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Protein

Inactive serine/threonine-protein kinase VRK3

Gene

VRK3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Inactive kinase that suppresses ERK activity by promoting phosphatase activity of DUSP3 which specifically dephosphorylates and inactivates ERK in the nucleus.By similarity2 Publications

Caution

Inactive as a kinase due to its inability to bind ATP.1 Publication

GO - Molecular functioni

  • ATP binding Source: InterPro
  • protein kinase activity Source: InterPro
  • protein phosphatase binding Source: MGI

GO - Biological processi

Keywordsi

LigandNucleotide-binding

Enzyme and pathway databases

ReactomeiR-HSA-202670 ERKs are inactivated
SignaLinkiQ8IV63

Names & Taxonomyi

Protein namesi
Recommended name:
Inactive serine/threonine-protein kinase VRK3
Alternative name(s):
Serine/threonine-protein pseudokinase VRK3
Vaccinia-related kinase 3
Gene namesi
Name:VRK3
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

EuPathDBiHostDB:ENSG00000105053.10
HGNCiHGNC:18996 VRK3
neXtProtiNX_Q8IV63

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000105053
PharmGKBiPA134923990

Chemistry databases

ChEMBLiCHEMBL3430761

Polymorphism and mutation databases

BioMutaiVRK3
DMDMi45593724

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000868081 – 474Inactive serine/threonine-protein kinase VRK3Add BLAST474

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei54PhosphoserineCombined sources1
Modified residuei55PhosphoserineCombined sources1
Modified residuei59PhosphoserineCombined sources1
Modified residuei82PhosphoserineCombined sources1
Modified residuei83PhosphoserineCombined sources1
Modified residuei90PhosphoserineCombined sources1
Modified residuei115PhosphoserineCombined sources1
Modified residuei122PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ8IV63
MaxQBiQ8IV63
PaxDbiQ8IV63
PeptideAtlasiQ8IV63
PRIDEiQ8IV63
ProteomicsDBi70666
70667 [Q8IV63-2]
70668 [Q8IV63-3]
TopDownProteomicsiQ8IV63-1 [Q8IV63-1]

PTM databases

iPTMnetiQ8IV63
PhosphoSitePlusiQ8IV63

Expressioni

Gene expression databases

BgeeiENSG00000105053 Expressed in 220 organ(s), highest expression level in right testis
CleanExiHS_VRK3
ExpressionAtlasiQ8IV63 baseline and differential
GenevisibleiQ8IV63 HS

Organism-specific databases

HPAiHPA056489

Interactioni

Subunit structurei

Interacts with DUSP3 (By similarity). Interacts with RAN.By similarity1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
MAXP612442EBI-1058605,EBI-751711

GO - Molecular functioni

Protein-protein interaction databases

BioGridi119394, 13 interactors
IntActiQ8IV63, 12 interactors
MINTiQ8IV63
STRINGi9606.ENSP00000324636

Structurei

Secondary structure

1474
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ8IV63
SMRiQ8IV63
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ8IV63

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini166 – 457Protein kinasePROSITE-ProRule annotationAdd BLAST292

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi49 – 64Nuclear localization signal1 PublicationAdd BLAST16

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1164 Eukaryota
ENOG410XPGP LUCA
GeneTreeiENSGT00930000150814
HOGENOMiHOG000293191
HOVERGENiHBG047756
InParanoidiQ8IV63
KOiK08816
OMAiFQMACRL
OrthoDBiEOG091G05V5
PhylomeDBiQ8IV63
TreeFamiTF106473

Family and domain databases

InterProiView protein in InterPro
IPR011009 Kinase-like_dom_sf
IPR000719 Prot_kinase_dom
IPR026870 Zinc_ribbon_dom
PfamiView protein in Pfam
PF00069 Pkinase, 1 hit
PF13240 zinc_ribbon_2, 1 hit
SMARTiView protein in SMART
SM00220 S_TKc, 1 hit
SUPFAMiSSF56112 SSF56112, 1 hit
PROSITEiView protein in PROSITE
PS50011 PROTEIN_KINASE_DOM, 1 hit

Sequences (3+)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 3 described isoforms and 11 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q8IV63-1) [UniParc]FASTAAdd to basket

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.

« Hide
        10         20         30         40         50
MISFCPDCGK SIQAAFKFCP YCGNSLPVEE HVGSQTFVNP HVSSFQGSKR
60 70 80 90 100
GLNSSFETSP KKVKWSSTVT SPRLSLFSDG DSSESEDTLS SSERSKGSGS
110 120 130 140 150
RPPTPKSSPQ KTRKSPQVTR GSPQKTSCSP QKTRQSPQTL KRSRVTTSLE
160 170 180 190 200
ALPTGTVLTD KSGRQWKLKS FQTRDNQGIL YEAAPTSTLT CDSGPQKQKF
210 220 230 240 250
SLKLDAKDGR LFNEQNFFQR AAKPLQVNKW KKLYSTPLLA IPTCMGFGVH
260 270 280 290 300
QDKYRFLVLP SLGRSLQSAL DVSPKHVLSE RSVLQVACRL LDALEFLHEN
310 320 330 340 350
EYVHGNVTAE NIFVDPEDQS QVTLAGYGFA FRYCPSGKHV AYVEGSRSPH
360 370 380 390 400
EGDLEFISMD LHKGCGPSRR SDLQSLGYCM LKWLYGFLPW TNCLPNTEDI
410 420 430 440 450
MKQKQKFVDK PGPFVGPCGH WIRPSETLQK YLKVVMALTY EEKPPYAMLR
460 470
NNLEALLQDL RVSPYDPIGL PMVP
Length:474
Mass (Da):52,881
Last modified:October 10, 2003 - v2
Checksum:i86B9B91050A7F0CC
GO
Isoform 2 (identifier: Q8IV63-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     407-412: FVDKPG → LPWDSF
     413-474: Missing.

Note: No experimental confirmation available.
Show »
Length:412
Mass (Da):45,904
Checksum:iB8EA8340E4FB9824
GO
Isoform 3 (identifier: Q8IV63-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     47-96: Missing.

Note: No experimental confirmation available.
Show »
Length:424
Mass (Da):47,501
Checksum:iD17A379F153ED44E
GO

Computationally mapped potential isoform sequencesi

There are 11 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
M0QYA8M0QYA8_HUMAN
Inactive serine/threonine-protein k...
VRK3
406Annotation score:
M0R025M0R025_HUMAN
Inactive serine/threonine-protein k...
VRK3
182Annotation score:
M0QXD7M0QXD7_HUMAN
Inactive serine/threonine-protein k...
VRK3
169Annotation score:
M0QZ79M0QZ79_HUMAN
Inactive serine/threonine-protein k...
VRK3
112Annotation score:
M0R073M0R073_HUMAN
Inactive serine/threonine-protein k...
VRK3
362Annotation score:
M0R3H2M0R3H2_HUMAN
Inactive serine/threonine-protein k...
VRK3
117Annotation score:
M0QYG0M0QYG0_HUMAN
Inactive serine/threonine-protein k...
VRK3
247Annotation score:
M0QXV1M0QXV1_HUMAN
Inactive serine/threonine-protein k...
VRK3
150Annotation score:
M0R200M0R200_HUMAN
Inactive serine/threonine-protein k...
VRK3
197Annotation score:
M0R164M0R164_HUMAN
Inactive serine/threonine-protein k...
VRK3
72Annotation score:
There is more potential isoformShow all

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti161K → E in AAP47180 (Ref. 2) Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_04129559S → F1 PublicationCorresponds to variant dbSNP:rs2033262Ensembl.1
Natural variantiVAR_041296105P → T1 PublicationCorresponds to variant dbSNP:rs11547882Ensembl.1
Natural variantiVAR_051682170S → P. Corresponds to variant dbSNP:rs11547881Ensembl.1
Natural variantiVAR_041297171F → L1 PublicationCorresponds to variant dbSNP:rs11547883Ensembl.1
Natural variantiVAR_051683188T → A. Corresponds to variant dbSNP:rs11879620Ensembl.1
Natural variantiVAR_041298268S → L1 PublicationCorresponds to variant dbSNP:rs10410075Ensembl.1
Natural variantiVAR_041299288C → Y1 PublicationCorresponds to variant dbSNP:rs10409482Ensembl.1
Natural variantiVAR_051684304H → L. Corresponds to variant dbSNP:rs35261919Ensembl.1
Natural variantiVAR_041300370R → C1 PublicationCorresponds to variant dbSNP:rs35331034Ensembl.1
Natural variantiVAR_041301371S → G1 PublicationCorresponds to variant dbSNP:rs56407496Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_04340947 – 96Missing in isoform 3. 1 PublicationAdd BLAST50
Alternative sequenceiVSP_008544407 – 412FVDKPG → LPWDSF in isoform 2. 1 Publication6
Alternative sequenceiVSP_008545413 – 474Missing in isoform 2. 1 PublicationAdd BLAST62

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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
CCDSiCCDS12791.1 [Q8IV63-1]
CCDS33076.1 [Q8IV63-3]
CCDS77334.1 [Q8IV63-2]
RefSeqiNP_001020949.1, NM_001025778.1 [Q8IV63-3]
NP_001295349.1, NM_001308420.1 [Q8IV63-2]
NP_057524.3, NM_016440.3 [Q8IV63-1]
XP_005259028.1, XM_005258971.3 [Q8IV63-1]
XP_005259029.1, XM_005258972.3 [Q8IV63-3]
XP_006723300.1, XM_006723237.3 [Q8IV63-1]
XP_006723301.1, XM_006723238.3 [Q8IV63-3]
XP_011525325.1, XM_011527023.2
UniGeneiHs.443330

Genome annotation databases

EnsembliENST00000316763; ENSP00000324636; ENSG00000105053 [Q8IV63-1]
ENST00000377011; ENSP00000366210; ENSG00000105053 [Q8IV63-3]
ENST00000594092; ENSP00000472541; ENSG00000105053 [Q8IV63-2]
ENST00000594948; ENSP00000473171; ENSG00000105053 [Q8IV63-1]
ENST00000599538; ENSP00000469880; ENSG00000105053 [Q8IV63-1]
ENST00000601341; ENSP00000470156; ENSG00000105053 [Q8IV63-3]
GeneIDi51231
KEGGihsa:51231
UCSCiuc002prg.3 human [Q8IV63-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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
CCDSiCCDS12791.1 [Q8IV63-1]
CCDS33076.1 [Q8IV63-3]
CCDS77334.1 [Q8IV63-2]
RefSeqiNP_001020949.1, NM_001025778.1 [Q8IV63-3]
NP_001295349.1, NM_001308420.1 [Q8IV63-2]
NP_057524.3, NM_016440.3 [Q8IV63-1]
XP_005259028.1, XM_005258971.3 [Q8IV63-1]
XP_005259029.1, XM_005258972.3 [Q8IV63-3]
XP_006723300.1, XM_006723237.3 [Q8IV63-1]
XP_006723301.1, XM_006723238.3 [Q8IV63-3]
XP_011525325.1, XM_011527023.2
UniGeneiHs.443330

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2JIIX-ray2.00A/B146-474[»]
ProteinModelPortaliQ8IV63
SMRiQ8IV63
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119394, 13 interactors
IntActiQ8IV63, 12 interactors
MINTiQ8IV63
STRINGi9606.ENSP00000324636

Chemistry databases

ChEMBLiCHEMBL3430761

PTM databases

iPTMnetiQ8IV63
PhosphoSitePlusiQ8IV63

Polymorphism and mutation databases

BioMutaiVRK3
DMDMi45593724

Proteomic databases

EPDiQ8IV63
MaxQBiQ8IV63
PaxDbiQ8IV63
PeptideAtlasiQ8IV63
PRIDEiQ8IV63
ProteomicsDBi70666
70667 [Q8IV63-2]
70668 [Q8IV63-3]
TopDownProteomicsiQ8IV63-1 [Q8IV63-1]

Protocols and materials databases

DNASUi51231
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000316763; ENSP00000324636; ENSG00000105053 [Q8IV63-1]
ENST00000377011; ENSP00000366210; ENSG00000105053 [Q8IV63-3]
ENST00000594092; ENSP00000472541; ENSG00000105053 [Q8IV63-2]
ENST00000594948; ENSP00000473171; ENSG00000105053 [Q8IV63-1]
ENST00000599538; ENSP00000469880; ENSG00000105053 [Q8IV63-1]
ENST00000601341; ENSP00000470156; ENSG00000105053 [Q8IV63-3]
GeneIDi51231
KEGGihsa:51231
UCSCiuc002prg.3 human [Q8IV63-1]

Organism-specific databases

CTDi51231
EuPathDBiHostDB:ENSG00000105053.10
GeneCardsiVRK3
HGNCiHGNC:18996 VRK3
HPAiHPA056489
neXtProtiNX_Q8IV63
OpenTargetsiENSG00000105053
PharmGKBiPA134923990
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1164 Eukaryota
ENOG410XPGP LUCA
GeneTreeiENSGT00930000150814
HOGENOMiHOG000293191
HOVERGENiHBG047756
InParanoidiQ8IV63
KOiK08816
OMAiFQMACRL
OrthoDBiEOG091G05V5
PhylomeDBiQ8IV63
TreeFamiTF106473

Enzyme and pathway databases

ReactomeiR-HSA-202670 ERKs are inactivated
SignaLinkiQ8IV63

Miscellaneous databases

ChiTaRSiVRK3 human
EvolutionaryTraceiQ8IV63
GenomeRNAii51231
PROiPR:Q8IV63

Gene expression databases

BgeeiENSG00000105053 Expressed in 220 organ(s), highest expression level in right testis
CleanExiHS_VRK3
ExpressionAtlasiQ8IV63 baseline and differential
GenevisibleiQ8IV63 HS

Family and domain databases

InterProiView protein in InterPro
IPR011009 Kinase-like_dom_sf
IPR000719 Prot_kinase_dom
IPR026870 Zinc_ribbon_dom
PfamiView protein in Pfam
PF00069 Pkinase, 1 hit
PF13240 zinc_ribbon_2, 1 hit
SMARTiView protein in SMART
SM00220 S_TKc, 1 hit
SUPFAMiSSF56112 SSF56112, 1 hit
PROSITEiView protein in PROSITE
PS50011 PROTEIN_KINASE_DOM, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiVRK3_HUMAN
AccessioniPrimary (citable) accession number: Q8IV63
Secondary accession number(s): A6NEG5
, A8KA53, Q502Y2, Q9P2V8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 10, 2003
Last sequence update: October 10, 2003
Last modified: November 7, 2018
This is version 154 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. Human chromosome 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. Human and mouse protein kinases
    Human and mouse protein kinases: classification and index
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