UniProtKB - Q9UPT8 (ZC3H4_HUMAN)
Zinc finger CCCH domain-containing protein 4
ZC3H4
Functioni
RNA-binding protein that suppresses transcription of long non-coding RNAs (lncRNAs) (PubMed:33913806, PubMed:33767452).
LncRNAs are defined as transcripts more than 200 nucleotides that are not translated into protein (PubMed:33913806, PubMed:33767452).
Together with WDR82, part of a transcription termination checkpoint that promotes transcription termination of lncRNAs and their subsequent degradation by the exosome (PubMed:33913806, PubMed:33767452).
The transcription termination checkpoint is activated by the inefficiently spliced first exon of lncRNAs (PubMed:33767452).
2 PublicationsRegions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 390 – 417 | C3H1-type 1PROSITE-ProRule annotationAdd BLAST | 28 | |
Zinc fingeri | 419 – 446 | C3H1-type 2PROSITE-ProRule annotationAdd BLAST | 28 | |
Zinc fingeri | 447 – 470 | C3H1-type 3PROSITE-ProRule annotationAdd BLAST | 24 |
GO - Molecular functioni
- metal ion binding Source: UniProtKB-KW
- RNA binding Source: UniProtKB
GO - Biological processi
- negative regulation of transcription, DNA-templated Source: InterPro
Keywordsi
Molecular function | RNA-binding |
Biological process | Transcription, Transcription regulation, Transcription termination |
Ligand | Metal-binding, Zinc |
Enzyme and pathway databases
PathwayCommonsi | Q9UPT8 |
SignaLinki | Q9UPT8 |
Names & Taxonomyi
Protein namesi | Recommended name: Zinc finger CCCH domain-containing protein 4Curated |
Gene namesi | |
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:17808, ZC3H4 |
MIMi | 619498, gene |
neXtProti | NX_Q9UPT8 |
VEuPathDBi | HostDB:ENSG00000130749 |
Subcellular locationi
Other locations
- Chromosome 1 Publication
Note: Recruited at sites of high RNA polymerase II occupancy.1 Publication
Cytosol
- cytosol Source: HPA
Nucleus
- nucleoplasm Source: HPA
- nucleus Source: GO_Central
Keywords - Cellular componenti
ChromosomePathology & Biotechi
Organism-specific databases
DisGeNETi | 23211 |
OpenTargetsi | ENSG00000130749 |
PharmGKBi | PA162409534 |
Miscellaneous databases
Pharosi | Q9UPT8, Tbio |
Genetic variation databases
BioMutai | ZC3H4 |
DMDMi | 94707996 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000234068 | 1 – 1303 | Zinc finger CCCH domain-containing protein 4Add BLAST | 1303 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 72 | PhosphothreonineCombined sources | 1 | |
Modified residuei | 75 | PhosphothreonineCombined sources | 1 | |
Modified residuei | 76 | PhosphoserineCombined sources | 1 | |
Modified residuei | 92 | PhosphoserineCombined sources | 1 | |
Modified residuei | 94 | PhosphoserineCombined sources | 1 | |
Modified residuei | 155 | PhosphotyrosineCombined sources | 1 | |
Modified residuei | 601 | Asymmetric dimethylarginineBy similarity | 1 | |
Modified residuei | 807 | PhosphoserineCombined sources | 1 | |
Modified residuei | 808 | PhosphoserineCombined sources | 1 | |
Modified residuei | 904 | PhosphoserineCombined sources | 1 | |
Modified residuei | 907 | PhosphoserineCombined sources | 1 | |
Modified residuei | 908 | PhosphoserineCombined sources | 1 | |
Modified residuei | 1104 | PhosphoserineCombined sources | 1 | |
Modified residuei | 1106 | PhosphothreonineCombined sources | 1 | |
Modified residuei | 1108 | PhosphoserineCombined sources | 1 | |
Modified residuei | 1110 | PhosphoserineCombined sources | 1 | |
Modified residuei | 1114 | PhosphoserineCombined sources | 1 | |
Modified residuei | 1118 | PhosphothreonineBy similarity | 1 | |
Modified residuei | 1269 | PhosphoserineCombined sources | 1 | |
Modified residuei | 1275 | PhosphoserineCombined sources | 1 |
Keywords - PTMi
Methylation, PhosphoproteinProteomic databases
EPDi | Q9UPT8 |
jPOSTi | Q9UPT8 |
MassIVEi | Q9UPT8 |
MaxQBi | Q9UPT8 |
PaxDbi | Q9UPT8 |
PeptideAtlasi | Q9UPT8 |
PRIDEi | Q9UPT8 |
ProteomicsDBi | 85442 |
PTM databases
GlyGeni | Q9UPT8, 5 sites, 2 O-linked glycans (5 sites) |
iPTMneti | Q9UPT8 |
PhosphoSitePlusi | Q9UPT8 |
SwissPalmi | Q9UPT8 |
Expressioni
Gene expression databases
Bgeei | ENSG00000130749, Expressed in forebrain and 249 other tissues |
ExpressionAtlasi | Q9UPT8, baseline and differential |
Genevisiblei | Q9UPT8, HS |
Organism-specific databases
HPAi | ENSG00000130749, Low tissue specificity |
Interactioni
Subunit structurei
Interacts with WDR82.
1 PublicationProtein-protein interaction databases
BioGRIDi | 116818, 114 interactors |
IntActi | Q9UPT8, 26 interactors |
MINTi | Q9UPT8 |
STRINGi | 9606.ENSP00000253048 |
Miscellaneous databases
RNActi | Q9UPT8, protein |
Structurei
Secondary structure
3D structure databases
AlphaFoldDBi | Q9UPT8 |
SMRi | Q9UPT8 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | Q9UPT8 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 1 – 388 | DisorderedSequence analysisAdd BLAST | 388 | |
Regioni | 486 – 571 | DisorderedSequence analysisAdd BLAST | 86 | |
Regioni | 605 – 685 | DisorderedSequence analysisAdd BLAST | 81 | |
Regioni | 710 – 955 | DisorderedSequence analysisAdd BLAST | 246 | |
Regioni | 996 – 1288 | DisorderedSequence analysisAdd BLAST | 293 |
Coiled coil
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Coiled coili | 95 – 128 | Sequence analysisAdd BLAST | 34 | |
Coiled coili | 767 – 800 | Sequence analysisAdd BLAST | 34 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 1 – 37 | Pro residuesSequence analysisAdd BLAST | 37 | |
Compositional biasi | 40 – 54 | Basic and acidic residuesSequence analysisAdd BLAST | 15 | |
Compositional biasi | 55 – 73 | Acidic residuesSequence analysisAdd BLAST | 19 | |
Compositional biasi | 74 – 100 | Basic and acidic residuesSequence analysisAdd BLAST | 27 | |
Compositional biasi | 101 – 128 | Basic residuesSequence analysisAdd BLAST | 28 | |
Compositional biasi | 143 – 159 | Basic and acidic residuesSequence analysisAdd BLAST | 17 | |
Compositional biasi | 198 – 216 | Acidic residuesSequence analysisAdd BLAST | 19 | |
Compositional biasi | 217 – 239 | Basic and acidic residuesSequence analysisAdd BLAST | 23 | |
Compositional biasi | 279 – 303 | Acidic residuesSequence analysisAdd BLAST | 25 | |
Compositional biasi | 304 – 325 | Basic and acidic residuesSequence analysisAdd BLAST | 22 | |
Compositional biasi | 326 – 342 | Basic residuesSequence analysisAdd BLAST | 17 | |
Compositional biasi | 372 – 388 | Basic and acidic residuesSequence analysisAdd BLAST | 17 | |
Compositional biasi | 486 – 502 | Basic and acidic residuesSequence analysisAdd BLAST | 17 | |
Compositional biasi | 505 – 562 | Pro residuesSequence analysisAdd BLAST | 58 | |
Compositional biasi | 605 – 628 | Pro residuesSequence analysisAdd BLAST | 24 | |
Compositional biasi | 632 – 648 | Basic and acidic residuesSequence analysisAdd BLAST | 17 | |
Compositional biasi | 656 – 685 | Pro residuesSequence analysisAdd BLAST | 30 | |
Compositional biasi | 713 – 738 | Basic and acidic residuesSequence analysisAdd BLAST | 26 | |
Compositional biasi | 774 – 802 | Basic and acidic residuesSequence analysisAdd BLAST | 29 | |
Compositional biasi | 808 – 837 | Polar residuesSequence analysisAdd BLAST | 30 | |
Compositional biasi | 901 – 920 | Polar residuesSequence analysisAdd BLAST | 20 | |
Compositional biasi | 922 – 936 | Basic and acidic residuesSequence analysisAdd BLAST | 15 | |
Compositional biasi | 1024 – 1041 | Polar residuesSequence analysisAdd BLAST | 18 | |
Compositional biasi | 1051 – 1065 | Polar residuesSequence analysisAdd BLAST | 15 | |
Compositional biasi | 1235 – 1249 | Pro residuesSequence analysisAdd BLAST | 15 | |
Compositional biasi | 1255 – 1272 | Polar residuesSequence analysisAdd BLAST | 18 |
Sequence similaritiesi
Zinc finger
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 390 – 417 | C3H1-type 1PROSITE-ProRule annotationAdd BLAST | 28 | |
Zinc fingeri | 419 – 446 | C3H1-type 2PROSITE-ProRule annotationAdd BLAST | 28 | |
Zinc fingeri | 447 – 470 | C3H1-type 3PROSITE-ProRule annotationAdd BLAST | 24 |
Keywords - Domaini
Coiled coil, Repeat, Zinc-fingerPhylogenomic databases
eggNOGi | KOG1040, Eukaryota |
GeneTreei | ENSGT00940000160011 |
InParanoidi | Q9UPT8 |
OMAi | MFSHEEL |
OrthoDBi | 145192at2759 |
PhylomeDBi | Q9UPT8 |
TreeFami | TF321641 |
Family and domain databases
InterProi | View protein in InterPro IPR045124, Su(sable)-like IPR041367, Znf-CCCH_4 IPR000571, Znf_CCCH IPR036855, Znf_CCCH_sf |
PANTHERi | PTHR13119, PTHR13119, 1 hit |
Pfami | View protein in Pfam PF00642, zf-CCCH, 1 hit PF18044, zf-CCCH_4, 1 hit |
SMARTi | View protein in SMART SM00356, ZnF_C3H1, 3 hits |
SUPFAMi | SSF90229, SSF90229, 3 hits |
PROSITEi | View protein in PROSITE PS50103, ZF_C3H1, 3 hits |
(1+)i Sequence
Sequence statusi: Complete.
This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All
10 20 30 40 50
MEAAPGTPPP PPSESPPPPS PPPPSTPSPP PCSPDARPAT PHLLHHRLPL
60 70 80 90 100
PDDREDGELE EGELEDDGAE ETQDTSGGPE RSRKEKGEKH HSDSDEEKSH
110 120 130 140 150
RRLKRKRKKE REKEKRRSKK RRKSKHKRHA SSSDDFSDFS DDSDFSPSEK
160 170 180 190 200
GHRKYREYSP PYAPSHQQYP PSHATPLPKK AYSKMDSKSY GMYEDYENEQ
210 220 230 240 250
YGEYEGDEEE DMGKEDYDDF TKELNQYRRA KEGSSRGRGS RGRGRGYRGR
260 270 280 290 300
GSRGGSRGRG MGRGSRGRGR GSMGGDHPED EEDFYEEEMD YGESEEPMGD
310 320 330 340 350
DDYDEYSKEL NQYRRSKDSR GRGLSRGRGR GSRGRGKGMG RGRGRGGSRG
360 370 380 390 400
GMNKGGMNDD EDFYDEDMGD GGGGSYRSRD HDKPHQQSDK KGKVICKYFV
410 420 430 440 450
EGRCTWGDHC NFSHDIELPK KRELCKFYIT GFCARAENCP YMHGDFPCKL
460 470 480 490 500
YHTTGNCING DDCMFSHDPL TEETRELLDK MLADDAEAGA EDEKEVEELK
510 520 530 540 550
KQGINPLPKP PPGVGLLPTP PRPPGPQAPT SPNGRPMQGG PPPPPPPPPP
560 570 580 590 600
PPGPPQMPMP VHEPLSPQQL QQQDMYNKKI PSLFEIVVRP TGQLAEKLGV
610 620 630 640 650
RFPGPGGPPG PMGPGPNMGP PGPMGGPMHP DMHPDMHPDM HPDMHADMHA
660 670 680 690 700
DMPMGPGMNP GPPMGPGGPP MMPYGPGDSP HSGMMPPIPP AQNFYENFYQ
710 720 730 740 750
QQEGMEMEPG LLGDAEDYGH YEELPGEPGE HLFPEHPLEP DSFSEGGPPG
760 770 780 790 800
RPKPGAGVPD FLPSAQRALY LRIQQKQQEE EERARRLAES SKQDRENEEG
810 820 830 840 850
DTGNWYSSDE DEGGSSVTSI LKTLRQQTSS RPPASVGELS SSGLGDPRLQ
860 870 880 890 900
KGHPTGSRLA DPRLSRDPRL TRHVEASGGS GPGDSGPSDP RLARALPTSK
910 920 930 940 950
PEGSLHSSPV GPSSSKGSGP PPTEEEEGER ALREKAVNIP LDPLPGHPLR
960 970 980 990 1000
DPRSQLQQFS HIKKDVTLSK PSFARTVLWN PEDLIPLPIP KQDAVPPVPA
1010 1020 1030 1040 1050
ALQSMPTLDP RLHRAATAGP PNARQRPGAS TDSSTQGANL PDFELLSRIL
1060 1070 1080 1090 1100
KTVNATGSSA APGSSDKPSD PRVRKAPTDP RLQKPTDSTA SSRAAKPGPA
1110 1120 1130 1140 1150
EAPSPTASPS GDASPPATAP YDPRVLAAGG LGQGGGGGQS SVLSGISLYD
1160 1170 1180 1190 1200
PRTPNAGGKA TEPAADTGAQ PKGAEGNGKS SASKAKEPPF VRKSALEQPE
1210 1220 1230 1240 1250
TGKAGADGGT PTDRYNSYNR PRPKAAAAPA ATTATPPPEG APPQPGVHNL
1260 1270 1280 1290 1300
PVPTLFGTVK QTPKTGSGSP FAGNSPAREG EQDAASLKDV FKGFDPTASP
FCQ
Computationally mapped potential isoform sequencesi
There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basketM0QY97 | M0QY97_HUMAN | Zinc finger CCCH domain-containing ... | ZC3H4 | 910 | Annotation score: |
Sequence cautioni
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_052964 | 287 | E → K. Corresponds to variant dbSNP:rs192824Ensembl. | 1 | |
Natural variantiVAR_052965 | 464 | M → V. Corresponds to variant dbSNP:rs402833Ensembl. | 1 | |
Natural variantiVAR_052966 | 1228 | A → G. Corresponds to variant dbSNP:rs309195Ensembl. | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AB028987 mRNA Translation: BAA83016.2 Different initiation. AL050155 mRNA Translation: CAB43296.1 |
CCDSi | CCDS42582.1 |
PIRi | T08781 |
RefSeqi | NP_055983.1, NM_015168.1 XP_006723176.1, XM_006723113.3 |
Genome annotation databases
Ensembli | ENST00000253048.10; ENSP00000253048.4; ENSG00000130749.10 |
GeneIDi | 23211 |
KEGGi | hsa:23211 |
MANE-Selecti | ENST00000253048.10; ENSP00000253048.4; NM_015168.2; NP_055983.1 |
UCSCi | uc002pga.5, human |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AB028987 mRNA Translation: BAA83016.2 Different initiation. AL050155 mRNA Translation: CAB43296.1 |
CCDSi | CCDS42582.1 |
PIRi | T08781 |
RefSeqi | NP_055983.1, NM_015168.1 XP_006723176.1, XM_006723113.3 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
2CQE | NMR | - | A | 417-501 | [»] | |
AlphaFoldDBi | Q9UPT8 | |||||
SMRi | Q9UPT8 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 116818, 114 interactors |
IntActi | Q9UPT8, 26 interactors |
MINTi | Q9UPT8 |
STRINGi | 9606.ENSP00000253048 |
PTM databases
GlyGeni | Q9UPT8, 5 sites, 2 O-linked glycans (5 sites) |
iPTMneti | Q9UPT8 |
PhosphoSitePlusi | Q9UPT8 |
SwissPalmi | Q9UPT8 |
Genetic variation databases
BioMutai | ZC3H4 |
DMDMi | 94707996 |
Proteomic databases
EPDi | Q9UPT8 |
jPOSTi | Q9UPT8 |
MassIVEi | Q9UPT8 |
MaxQBi | Q9UPT8 |
PaxDbi | Q9UPT8 |
PeptideAtlasi | Q9UPT8 |
PRIDEi | Q9UPT8 |
ProteomicsDBi | 85442 |
Protocols and materials databases
Antibodypediai | 45692, 86 antibodies from 24 providers |
DNASUi | 23211 |
Genome annotation databases
Ensembli | ENST00000253048.10; ENSP00000253048.4; ENSG00000130749.10 |
GeneIDi | 23211 |
KEGGi | hsa:23211 |
MANE-Selecti | ENST00000253048.10; ENSP00000253048.4; NM_015168.2; NP_055983.1 |
UCSCi | uc002pga.5, human |
Organism-specific databases
CTDi | 23211 |
DisGeNETi | 23211 |
GeneCardsi | ZC3H4 |
HGNCi | HGNC:17808, ZC3H4 |
HPAi | ENSG00000130749, Low tissue specificity |
MIMi | 619498, gene |
neXtProti | NX_Q9UPT8 |
OpenTargetsi | ENSG00000130749 |
PharmGKBi | PA162409534 |
VEuPathDBi | HostDB:ENSG00000130749 |
HUGEi | Search... |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG1040, Eukaryota |
GeneTreei | ENSGT00940000160011 |
InParanoidi | Q9UPT8 |
OMAi | MFSHEEL |
OrthoDBi | 145192at2759 |
PhylomeDBi | Q9UPT8 |
TreeFami | TF321641 |
Enzyme and pathway databases
PathwayCommonsi | Q9UPT8 |
SignaLinki | Q9UPT8 |
Miscellaneous databases
BioGRID-ORCSi | 23211, 82 hits in 1081 CRISPR screens |
ChiTaRSi | ZC3H4, human |
EvolutionaryTracei | Q9UPT8 |
GenomeRNAii | 23211 |
Pharosi | Q9UPT8, Tbio |
PROi | PR:Q9UPT8 |
RNActi | Q9UPT8, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000130749, Expressed in forebrain and 249 other tissues |
ExpressionAtlasi | Q9UPT8, baseline and differential |
Genevisiblei | Q9UPT8, HS |
Family and domain databases
InterProi | View protein in InterPro IPR045124, Su(sable)-like IPR041367, Znf-CCCH_4 IPR000571, Znf_CCCH IPR036855, Znf_CCCH_sf |
PANTHERi | PTHR13119, PTHR13119, 1 hit |
Pfami | View protein in Pfam PF00642, zf-CCCH, 1 hit PF18044, zf-CCCH_4, 1 hit |
SMARTi | View protein in SMART SM00356, ZnF_C3H1, 3 hits |
SUPFAMi | SSF90229, SSF90229, 3 hits |
PROSITEi | View protein in PROSITE PS50103, ZF_C3H1, 3 hits |
MobiDBi | Search... |
Entry informationi
Entry namei | ZC3H4_HUMAN | |
Accessioni | Q9UPT8Primary (citable) accession number: Q9UPT8 Secondary accession number(s): Q9Y420 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 2, 2006 |
Last sequence update: | May 2, 2006 | |
Last modified: | May 25, 2022 | |
This is version 170 of the entry and version 3 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
3D-structure, Reference proteomeDocuments
- Human chromosome 19
Human chromosome 19: 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 - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families