UniProtKB - Q9BRR0 (ZKSC3_HUMAN)
Zinc finger protein with KRAB and SCAN domains 3
ZKSCAN3
Functioni
Transcriptional factor that binds to the consensus sequence 5'-[GT][AG][AGT]GGGG-3' and acts as a repressor of autophagy. Specifically represses expression of genes involved in autophagy and lysosome biogenesis/function such as MAP1LC3B, ULK1 or WIPI2. Associates with chromatin at the ITGB4 and VEGF promoters. Also acts as a transcription activator and promotes cancer cell progression and/or migration in various tumors and myelomas.
4 PublicationsRegions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 314 – 336 | C2H2-type 1PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 342 – 364 | C2H2-type 2PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 370 – 392 | C2H2-type 3PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 398 – 420 | C2H2-type 4PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 426 – 448 | C2H2-type 5PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 480 – 502 | C2H2-type 6PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 508 – 530 | C2H2-type 7PROSITE-ProRule annotationAdd BLAST | 23 |
GO - Molecular functioni
- chromatin binding Source: UniProtKB
- DNA binding Source: UniProtKB
- DNA-binding transcription factor activity Source: UniProtKB
- DNA-binding transcription factor activity, RNA polymerase II-specific Source: GO_Central
- DNA-binding transcription repressor activity, RNA polymerase II-specific Source: NTNU_SB
- metal ion binding Source: UniProtKB-KW
- RNA polymerase II cis-regulatory region sequence-specific DNA binding Source: NTNU_SB
- sequence-specific DNA binding Source: UniProtKB
GO - Biological processi
- autophagy Source: UniProtKB-KW
- lysosome organization Source: UniProtKB
- negative regulation of autophagy Source: UniProtKB
- negative regulation of cellular senescence Source: UniProtKB
- negative regulation of transcription, DNA-templated Source: UniProtKB
- negative regulation of transcription by RNA polymerase II Source: NTNU_SB
- positive regulation of transcription, DNA-templated Source: UniProtKB
- regulation of transcription by RNA polymerase II Source: GO_Central
Keywordsi
Molecular function | DNA-binding, Repressor |
Biological process | Autophagy, Transcription, Transcription regulation |
Ligand | Metal-binding, Zinc |
Enzyme and pathway databases
PathwayCommonsi | Q9BRR0 |
Reactomei | R-HSA-212436, Generic Transcription Pathway |
SignaLinki | Q9BRR0 |
Names & Taxonomyi
Protein namesi | Recommended name: Zinc finger protein with KRAB and SCAN domains 3Alternative name(s): Zinc finger and SCAN domain-containing protein 13 Zinc finger protein 306 Zinc finger protein 309 Zinc finger protein 47 homolog Short name: Zf47 Short name: Zfp-47 |
Gene namesi | Name:ZKSCAN3 Synonyms:ZFP47, ZNF306, ZNF309, ZSCAN13 |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
HGNCi | HGNC:13853, ZKSCAN3 |
MIMi | 612791, gene |
neXtProti | NX_Q9BRR0 |
VEuPathDBi | HostDB:ENSG00000189298 |
Subcellular locationi
Nucleus
- nucleoplasm Source: HPA
- nucleus Source: UniProtKB
Other locations
- cytoplasm Source: UniProtKB
Keywords - Cellular componenti
Cytoplasm, NucleusPathology & Biotechi
Organism-specific databases
DisGeNETi | 80317 |
OpenTargetsi | ENSG00000189298 |
PharmGKBi | PA37821 |
Miscellaneous databases
Pharosi | Q9BRR0, Tbio |
Genetic variation databases
BioMutai | ZKSCAN3 |
DMDMi | 116242859 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000047524 | 1 – 538 | Zinc finger protein with KRAB and SCAN domains 3Add BLAST | 538 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 42 | PhosphoserineBy similarity | 1 | |
Cross-linki | 171 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Modified residuei | 207 | PhosphothreonineCombined sources | 1 | |
Modified residuei | 449 | PhosphothreonineCombined sources | 1 |
Keywords - PTMi
Isopeptide bond, Phosphoprotein, Ubl conjugationProteomic databases
EPDi | Q9BRR0 |
jPOSTi | Q9BRR0 |
MassIVEi | Q9BRR0 |
MaxQBi | Q9BRR0 |
PaxDbi | Q9BRR0 |
PeptideAtlasi | Q9BRR0 |
PRIDEi | Q9BRR0 |
ProteomicsDBi | 43426 78810 [Q9BRR0-1] |
PTM databases
iPTMneti | Q9BRR0 |
PhosphoSitePlusi | Q9BRR0 |
Expressioni
Inductioni
Gene expression databases
Bgeei | ENSG00000189298, Expressed in heart and 166 other tissues |
Genevisiblei | Q9BRR0, HS |
Organism-specific databases
HPAi | ENSG00000189298, Low tissue specificity |
Interactioni
Binary interactionsi
Q9BRR0
Protein-protein interaction databases
BioGRIDi | 123230, 25 interactors |
IntActi | Q9BRR0, 33 interactors |
STRINGi | 9606.ENSP00000366465 |
Miscellaneous databases
RNActi | Q9BRR0, protein |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 46 – 128 | SCAN boxPROSITE-ProRule annotationAdd BLAST | 83 | |
Domaini | 214 – 274 | KRABAdd BLAST | 61 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 226 – 274 | DisorderedSequence analysisAdd BLAST | 49 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 237 – 274 | Basic and acidic residuesSequence analysisAdd BLAST | 38 |
Sequence similaritiesi
Zinc finger
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 314 – 336 | C2H2-type 1PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 342 – 364 | C2H2-type 2PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 370 – 392 | C2H2-type 3PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 398 – 420 | C2H2-type 4PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 426 – 448 | C2H2-type 5PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 480 – 502 | C2H2-type 6PROSITE-ProRule annotationAdd BLAST | 23 | |
Zinc fingeri | 508 – 530 | C2H2-type 7PROSITE-ProRule annotationAdd BLAST | 23 |
Keywords - Domaini
Repeat, Zinc-fingerPhylogenomic databases
eggNOGi | KOG1721, Eukaryota |
GeneTreei | ENSGT00940000163682 |
HOGENOMi | CLU_002678_49_4_1 |
InParanoidi | Q9BRR0 |
OMAi | QSAEDQM |
OrthoDBi | 1318335at2759 |
PhylomeDBi | Q9BRR0 |
TreeFami | TF350830 |
Family and domain databases
CDDi | cd07765, KRAB_A-box, 1 hit cd07936, SCAN, 1 hit |
Gene3Di | 1.10.4020.10, 1 hit |
InterProi | View protein in InterPro IPR001909, KRAB IPR036051, KRAB_dom_sf IPR003309, SCAN_dom IPR038269, SCAN_sf IPR036236, Znf_C2H2_sf IPR013087, Znf_C2H2_type |
Pfami | View protein in Pfam PF01352, KRAB, 1 hit PF02023, SCAN, 1 hit PF00096, zf-C2H2, 7 hits |
SMARTi | View protein in SMART SM00349, KRAB, 1 hit SM00431, SCAN, 1 hit SM00355, ZnF_C2H2, 7 hits |
SUPFAMi | SSF109640, SSF109640, 1 hit SSF57667, SSF57667, 4 hits |
PROSITEi | View protein in PROSITE PS50804, SCAN_BOX, 1 hit PS00028, ZINC_FINGER_C2H2_1, 7 hits PS50157, ZINC_FINGER_C2H2_2, 7 hits |
s (2)i Sequence
Sequence statusi: Complete.
This entry describes 2 produced by isoformsialternative splicing. AlignAdd to basketThis isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MARELSESTA LDAQSTEDQM ELLVIKVEEE EAGFPSSPDL GSEGSRERFR
60 70 80 90 100
GFRYPEAAGP REALSRLREL CRQWLQPEMH SKEQILELLV LEQFLTILPG
110 120 130 140 150
NLQSWVREQH PESGEEVVVL LEYLERQLDE PAPQVSGVDQ GQELLCCKMA
160 170 180 190 200
LLTPAPGSQS SQFQLMKALL KHESVGSQPL QDRVLQVPVL AHGGCCREDK
210 220 230 240 250
VVASRLTPES QGLLKVEDVA LTLTPEWTQQ DSSQGNLCRD EKQENHGSLV
260 270 280 290 300
SLGDEKQTKS RDLPPAEELP EKEHGKISCH LREDIAQIPT CAEAGEQEGR
310 320 330 340 350
LQRKQKNATG GRRHICHECG KSFAQSSGLS KHRRIHTGEK PYECEECGKA
360 370 380 390 400
FIGSSALVIH QRVHTGEKPY ECEECGKAFS HSSDLIKHQR THTGEKPYEC
410 420 430 440 450
DDCGKTFSQS CSLLEHHRIH TGEKPYQCSM CGKAFRRSSH LLRHQRIHTG
460 470 480 490 500
DKNVQEPEQG EAWKSRMESQ LENVETPMSY KCNECERSFT QNTGLIEHQK
510 520 530
IHTGEKPYQC NACGKGFTRI SYLVQHQRSH VGKNILSQ
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 206 – 207 | LT → IP in AAB16813 (PubMed:10520746).Curated | 2 | |
Sequence conflicti | 348 – 350 | GKA → AKP in AAB16813 (PubMed:10520746).Curated | 3 | |
Sequence conflicti | 437 | R → D in AAB16813 (PubMed:10520746).Curated | 1 | |
Sequence conflicti | 459 – 479 | QGEAW…ETPMS → TGRGWKVGWKASWKMLKLPC P in AAB16813 (PubMed:10520746).CuratedAdd BLAST | 21 |
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_024208 | 3 | R → T. Corresponds to variant dbSNP:rs733743Ensembl. | 1 | |
Natural variantiVAR_028313 | 33 | G → V. Corresponds to variant dbSNP:rs3857554Ensembl. | 1 | |
Natural variantiVAR_028314 | 34 | F → L. Corresponds to variant dbSNP:rs3857555Ensembl. | 1 | |
Natural variantiVAR_028315 | 189 | V → M1 PublicationCorresponds to variant dbSNP:rs17856167Ensembl. | 1 | |
Natural variantiVAR_059950 | 200 | K → A Requires 2 nucleotide substitutions. 3 PublicationsCorresponds to variant dbSNP:rs371085669Ensembl. | 1 | |
Natural variantiVAR_028316 | 200 | K → E1 PublicationCorresponds to variant dbSNP:rs13201752Ensembl. | 1 | |
Natural variantiVAR_028317 | 200 | K → T. Corresponds to variant dbSNP:rs13201753Ensembl. | 1 | |
Natural variantiVAR_028318 | 246 | H → Q. Corresponds to variant dbSNP:rs213227Ensembl. | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_045908 | 1 – 148 | Missing in isoform 2. 1 PublicationAdd BLAST | 148 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | BT007427 mRNA Translation: AAP36095.1 AK122790 mRNA Translation: BAG53732.1 AK313532 mRNA Translation: BAG36309.1 AL358785 Genomic DNA No translation available. AL021997 Genomic DNA No translation available. CH471081 Genomic DNA Translation: EAX03157.1 BC006118 mRNA Translation: AAH06118.1 U71601 mRNA Translation: AAB16813.1 |
CCDSi | CCDS4650.1 [Q9BRR0-1] CCDS56408.1 [Q9BRR0-2] |
RefSeqi | NP_001229823.1, NM_001242894.1 [Q9BRR0-1] NP_001229824.1, NM_001242895.1 [Q9BRR0-2] NP_077819.2, NM_024493.3 [Q9BRR0-1] XP_006715278.1, XM_006715215.2 [Q9BRR0-1] XP_006715281.1, XM_006715218.3 [Q9BRR0-2] |
Genome annotation databases
Ensembli | ENST00000252211.7; ENSP00000252211.2; ENSG00000189298.14 ENST00000341464.9; ENSP00000341883.5; ENSG00000189298.14 [Q9BRR0-2] ENST00000377255.3; ENSP00000366465.1; ENSG00000189298.14 |
GeneIDi | 80317 |
KEGGi | hsa:80317 |
MANE-Selecti | ENST00000252211.7; ENSP00000252211.2; NM_024493.4; NP_077819.2 |
UCSCi | uc003nle.4, human [Q9BRR0-1] |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | BT007427 mRNA Translation: AAP36095.1 AK122790 mRNA Translation: BAG53732.1 AK313532 mRNA Translation: BAG36309.1 AL358785 Genomic DNA No translation available. AL021997 Genomic DNA No translation available. CH471081 Genomic DNA Translation: EAX03157.1 BC006118 mRNA Translation: AAH06118.1 U71601 mRNA Translation: AAB16813.1 |
CCDSi | CCDS4650.1 [Q9BRR0-1] CCDS56408.1 [Q9BRR0-2] |
RefSeqi | NP_001229823.1, NM_001242894.1 [Q9BRR0-1] NP_001229824.1, NM_001242895.1 [Q9BRR0-2] NP_077819.2, NM_024493.3 [Q9BRR0-1] XP_006715278.1, XM_006715215.2 [Q9BRR0-1] XP_006715281.1, XM_006715218.3 [Q9BRR0-2] |
3D structure databases
AlphaFoldDBi | Q9BRR0 |
SMRi | Q9BRR0 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 123230, 25 interactors |
IntActi | Q9BRR0, 33 interactors |
STRINGi | 9606.ENSP00000366465 |
PTM databases
iPTMneti | Q9BRR0 |
PhosphoSitePlusi | Q9BRR0 |
Genetic variation databases
BioMutai | ZKSCAN3 |
DMDMi | 116242859 |
Proteomic databases
EPDi | Q9BRR0 |
jPOSTi | Q9BRR0 |
MassIVEi | Q9BRR0 |
MaxQBi | Q9BRR0 |
PaxDbi | Q9BRR0 |
PeptideAtlasi | Q9BRR0 |
PRIDEi | Q9BRR0 |
ProteomicsDBi | 43426 78810 [Q9BRR0-1] |
Protocols and materials databases
Antibodypediai | 11260, 167 antibodies from 27 providers |
DNASUi | 80317 |
Genome annotation databases
Ensembli | ENST00000252211.7; ENSP00000252211.2; ENSG00000189298.14 ENST00000341464.9; ENSP00000341883.5; ENSG00000189298.14 [Q9BRR0-2] ENST00000377255.3; ENSP00000366465.1; ENSG00000189298.14 |
GeneIDi | 80317 |
KEGGi | hsa:80317 |
MANE-Selecti | ENST00000252211.7; ENSP00000252211.2; NM_024493.4; NP_077819.2 |
UCSCi | uc003nle.4, human [Q9BRR0-1] |
Organism-specific databases
CTDi | 80317 |
DisGeNETi | 80317 |
GeneCardsi | ZKSCAN3 |
HGNCi | HGNC:13853, ZKSCAN3 |
HPAi | ENSG00000189298, Low tissue specificity |
MIMi | 612791, gene |
neXtProti | NX_Q9BRR0 |
OpenTargetsi | ENSG00000189298 |
PharmGKBi | PA37821 |
VEuPathDBi | HostDB:ENSG00000189298 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG1721, Eukaryota |
GeneTreei | ENSGT00940000163682 |
HOGENOMi | CLU_002678_49_4_1 |
InParanoidi | Q9BRR0 |
OMAi | QSAEDQM |
OrthoDBi | 1318335at2759 |
PhylomeDBi | Q9BRR0 |
TreeFami | TF350830 |
Enzyme and pathway databases
PathwayCommonsi | Q9BRR0 |
Reactomei | R-HSA-212436, Generic Transcription Pathway |
SignaLinki | Q9BRR0 |
Miscellaneous databases
BioGRID-ORCSi | 80317, 12 hits in 1100 CRISPR screens |
ChiTaRSi | ZKSCAN3, human |
GenomeRNAii | 80317 |
Pharosi | Q9BRR0, Tbio |
PROi | PR:Q9BRR0 |
RNActi | Q9BRR0, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000189298, Expressed in heart and 166 other tissues |
Genevisiblei | Q9BRR0, HS |
Family and domain databases
CDDi | cd07765, KRAB_A-box, 1 hit cd07936, SCAN, 1 hit |
Gene3Di | 1.10.4020.10, 1 hit |
InterProi | View protein in InterPro IPR001909, KRAB IPR036051, KRAB_dom_sf IPR003309, SCAN_dom IPR038269, SCAN_sf IPR036236, Znf_C2H2_sf IPR013087, Znf_C2H2_type |
Pfami | View protein in Pfam PF01352, KRAB, 1 hit PF02023, SCAN, 1 hit PF00096, zf-C2H2, 7 hits |
SMARTi | View protein in SMART SM00349, KRAB, 1 hit SM00431, SCAN, 1 hit SM00355, ZnF_C2H2, 7 hits |
SUPFAMi | SSF109640, SSF109640, 1 hit SSF57667, SSF57667, 4 hits |
PROSITEi | View protein in PROSITE PS50804, SCAN_BOX, 1 hit PS00028, ZINC_FINGER_C2H2_1, 7 hits PS50157, ZINC_FINGER_C2H2_2, 7 hits |
MobiDBi | Search... |
Entry informationi
Entry namei | ZKSC3_HUMAN | |
Accessioni | Q9BRR0Primary (citable) accession number: Q9BRR0 Secondary accession number(s): B2R8W2 Q9H4T3 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | September 19, 2002 |
Last sequence update: | October 17, 2006 | |
Last modified: | May 25, 2022 | |
This is version 184 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | 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. |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- Human chromosome 6
Human chromosome 6: entries, gene names and cross-references to MIM - Human entries with genetic variants
List of human entries with genetic variants - Human variants curated from literature reports
Index of human variants curated from literature reports - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - SIMILARITY comments
Index of protein domains and families