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Protein

Cyclin-dependent kinase 4 inhibitor D

Gene

CDKN2D

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Interacts strongly with CDK4 and CDK6 and inhibits them.2 Publications

GO - Molecular functioni

  1. cyclin-dependent protein serine/threonine kinase inhibitor activity Source: BHF-UCL
  2. protein kinase binding Source: BHF-UCL

GO - Biological processi

  1. autophagic cell death Source: BHF-UCL
  2. cell cycle arrest Source: BHF-UCL
  3. DNA synthesis involved in DNA repair Source: BHF-UCL
  4. G1/S transition of mitotic cell cycle Source: BHF-UCL
  5. mitotic cell cycle Source: Reactome
  6. negative regulation of cell growth Source: BHF-UCL
  7. negative regulation of cell proliferation Source: BHF-UCL
  8. negative regulation of cysteine-type endopeptidase activity involved in apoptotic process Source: BHF-UCL
  9. negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage Source: BHF-UCL
  10. negative regulation of phosphorylation Source: BHF-UCL
  11. negative regulation of protein serine/threonine kinase activity Source: GOC
  12. regulation of cyclin-dependent protein serine/threonine kinase activity Source: BHF-UCL
  13. response to retinoic acid Source: BHF-UCL
  14. response to UV Source: BHF-UCL
  15. response to vitamin D Source: BHF-UCL
  16. sensory perception of sound Source: Ensembl
Complete GO annotation...

Keywords - Biological processi

Cell cycle

Enzyme and pathway databases

ReactomeiREACT_169168. Senescence-Associated Secretory Phenotype (SASP).
REACT_169325. Oncogene Induced Senescence.
REACT_169436. Oxidative Stress Induced Senescence.
REACT_821. Cyclin D associated events in G1.

Names & Taxonomyi

Protein namesi
Recommended name:
Cyclin-dependent kinase 4 inhibitor D
Alternative name(s):
p19-INK4d
Gene namesi
Name:CDKN2D
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:1790. CDKN2D.

Subcellular locationi

Nucleus 1 Publication. Cytoplasm 1 Publication

GO - Cellular componenti

  1. cytoplasm Source: BHF-UCL
  2. cytosol Source: Reactome
  3. nucleus Source: BHF-UCL
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Keywords - Diseasei

Tumor suppressor

Organism-specific databases

Orphaneti618. Familial melanoma.
PharmGKBiPA26323.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 166166Cyclin-dependent kinase 4 inhibitor DPRO_0000144188Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-acetylmethionine1 Publication

Keywords - PTMi

Acetylation

Proteomic databases

MaxQBiP55273.
PaxDbiP55273.
PRIDEiP55273.

PTM databases

PhosphoSiteiP55273.

Expressioni

Gene expression databases

BgeeiP55273.
CleanExiHS_CDKN2D.
ExpressionAtlasiP55273. baseline and differential.
GenevestigatoriP55273.

Organism-specific databases

HPAiCAB011201.

Interactioni

Subunit structurei

Interacts with CDK6.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
CDK6Q005342EBI-745859,EBI-295663

Protein-protein interaction databases

BioGridi107466. 12 interactions.
DIPiDIP-6109N.
IntActiP55273. 5 interactions.
MINTiMINT-1475963.
STRINGi9606.ENSP00000337056.

Structurei

Secondary structure

1
166
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi8 – 1811Combined sources
Helixi21 – 299Combined sources
Helixi45 – 484Combined sources
Helixi54 – 629Combined sources
Helixi77 – 837Combined sources
Helixi87 – 959Combined sources
Helixi110 – 1178Combined sources
Helixi120 – 1278Combined sources
Helixi142 – 1487Combined sources
Helixi152 – 1598Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1BD8X-ray1.80A7-162[»]
1BI8X-ray2.80B/D1-166[»]
ProteinModelPortaliP55273.
SMRiP55273. Positions 7-162.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP55273.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati41 – 6929ANK 1Add
BLAST
Repeati73 – 10230ANK 2Add
BLAST
Repeati106 – 13530ANK 3Add
BLAST
Repeati138 – 16629ANK 4Add
BLAST

Sequence similaritiesi

Contains 4 ANK repeats.PROSITE-ProRule annotation

Keywords - Domaini

ANK repeat, Repeat

Phylogenomic databases

eggNOGiCOG0666.
GeneTreeiENSGT00390000004527.
HOGENOMiHOG000290191.
HOVERGENiHBG050870.
InParanoidiP55273.
KOiK06623.
OMAiVMMFGSS.
OrthoDBiEOG7TTQ94.
PhylomeDBiP55273.
TreeFamiTF333311.

Family and domain databases

Gene3Di1.25.40.20. 1 hit.
InterProiIPR002110. Ankyrin_rpt.
IPR020683. Ankyrin_rpt-contain_dom.
[Graphical view]
PfamiPF00023. Ank. 2 hits.
PF12796. Ank_2. 1 hit.
[Graphical view]
SMARTiSM00248. ANK. 4 hits.
[Graphical view]
SUPFAMiSSF48403. SSF48403. 1 hit.
PROSITEiPS50297. ANK_REP_REGION. 1 hit.
PS50088. ANK_REPEAT. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P55273-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLLEEVRAGD RLSGAAARGD VQEVRRLLHR ELVHPDALNR FGKTALQVMM
60 70 80 90 100
FGSTAIALEL LKQGASPNVQ DTSGTSPVHD AARTGFLDTL KVLVEHGADV
110 120 130 140 150
NVPDGTGALP IHLAVQEGHT AVVSFLAAES DLHRRDARGL TPLELALQRG
160
AQDLVDILQG HMVAPL
Length:166
Mass (Da):17,700
Last modified:October 1, 1996 - v1
Checksum:i2FACD11CF56340DC
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti159 – 1591Q → P in AAA85436 (PubMed:7739548).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U49399 mRNA. Translation: AAB03772.1.
U20498 mRNA. Translation: AAA85436.1.
U40343 mRNA. Translation: AAB18139.1.
AF061327 Genomic DNA. Translation: AAC27450.1.
CR542158 mRNA. Translation: CAG46955.1.
AF518878 Genomic DNA. Translation: AAM54045.1.
BC001822 mRNA. Translation: AAH01822.1.
AF044171 Genomic DNA. Translation: AAD02320.1.
CCDSiCCDS12244.1.
PIRiA57378.
RefSeqiNP_001791.1. NM_001800.3.
NP_524145.1. NM_079421.2.
UniGeneiHs.435051.

Genome annotation databases

EnsembliENST00000335766; ENSP00000337056; ENSG00000129355.
ENST00000393599; ENSP00000377224; ENSG00000129355.
GeneIDi1032.
KEGGihsa:1032.
UCSCiuc002mpa.3. human.

Polymorphism databases

DMDMi1705730.

Cross-referencesi

Web resourcesi

NIEHS-SNPs

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U49399 mRNA. Translation: AAB03772.1.
U20498 mRNA. Translation: AAA85436.1.
U40343 mRNA. Translation: AAB18139.1.
AF061327 Genomic DNA. Translation: AAC27450.1.
CR542158 mRNA. Translation: CAG46955.1.
AF518878 Genomic DNA. Translation: AAM54045.1.
BC001822 mRNA. Translation: AAH01822.1.
AF044171 Genomic DNA. Translation: AAD02320.1.
CCDSiCCDS12244.1.
PIRiA57378.
RefSeqiNP_001791.1. NM_001800.3.
NP_524145.1. NM_079421.2.
UniGeneiHs.435051.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1BD8X-ray1.80A7-162[»]
1BI8X-ray2.80B/D1-166[»]
ProteinModelPortaliP55273.
SMRiP55273. Positions 7-162.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi107466. 12 interactions.
DIPiDIP-6109N.
IntActiP55273. 5 interactions.
MINTiMINT-1475963.
STRINGi9606.ENSP00000337056.

PTM databases

PhosphoSiteiP55273.

Polymorphism databases

DMDMi1705730.

Proteomic databases

MaxQBiP55273.
PaxDbiP55273.
PRIDEiP55273.

Protocols and materials databases

DNASUi1032.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000335766; ENSP00000337056; ENSG00000129355.
ENST00000393599; ENSP00000377224; ENSG00000129355.
GeneIDi1032.
KEGGihsa:1032.
UCSCiuc002mpa.3. human.

Organism-specific databases

CTDi1032.
GeneCardsiGC19M010677.
HGNCiHGNC:1790. CDKN2D.
HPAiCAB011201.
MIMi600927. gene.
neXtProtiNX_P55273.
Orphaneti618. Familial melanoma.
PharmGKBiPA26323.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiCOG0666.
GeneTreeiENSGT00390000004527.
HOGENOMiHOG000290191.
HOVERGENiHBG050870.
InParanoidiP55273.
KOiK06623.
OMAiVMMFGSS.
OrthoDBiEOG7TTQ94.
PhylomeDBiP55273.
TreeFamiTF333311.

Enzyme and pathway databases

ReactomeiREACT_169168. Senescence-Associated Secretory Phenotype (SASP).
REACT_169325. Oncogene Induced Senescence.
REACT_169436. Oxidative Stress Induced Senescence.
REACT_821. Cyclin D associated events in G1.

Miscellaneous databases

EvolutionaryTraceiP55273.
GeneWikiiCDKN2D.
GenomeRNAii1032.
NextBioi4343.
PROiP55273.
SOURCEiSearch...

Gene expression databases

BgeeiP55273.
CleanExiHS_CDKN2D.
ExpressionAtlasiP55273. baseline and differential.
GenevestigatoriP55273.

Family and domain databases

Gene3Di1.25.40.20. 1 hit.
InterProiIPR002110. Ankyrin_rpt.
IPR020683. Ankyrin_rpt-contain_dom.
[Graphical view]
PfamiPF00023. Ank. 2 hits.
PF12796. Ank_2. 1 hit.
[Graphical view]
SMARTiSM00248. ANK. 4 hits.
[Graphical view]
SUPFAMiSSF48403. SSF48403. 1 hit.
PROSITEiPS50297. ANK_REP_REGION. 1 hit.
PS50088. ANK_REPEAT. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Molecular cloning, expression pattern, and chromosomal localization of human CDKN2D/INK4d, an inhibitor of cyclin D-dependent kinases."
    Okuda T., Hirai H., Valentine V.A., Shurtleff S.A., Kidd V.J., Lahti J.M., Sherr C.J., Downing J.R.
    Genomics 29:623-630(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Bone marrow.
  2. "Identification of human and mouse p19, a novel CDK4 and CDK6 inhibitor with homology to p16ink4."
    Chan F.K.M., Zhang J., Cheng L., Shapiro D.N., Winoto A.
    Mol. Cell. Biol. 15:2682-2688(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION.
    Tissue: Thymus.
  3. "Isolation and characterization of p19INK4d, a p16-related inhibitor specific to CDK6 and CDK4."
    Guan K.L., Jenkins C.W., Li Y., O'Keefe C.L., Noh S., Wu X., Zariwala M., Matera A.G., Xiong Y.
    Mol. Biol. Cell 7:57-70(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION.
  4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  5. "Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
    Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
    Submitted (MAY-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  6. NIEHS SNPs program
    Submitted (MAY-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  7. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Muscle.
  8. Murthy S.K., Demetrick D.J.
    Submitted (DEC-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-30.
  9. "Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptides."
    Gevaert K., Goethals M., Martens L., Van Damme J., Staes A., Thomas G.R., Vandekerckhove J.
    Nat. Biotechnol. 21:566-569(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 1-7, ACETYLATION AT MET-1.
    Tissue: Platelet.
  10. "Active cdk6 complexes are predominantly nuclear and represent only a minority of the cdk6 in T cells."
    Mahony D., Parry D.A., Lees E.
    Oncogene 16:603-611(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, INTERACTION WITH CDK6.
  11. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  12. "Structural basis for inhibition of the cyclin-dependent kinase Cdk6 by the tumour suppressor p16INK4a."
    Russo A.A., Tong L., Lee J.O., Jeffrey P.D., Pavletich N.P.
    Nature 395:237-243(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) OF COMPLEX WITH CDK6.
  13. "Structure of human cyclin-dependent kinase inhibitor p19(INK4d): comparison to known ankyrin-repeat-containing structures and implications for the dysfunction of tumor suppressor p16(INK4a)."
    Baumgartner R., Fernandez-Catalan C., Winoto A., Huber R., Engh R.A., Holak T.A.
    Structure 6:1279-1290(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS).

Entry informationi

Entry nameiCDN2D_HUMAN
AccessioniPrimary (citable) accession number: P55273
Secondary accession number(s): Q13102, Q6FGE9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: February 4, 2015
This is version 138 of the entry and version 1 of the sequence. [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, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.