protein Data Bank (PDB) cross-references |
| SIMILARITY comments Index of protein domains and families |

Clusters with
