Gene description for Chd4
Gene name chromodomain helicase DNA binding protein 4
Gene symbol Chd4
Other names/aliases 9530019N15Rik
AA617397
BC005710
D6Ertd380e
Mi-2beta
mKIAA4075
Species Mus musculus
 Database cross references - Chd4
ExoCarta ExoCarta_107932
Vesiclepedia VP_107932
Entrez Gene 107932
UniProt Q6PDQ2  
 Chd4 identified in sEVs derived from the following tissue/cell type
Colon cancer cells 37309723    
T-cell lymphoma cells 37309723    
 Gene ontology annotations for Chd4
Molecular Function
    transcription coregulator binding GO:0001221 ISO
    DNA binding GO:0003677 IBA
    DNA binding GO:0003677 IEA
    chromatin binding GO:0003682 IBA
    DNA clamp loader activity GO:0003689 IEA
    transcription corepressor activity GO:0003714 ISO
    protein binding GO:0005515 IPI
    ATP binding GO:0005524 IEA
    transcription factor binding GO:0008134 IPI
    four-way junction helicase activity GO:0009378 IEA
    ATP hydrolysis activity GO:0016887 IBA
    ATP hydrolysis activity GO:0016887 ISO
    ATP hydrolysis activity GO:0016887 ISS
    double-stranded DNA helicase activity GO:0036121 IEA
    histone binding GO:0042393 IBA
    histone deacetylase binding GO:0042826 ISO
    metal ion binding GO:0046872 IEA
    RNA polymerase II-specific DNA-binding transcription factor binding GO:0061629 ISO
    forked DNA-dependent helicase activity GO:0061749 IEA
    cohesin loader activity GO:0061775 IEA
    DNA-binding transcription factor binding GO:0140297 IPI
    chromatin extrusion motor activity GO:0140584 IEA
    ATP-dependent chromatin remodeler activity GO:0140658 IBA
    ATP-dependent chromatin remodeler activity GO:0140658 ISO
    ATP-dependent chromatin remodeler activity GO:0140658 ISS
    ATP-dependent H3-H4 histone complex chaperone activity GO:0140665 IEA
    ATP-dependent H2AZ histone chaperone activity GO:0140849 IEA
    single-stranded 3'-5' DNA helicase activity GO:1990518 IEA
Biological Process
    negative regulation of transcription by RNA polymerase II GO:0000122 ISO
    double-strand break repair via homologous recombination GO:0000724 ISO
    chromatin remodeling GO:0006338 IBA
    chromatin remodeling GO:0006338 ISO
    negative regulation of gene expression GO:0010629 ISO
    DNA duplex unwinding GO:0032508 IEA
    regulation of cell fate specification GO:0042659 NAS
    negative regulation of DNA-templated transcription GO:0045892 NAS
    positive regulation of DNA-templated transcription GO:0045893 NAS
    regulation of synapse assembly GO:0051963 ISO
    terminal button organization GO:0072553 ISO
    chromatin looping GO:0140588 IEA
    regulation of stem cell differentiation GO:2000736 NAS
Subcellular Localization
    chromosome, telomeric region GO:0000781 ISO
    chromatin GO:0000785 IBA
    nucleus GO:0005634 IBA
    nucleus GO:0005634 IDA
    nucleus GO:0005634 ISO
    nucleoplasm GO:0005654 ISO
    nucleoplasm GO:0005654 TAS
    cytoplasm GO:0005737 IEA
    cytoplasm GO:0005737 ISO
    centrosome GO:0005813 IEA
    centrosome GO:0005813 ISO
    NuRD complex GO:0016581 IBA
    NuRD complex GO:0016581 IDA
    NuRD complex GO:0016581 ISO
    NuRD complex GO:0016581 NAS
    protein-containing complex GO:0032991 IDA
    protein-DNA complex GO:0032993 IDA
    RNA polymerase II transcription regulator complex GO:0090575 ISO
    site of DNA damage GO:0090734 ISO
    cerebellar granule cell to Purkinje cell synapse GO:0150048 ISO
 Experiment description of studies that identified Chd4 in sEVs
1
Experiment ID 907
MISEV standards
✔
EM
Biophysical techniques
✔
Tsg101|Sdcbp|Cd151|Gapdh|Lamp2|Cd81|Cd82|Cd9|Cd63|Cd80|Flot2|Tfrc|Rab35|Rab5a
Enriched markers
✔
HSPA5
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 37309723    
Organism Mus musculus
Experiment description Proteomic analysis of the small extracellular vesicles and soluble secretory proteins from cachexia inducing and non-inducing cancer cells
Authors "Chitti SV, Kang T, Fonseka P, Marzan AL, Stewart S, Shahi S, Bramich K, Ang CS, Pathan M, Gummadi S, Mathivanan S."
Journal name Proteomics
Publication year 2023
Sample Colon cancer cells
Sample name C26
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
2
Experiment ID 908
MISEV standards
✔
EM
Biophysical techniques
✔
Tsg101|Sdcbp|Cd151|Gapdh|Lamp2|Cd81|Cd82|Cd9|Cd63|Cd80|Flot2|Tfrc|Rab35|Rab5a
Enriched markers
✔
HSPA5
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 37309723    
Organism Mus musculus
Experiment description Proteomic analysis of the small extracellular vesicles and soluble secretory proteins from cachexia inducing and non-inducing cancer cells
Authors "Chitti SV, Kang T, Fonseka P, Marzan AL, Stewart S, Shahi S, Bramich K, Ang CS, Pathan M, Gummadi S, Mathivanan S."
Journal name Proteomics
Publication year 2023
Sample T-cell lymphoma cells
Sample name EL4
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
 Protein-protein interactions for Chd4
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 Vezf1  
Affinity Capture-MS Mus musculus
2 Pcbd1  
Two-hybrid Mus musculus
3 Esrrb  
Affinity Capture-MS Mus musculus
4 Adnp  
Affinity Capture-MS Mus musculus
Co-localization Mus musculus
5 Ewsr1 14030
Two-hybrid Mus musculus
6 Pou5f1  
Affinity Capture-Western Mus musculus
Affinity Capture-MS Mus musculus
Affinity Capture-MS Mus musculus
Affinity Capture-Western Mus musculus
Affinity Capture-MS Mus musculus
7 Ep300  
Affinity Capture-Western Mus musculus
Affinity Capture-Western Mus musculus
8 Nab2  
Two-hybrid Mus musculus
9 Nr2c2  
Co-fractionation Mus musculus
10 Chd5  
Co-fractionation Mus musculus
11 JADE1  
Affinity Capture-MS Homo sapiens
12 Mbd3  
Co-fractionation Mus musculus
13 Gata1  
Affinity Capture-Western Mus musculus
14 Fmr1  
Affinity Capture-MS Mus musculus
15 Foxp3  
Affinity Capture-MS Mus musculus
Affinity Capture-Western Mus musculus
16 Tfe3  
Affinity Capture-MS Mus musculus
17 Trip13 69716
Two-hybrid Mus musculus
18 Rorc  
Two-hybrid Mus musculus
Reconstituted Complex Mus musculus
Reconstituted Complex Mus musculus
19 Chaf1a  
Affinity Capture-MS Mus musculus
20 Hoxa2  
Two-hybrid Mus musculus
21 Cbx1  
Affinity Capture-MS Mus musculus
22 Mettl21e  
Affinity Capture-MS Mus musculus
23 Ssbp4  
Two-hybrid Mus musculus
24 Nphp4  
Affinity Capture-MS Mus musculus
25 Mta2 23942
Affinity Capture-Western Mus musculus
Affinity Capture-Western Mus musculus
26 Nanog  
Affinity Capture-MS Mus musculus
Affinity Capture-MS Mus musculus
27 Tfcp2l1  
Affinity Capture-MS Mus musculus
28 Cbx3 12417
Affinity Capture-MS Mus musculus
29 Zbtb7b  
Affinity Capture-MS Mus musculus
30 Eed  
Affinity Capture-MS Mus musculus
31 Hdac3  
Co-fractionation Mus musculus
32 Atxn1  
Proximity Label-MS Mus musculus
Affinity Capture-MS Mus musculus
33 Sall4  
Affinity Capture-MS Mus musculus
34 Nfe2  
Two-hybrid Mus musculus
35 Fancd2  
Affinity Capture-MS Mus musculus
36 Tcf12 21406
Affinity Capture-Western Mus musculus
Affinity Capture-Western Mus musculus
37 Tcf3  
Affinity Capture-MS Mus musculus
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