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    CHD3 chromodomain helicase DNA binding protein 3 [ Physeter catodon (sperm whale) ]

    Gene ID: 102988978, updated on 10-Mar-2024

    Summary

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    Gene symbol
    CHD3
    Gene description
    chromodomain helicase DNA binding protein 3
    See related
    Ensembl:ENSPCTG00005020057
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Physeter catodon
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Whippomorpha; Cetacea; Odontoceti; Physeteridae; Physeter
    Orthologs
    human mouse all
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    Genomic context

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    See CHD3 in Genome Data Viewer
    Location:
    chromosome: Un
    Exon count:
    41
    Annotation release Status Assembly Chr Location
    RS_2023_04 current ASM283717v5 (GCF_002837175.3) Unplaced Scaffold NW_021145294.1 (66165..87747, complement)
    102 previous assembly ASM283717v2 (GCF_002837175.2) Unplaced Scaffold NW_021145294.1 (66165..87747, complement)

    NW_021145294.1Genomic Context describing neighboring genes Neighboring gene potassium voltage-gated channel subfamily A regulatory beta subunit 3 Neighboring gene ring finger protein 227 Neighboring gene small Cajal body-specific RNA 21 Neighboring gene uncharacterized LOC114484765 Neighboring gene cytochrome b5 domain-containing protein 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    2. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ATP-dependent chromatin remodeler activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables chromatin binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables histone binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of NuRD complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of chromatin IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    chromodomain-helicase-DNA-binding protein 3

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_002837175.3-RS_2023_04

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference ASM283717v5 Primary Assembly

    Genomic

    1. NW_021145294.1 Reference ASM283717v5 Primary Assembly

      Range
      66165..87747 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_028483147.1 → XP_028338948.1  chromodomain-helicase-DNA-binding protein 3 isoform X2

      UniProtKB/TrEMBL
      A0A455ASS0
      Related
      ENSPCTP00005028687.1, ENSPCTT00005031559.1
      Conserved Domains (11) summary
      PLN03142
      Location:717 → 1271
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      PHA03169
      Location:1507 → 1694
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:379 → 421
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:456 → 498
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1376 → 1515
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam08074
      Location:1736 → 1907
      CHDCT2; CHDCT2 (NUC038) domain
      pfam06465
      Location:1310 → 1353
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:146 → 199
      CHDNT; CHDNT (NUC034) domain
      cd18662
      Location:626 → 680
      CD2_tandem_CHD3-4_like; repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and 4, and similar proteins
      cd18667
      Location:503 → 581
      CD1_tandem_CHD3-4_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and 4, and similar proteins
      cd18055
      Location:734 → 965
      DEXHc_CHD3; DEAH-box helicase domain of the chromodomain helicase DNA binding protein 3

    2. XM_028483146.2 → XP_028338947.1  chromodomain-helicase-DNA-binding protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A455AQV1
      Conserved Domains (11) summary
      PLN03142
      Location:717 → 1271
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      PHA03169
      Location:1507 → 1694
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:379 → 421
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:456 → 498
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1376 → 1515
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam08074
      Location:1736 → 1863
      CHDCT2; CHDCT2 (NUC038) domain
      pfam06465
      Location:1310 → 1353
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:146 → 199
      CHDNT; CHDNT (NUC034) domain
      cd18662
      Location:626 → 680
      CD2_tandem_CHD3-4_like; repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and 4, and similar proteins
      cd18667
      Location:503 → 581
      CD1_tandem_CHD3-4_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and 4, and similar proteins
      cd18055
      Location:734 → 965
      DEXHc_CHD3; DEAH-box helicase domain of the chromodomain helicase DNA binding protein 3

    3. XM_028483152.2 → XP_028338953.1  chromodomain-helicase-DNA-binding protein 3 isoform X5

      UniProtKB/TrEMBL
      A0A455ASS7
      Conserved Domains (11) summary
      PLN03142
      Location:547 → 1101
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      PHA03169
      Location:1337 → 1524
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:209 → 251
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:286 → 328
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1206 → 1345
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam08074
      Location:1566 → 1693
      CHDCT2; CHDCT2 (NUC038) domain
      pfam06465
      Location:1140 → 1183
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:1 → 33
      CHDNT; CHDNT (NUC034) domain
      cd18662
      Location:456 → 510
      CD2_tandem_CHD3-4_like; repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and 4, and similar proteins
      cd18667
      Location:333 → 411
      CD1_tandem_CHD3-4_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and 4, and similar proteins
      cd18055
      Location:564 → 795
      DEXHc_CHD3; DEAH-box helicase domain of the chromodomain helicase DNA binding protein 3

    4. XM_024128021.3 → XP_023983789.1  chromodomain-helicase-DNA-binding protein 3 isoform X8

      UniProtKB/TrEMBL
      A0A2Y9T6M3
      Conserved Domains (9) summary
      smart00298
      Location:465 → 517
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1341 → 1493
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:213 → 255
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:290 → 332
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1210 → 1349
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1144 → 1188
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:1 → 33
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1535 → 1662
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:551 → 1105
      SNF2_N; SNF2 family N-terminal domain

    5. XM_024128020.3 → XP_023983788.1  chromodomain-helicase-DNA-binding protein 3 isoform X7

      UniProtKB/TrEMBL
      A0A2Y9T071
      Conserved Domains (9) summary
      smart00298
      Location:465 → 517
      CHROMO; Chromatin organization modifier domain
      cd15531
      Location:213 → 255
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:290 → 332
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1210 → 1349
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1144 → 1188
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:1 → 33
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1536 → 1663
      CHDCT2; CHDCT2 (NUC038) domain
      pfam09507
      Location:1327 → 1506
      CDC27; DNA polymerase subunit Cdc27
      cl26465
      Location:551 → 1105
      SNF2_N; SNF2 family N-terminal domain

    6. XM_024128018.3 → XP_023983786.1  chromodomain-helicase-DNA-binding protein 3 isoform X4

      UniProtKB/TrEMBL
      A0A2Y9SYN4
      Conserved Domains (9) summary
      smart00298
      Location:465 → 517
      CHROMO; Chromatin organization modifier domain
      PHA03169
      Location:1341 → 1527
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:213 → 255
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:290 → 332
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1210 → 1349
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam06465
      Location:1144 → 1188
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:1 → 33
      CHDNT; CHDNT (NUC034) domain
      pfam08074
      Location:1569 → 1696
      CHDCT2; CHDCT2 (NUC038) domain
      cl26465
      Location:551 → 1105
      SNF2_N; SNF2 family N-terminal domain

    7. XM_028483148.2 → XP_028338949.1  chromodomain-helicase-DNA-binding protein 3 isoform X3

      UniProtKB/TrEMBL
      A0A455AS57
      Conserved Domains (11) summary
      PLN03142
      Location:717 → 1271
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      PHA03169
      Location:1507 → 1694
      PHA03169; hypothetical protein; Provisional
      cd15531
      Location:379 → 421
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:456 → 498
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1376 → 1515
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam08074
      Location:1736 → 1863
      CHDCT2; CHDCT2 (NUC038) domain
      pfam06465
      Location:1310 → 1353
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:146 → 199
      CHDNT; CHDNT (NUC034) domain
      cd18662
      Location:626 → 680
      CD2_tandem_CHD3-4_like; repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and 4, and similar proteins
      cd18667
      Location:503 → 581
      CD1_tandem_CHD3-4_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and 4, and similar proteins
      cd18055
      Location:734 → 965
      DEXHc_CHD3; DEAH-box helicase domain of the chromodomain helicase DNA binding protein 3

    8. XM_024128024.3 → XP_023983792.2  chromodomain-helicase-DNA-binding protein 3 isoform X6

      UniProtKB/TrEMBL
      A0A2Y9T2L7
      Conserved Domains (11) summary
      PHA03418
      Location:1517 → 1696
      PHA03418; hypothetical E4 protein; Provisional
      PLN03142
      Location:717 → 1271
      PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional
      cd15531
      Location:379 → 421
      PHD1_CHD_II; PHD finger 1 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      cd15532
      Location:456 → 498
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam06461
      Location:1376 → 1515
      DUF1086; Domain of Unknown Function (DUF1086)
      pfam08074
      Location:1736 → 1864
      CHDCT2; CHDCT2 (NUC038) domain
      pfam06465
      Location:1310 → 1353
      DUF1087; Domain of Unknown Function (DUF1087)
      pfam08073
      Location:146 → 199
      CHDNT; CHDNT (NUC034) domain
      cd18662
      Location:626 → 680
      CD2_tandem_CHD3-4_like; repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and 4, and similar proteins
      cd18667
      Location:503 → 581
      CD1_tandem_CHD3-4_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 3 and 4, and similar proteins
      cd18055
      Location:734 → 965
      DEXHc_CHD3; DEAH-box helicase domain of the chromodomain helicase DNA binding protein 3
    Nucleotide Protein
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