C1D

Functionⁱ

Plays a role in the recruitment of the RNA exosome complex to pre-rRNA to mediate the 3'-5' end processing of the 5.8S rRNA; this function may include MPHOSPH6. Can activate PRKDC not only in the presence of linear DNA but also in the presence of supercoiled DNA. Can induce apoptosis in a p53/TP53 dependent manner. May regulate the TRAX/TSN complex formation. Potentiates transcriptional repression by NR1D1 and THRB (By similarity).By similarity4 Publications

GO - Molecular functionⁱ

DNA binding
Source: ProtInc
Traceable author statementⁱ
- 9469821
nuclear receptor binding Source: Ensembl
RNA binding
Source: UniProtKB
Inferred from direct assayⁱ
- 17412707
transcription corepressor activity Source: Ensembl

View the complete GO annotation on QuickGO ...

GO - Biological processⁱ

apoptotic process Source: UniProtKB-KW
maturation of 5.8S rRNA
Source: UniProtKB
Inferred from mutant phenotypeⁱ
- 17412707
negative regulation of transcription, DNA-templated Source: Ensembl
rRNA processing Source: Reactome
transcription, DNA-templated Source: UniProtKB-KW

View the complete GO annotation on QuickGO ...

Keywordsⁱ

Molecular function	DNA-binding, Repressor, RNA-binding
Biological process	Apoptosis, rRNA processing, Transcription, Transcription regulation

Enzyme and pathway databases

Reactomeⁱ	R-HSA-6791226 Major pathway of rRNA processing in the nucleolus and cytosol
SIGNORⁱ	Q13901

Names & Taxonomyⁱ

Protein namesⁱ	Recommended name: Nuclear nucleic acid-binding protein C1D Short name: hC1D
Gene namesⁱ	Name:C1D
Organismⁱ	Homo sapiens (Human)
Taxonomic identifierⁱ	9606 [NCBI]
Taxonomic lineageⁱ	cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Dipnotetrapodomorpha › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Boreoeutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo
Proteomesⁱ	UP000005640 Componentⁱ: Chromosome 2

Organism-specific databases

EuPathDBⁱ	HostDB:ENSG00000197223.11
Human Gene Nomenclature Database More...HGNCⁱ	HGNC:29911 C1D
MIMⁱ	606997 gene
neXtProtⁱ	NX_Q13901

Keywords - Cellular componentⁱ

Cytoplasm, Nucleus

Pathology & Biotechⁱ

Organism-specific databases

DisGeNET More...DisGeNETⁱ	10438
Open Targets More...OpenTargetsⁱ	ENSG00000197223
PharmGKBⁱ	PA164717007

Polymorphism and mutation databases

BioMutaⁱ	C1D
DMDMⁱ	74754472

PTM / Processingⁱ

Molecule processing

Feature key	Position(s)	DescriptionActions	Graphical view	Length
ChainⁱPRO_0000316300	1 – 141	Nuclear nucleic acid-binding protein C1DAdd BLAST		141

Amino acid modifications

Feature key	Position(s)	DescriptionActions
Cross-linkⁱ	119	Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linkⁱ	126	Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linkⁱ	132	Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources

Post-translational modificationⁱ

Phosphorylated by PRKDC.1 Publication

Keywords - PTMⁱ

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDⁱ	Q13901
MaxQB - The MaxQuant DataBase More...MaxQBⁱ	Q13901
PaxDbⁱ	Q13901
PeptideAtlas More...PeptideAtlasⁱ	Q13901
PRIDEⁱ	Q13901
ProteomicsDBⁱ	59719
TopDownProteomicsⁱ	Q13901

PTM databases

iPTMnetⁱ	Q13901
PhosphoSitePlusⁱ	Q13901

Expressionⁱ

Tissue specificityⁱ

Ubiquitous. Expressed at very high levels in the hippocampus, medulla oblongata, mammary gland, thyroid and salivary gland. Expressed at high levels in the fetal; lung, liver and kidney. Expressed at low levels in skeletal muscle, appendix, heart, lung and colon.1 Publication

Inductionⁱ

By gamma-radiation.1 Publication

Gene expression databases

Bgeeⁱ	ENSG00000197223 Expressed in 93 organ(s), highest expression level in caudate nucleus
ExpressionAtlasⁱ	Q13901 baseline and differential
Genevisibleⁱ	Q13901 HS

Organism-specific databases

Human Protein Atlas More...HPAⁱ	HPA037413 HPA037588

HPAⁱ

HPA037413
HPA037588

Interactionⁱ

Subunit structureⁱ

Monomer and homodimer. Interacts with NR1D1, THRA, THRB, NCOR1 and NCOR2 (By similarity). Interacts with EXOSC10; the interaction probably mediates the association with the nuclear form of the RNA exosome. The homodimeric form interacts with TSNAX following gamma-radiation. Interacts with RAC3.By similarity5 Publications

Binary interactionsⁱ

With	Entry	#Exp.	IntAct	Notes
EXOSC10	Q01780	5	EBI-3844053,EBI-358236
IL23R	Q5VWK5	3	EBI-3844053,EBI-10248005

GO - Molecular functionⁱ

nuclear receptor binding Source: Ensembl

View the complete GO annotation on QuickGO ...

Protein-protein interaction databases

BioGridⁱ	115705, 33 interactors
CORUMⁱ	Q13901
IntActⁱ	Q13901, 12 interactors
Molecular INTeraction database More...MINTⁱ	Q13901
STRINGⁱ	9606.ENSP00000348107

Structureⁱ

3D structure databases

ProteinModelPortalⁱ	Q13901
SMRⁱ	Q13901
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Family & Domainsⁱ

Region

Feature key	Position(s)	DescriptionActions	Length
Regionⁱ	1 – 100	Required for transcriptional repressionBy similarityAdd BLAST	100
Regionⁱ	50 – 100	Interaction with NR1D1By similarityAdd BLAST	51
Regionⁱ	100 – 141	Interaction with NCOR1 and NCOR2By similarityAdd BLAST	42

Sequence similaritiesⁱ

Belongs to the C1D family.Curated

Phylogenomic databases

eggNOGⁱ	KOG4835 Eukaryota ENOG4111ZX6 LUCA
Ensembl GeneTree More...GeneTreeⁱ	ENSGT00390000015405
HOGENOMⁱ	HOG000007644
HOVERGENⁱ	HBG097935
InParanoidⁱ	Q13901
KEGG Orthology (KO) More...KOⁱ	K12592
PhylomeDBⁱ	Q13901
TreeFamⁱ	TF314651

Family and domain databases

InterProⁱ	View protein in InterPro IPR011082 Exosome-assoc_fac/DNA_repair IPR007146 Sas10/Utp3/C1D
PANTHERⁱ	PTHR15341 PTHR15341, 1 hit
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF04000 Sas10_Utp3, 1 hit

Sequence (1+)ⁱ

Sequence statusⁱ: Complete.

This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show all Align All

Q13901-1 [UniParc]FASTA Add to basket

« Hide

        10         20         30         40         50
MAGEEINEDY PVEIHEYLSA FENSIGAVDE MLKTMMSVSR NELLQKLDPL 
        60         70         80         90        100
EQAKVDLVSA YTLNSMFWVY LATQGVNPKE HPVKQELERI RVYMNRVKEI 
       110        120        130        140 
TDKKKAGKLD RGAASRFVKN ALWEPKSKNA SKVANKGKSK S

Length:141

Mass (Da):16,019

Last modified:November 1, 1996 - v1

Checksum:ⁱ9976A3BBD5620D63

GO

Computationally mapped potential isoform sequencesⁱ

There is 1 potential isoform mapped to this entry.BLAST Align Show all Add to basket

	Entry	Entry name		Protein names	Gene names	Length	Annotation

	J3KPZ4	J3KPZ4_HUMAN		Nuclear nucleic acid-binding protei... Nuclear nucleic acid-binding protein C1D	C1D	180	Annotation score:

Experimental Info

Feature key	Position(s)	DescriptionActions	Graphical view	Length
Sequence conflictⁱ	76	V → I in BAF83140 (PubMed:14702039).Curated		1

Natural variant

Feature key	Position(s)	DescriptionActions	Graphical view	Length
Natural variantⁱVAR_053990	127	S → P. Corresponds to variant dbSNP:rs10444Ensembl.		1

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	X95592 mRNA Translation: CAA64845.1 AK290451 mRNA Translation: BAF83140.1 AC079112 Genomic DNA Translation: AAX88887.1 CH471053 Genomic DNA Translation: EAW99884.1 CH471053 Genomic DNA Translation: EAW99885.1 BC005235 mRNA Translation: AAH05235.1 BC009584 mRNA Translation: AAH09584.1 BC009589 mRNA Translation: AAH09589.1 BC016284 mRNA Translation: AAH16284.1
The Consensus CDS (CCDS) project More...CCDSⁱ	CCDS1883.1
NCBI Reference Sequences More...RefSeqⁱ	NP_001177192.1, NM_001190263.1 NP_001177194.1, NM_001190265.1 NP_006324.1, NM_006333.3 NP_775269.1, NM_173177.2
UniGeneⁱ	Hs.602900 Hs.697447

Genome annotation databases

Ensemblⁱ	ENST00000355848; ENSP00000348107; ENSG00000197223 ENST00000409302; ENSP00000386779; ENSG00000197223 ENST00000410067; ENSP00000386468; ENSG00000197223
GeneIDⁱ	10438
KEGGⁱ	hsa:10438
UCSC genome browser More...UCSCⁱ	uc002seb.4 human

Keywords - Coding sequence diversityⁱ

Polymorphism

Similar proteinsⁱ

100% Identity
90% Identity
50% Identity

Protein	Similar proteins		Species	Score	Length	Source
Q13901	Nuclear nucleic acid-binding protein C1D		HUMAN		180	UniRef100_Q13901

Protein	Similar proteins		Species	Score	Length	Source
Q13901	Nuclear nucleic acid-binding protein C1D		HUMAN		180	UniRef90_Q13901
Uncharacterized protein		COLAP		183
C1D isoform 2		PANTR		180
Uncharacterized protein		PANPA		180
C1D isoform 6		PONAB		180
+18

Protein	Similar proteins		Species	Score	Length	Source
Q13901	Nuclear nucleic acid-binding protein C1D		BOVIN		141	UniRef50_Q13901
Nuclear nucleic acid-binding protein C1D		CHICK		142
Nuclear nucleic acid-binding protein C1D		PONAB		141
Nuclear nucleic acid-binding protein C1D		HUMAN		180
Uncharacterized protein		COLAP		183
+246

Cross-referencesⁱ

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	X95592 mRNA Translation: CAA64845.1 AK290451 mRNA Translation: BAF83140.1 AC079112 Genomic DNA Translation: AAX88887.1 CH471053 Genomic DNA Translation: EAW99884.1 CH471053 Genomic DNA Translation: EAW99885.1 BC005235 mRNA Translation: AAH05235.1 BC009584 mRNA Translation: AAH09584.1 BC009589 mRNA Translation: AAH09589.1 BC016284 mRNA Translation: AAH16284.1
CCDSⁱ	CCDS1883.1
RefSeqⁱ	NP_001177192.1, NM_001190263.1 NP_001177194.1, NM_001190265.1 NP_006324.1, NM_006333.3 NP_775269.1, NM_173177.2
UniGeneⁱ	Hs.602900 Hs.697447

3D structure databases

ProteinModelPortalⁱ	Q13901
SMRⁱ	Q13901
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Protein-protein interaction databases

BioGridⁱ	115705, 33 interactors
CORUMⁱ	Q13901
IntActⁱ	Q13901, 12 interactors
MINTⁱ	Q13901
STRINGⁱ	9606.ENSP00000348107

PTM databases

iPTMnetⁱ	Q13901
PhosphoSitePlusⁱ	Q13901

Polymorphism and mutation databases

BioMutaⁱ	C1D
DMDMⁱ	74754472

Proteomic databases

EPDⁱ	Q13901
MaxQBⁱ	Q13901
PaxDbⁱ	Q13901
PeptideAtlasⁱ	Q13901
PRIDEⁱ	Q13901
ProteomicsDBⁱ	59719
TopDownProteomicsⁱ	Q13901

Protocols and materials databases

The DNASU plasmid repository More...DNASUⁱ	10438
Structural Biology Knowledgebase	Search...

Genome annotation databases

Ensemblⁱ	ENST00000355848; ENSP00000348107; ENSG00000197223 ENST00000409302; ENSP00000386779; ENSG00000197223 ENST00000410067; ENSP00000386468; ENSG00000197223
GeneIDⁱ	10438
KEGGⁱ	hsa:10438
UCSCⁱ	uc002seb.4 human

Organism-specific databases

CTDⁱ	10438
DisGeNETⁱ	10438
EuPathDBⁱ	HostDB:ENSG00000197223.11
GeneCardsⁱ	C1D
HGNCⁱ	HGNC:29911 C1D
HPAⁱ	HPA037413 HPA037588
MIMⁱ	606997 gene
neXtProtⁱ	NX_Q13901
OpenTargetsⁱ	ENSG00000197223
PharmGKBⁱ	PA164717007
GenAtlas: human gene database More...GenAtlasⁱ	Search...

Phylogenomic databases

eggNOGⁱ	KOG4835 Eukaryota ENOG4111ZX6 LUCA
GeneTreeⁱ	ENSGT00390000015405
HOGENOMⁱ	HOG000007644
HOVERGENⁱ	HBG097935
InParanoidⁱ	Q13901
KOⁱ	K12592
PhylomeDBⁱ	Q13901
TreeFamⁱ	TF314651

Enzyme and pathway databases

Reactomeⁱ	R-HSA-6791226 Major pathway of rRNA processing in the nucleolus and cytosol
SIGNORⁱ	Q13901

Miscellaneous databases

ChiTaRSⁱ	C1D human
GeneWikiⁱ	C1D
GenomeRNAiⁱ	10438
Protein Ontology More...PROⁱ	PR:Q13901
SOURCEⁱ	Search...

Gene expression databases

Bgeeⁱ	ENSG00000197223 Expressed in 93 organ(s), highest expression level in caudate nucleus
ExpressionAtlasⁱ	Q13901 baseline and differential
Genevisibleⁱ	Q13901 HS

Family and domain databases

InterProⁱ	View protein in InterPro IPR011082 Exosome-assoc_fac/DNA_repair IPR007146 Sas10/Utp3/C1D
PANTHERⁱ	PTHR15341 PTHR15341, 1 hit
Pfamⁱ	View protein in Pfam PF04000 Sas10_Utp3, 1 hit
ProtoNetⁱ	Search...

Entry informationⁱ

Entry nameⁱ	C1D_HUMAN
Accessionⁱ	Q13901Primary (citable) accession number: Q13901 Secondary accession number(s): A8K336, D6W5F8, Q05D64
Entry historyⁱ	Integrated into UniProtKB/Swiss-Prot:	February 5, 2008
	Last sequence update:	November 1, 1996
	Last modified:	September 12, 2018
	This is version 143 of the entry and version 1 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

Complete proteome, Reference proteome

Documents

Human chromosome 2
Human chromosome 2: entries, gene names and cross-references to MIM
Human entries with polymorphisms or disease mutations
List of human entries with polymorphisms or disease mutations
SIMILARITY comments
Index of protein domains and families
Human polymorphisms and disease mutations
Index of human polymorphisms and disease mutations
MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

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Help

UniRef

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Supporting data

UniProtKB - Q13901 (C1D_HUMAN)

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Nuclear nucleic acid-binding protein C1D

Select a section on the left to see content.

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

Enzyme and pathway databases

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

Organism-specific databases

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Nucleus

Other locations

Nucleus

Other locations

Keywords - Cellular componenti

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Organism-specific databases

Polymorphism and mutation databases

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Amino acid modifications

Keywords - PTMi

Proteomic databases

PTM databases

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Organism-specific databases

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

GO - Molecular functioni

Protein-protein interaction databases

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Phylogenomic databases

Family and domain databases

Experimental Info

Natural variant

Sequence databases

Genome annotation databases

Keywords - Coding sequence diversityi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Polymorphism and mutation databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Miscellaneous databases

Gene expression databases

Family and domain databases

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Documents

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Functionⁱ

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

Keywords - Cellular componentⁱ

Pathology & Biotechⁱ

PTM / Processingⁱ

Keywords - PTMⁱ

Expressionⁱ

Interactionⁱ

GO - Molecular functionⁱ

Structureⁱ

Family & Domainsⁱ

Sequence similaritiesⁱ

Keywords - Coding sequence diversityⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ

Keywords - Technical termⁱ