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    vab-10 Calponin-homology (CH) domain-containing protein;GAR domain-containing protein;Microtubule-actin cross-linking factor 1;Nesprin-1;Spectrin beta chain [ Caenorhabditis elegans ]

    Gene ID: 173058, updated on 9-Dec-2024

    Summary

    Official Symbol
    vab-10
    Official Full Name
    Calponin-homology (CH) domain-containing protein;GAR domain-containing protein;Microtubule-actin cross-linking factor 1;Nesprin-1;Spectrin beta chain
    Primary source
    WormBase:WBGene00006876
    Locus tag
    CELE_ZK1151.1
    See related
    AllianceGenome:WB:WBGene00006876
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Caenorhabditis elegans (strain: Bristol N2)
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
    Summary
    Predicted to enable actin filament binding activity and structural molecule activity. Involved in epidermis morphogenesis. Located in apical plasma membrane; basal plasma membrane; and hemidesmosome. Is expressed in several structures, including gonad; intestine; nerve ring; pharynx; and vulval cell. Human ortholog(s) of this gene implicated in epidermolysis bullosa simplex; hereditary sensory and autonomic neuropathy type 6; and lissencephaly 9 with complex brainstem malformation. Orthologous to several human genes including DST (dystonin). [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

    See vab-10 in Genome Data Viewer
    Location:
    chromosome: I
    Exon count:
    42
    Sequence:
    Chromosome: I; NC_003279.8 (11747424..11804991, complement)

    Chromosome I - NC_003279.8Genomic Context describing neighboring genes Neighboring gene G_PROTEIN_RECEP_F1_2 domain-containing protein Neighboring gene Peptidase S1 domain-containing protein Neighboring gene C-type LECtin Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene tRNA-Ser Neighboring gene RNase III domain-containing protein Neighboring gene Stm1_N domain-containing protein

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    General gene information

    Gene Ontology Provided by WormBase

    Function Evidence Code Pubs
    enables actin binding  
    enables actin filament binding PubMed 
    enables microtubule binding  
    enables protein binding PubMed 
    enables structural molecule activity  
    Process Evidence Code Pubs
    involved_in cytoplasmic microtubule organization  
    involved_in epidermis morphogenesis PubMed 
    involved_in intermediate filament cytoskeleton organization  
    involved_in intermediate filament cytoskeleton organization  
    involved_in wound healing  
    Component Evidence Code Pubs
    located_in apical plasma membrane PubMed 
    located_in basal plasma membrane PubMed 
    located_in cell projection  
    is_active_in cytoplasm  
    located_in cytoplasm  
    located_in cytoskeleton  
    is_active_in hemidesmosome  
    located_in hemidesmosome PubMed 
    colocalizes_with intermediate filament  
    located_in intracellular organelle PubMed 
    is_active_in membrane  
    located_in microtubule  

    General protein information

    Preferred Names
    Calponin-homology (CH) domain-containing protein;GAR domain-containing protein;Microtubule-actin cross-linking factor 1;Nesprin-1;Spectrin beta chain
    NP_001040721.1
    • Confirmed by transcript evidence
    NP_001122565.1
    • Partially confirmed by transcript evidence
    NP_001335519.1
    • Confirmed by transcript evidence
    NP_001335520.1
    • Confirmed by transcript evidence
    NP_001335521.1
    • Partially confirmed by transcript evidence
    NP_001335522.1
    • Partially confirmed by transcript evidence
    NP_001335523.1
    • Confirmed by transcript evidence
    NP_001335524.1
    • Confirmed by transcript evidence
    NP_001364629.1
    • Partially confirmed by transcript evidence
    NP_001364630.1
    • Confirmed by transcript evidence
    NP_001364631.1
    • Confirmed by transcript evidence
    NP_001364643.1
    • Confirmed by transcript evidence
    NP_001364644.1
    • Confirmed by transcript evidence
    NP_001364645.1
    • Confirmed by transcript evidence

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003279.8 Reference assembly

      Range
      11747424..11804991 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001348621.3 → NP_001335519.1  Spectrin beta chain [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1N7SYN9, G5EFM3
      Conserved Domains (9) summary
      smart00243
      Location:4709 → 4781
      GAS2; Growth-Arrest-Specific Protein 2 Domain
      PTZ00121
      Location:4225 → 4644
      PTZ00121; MAEBL; Provisional
      COG1196
      Location:2193 → 2972
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      COG5069
      Location:40 → 284
      SAC6; Ca2+-binding actin-bundling protein fimbrin/plastin (EF-Hand superfamily) [Cytoskeleton]
      cd00176
      Location:3752 → 3957
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      TIGR02168
      Location:1603 → 2393
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam15921
      Location:1176 → 1956
      CCDC158; Coiled-coil domain-containing protein 158
      cl02488
      Location:988 → 1202
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam17902
      Location:808 → 872
      SH3_10; SH3 domain
    2. NM_001377639.1 → NP_001364631.1  Spectrin beta chain [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5EDD3, G5EFM3
      Conserved Domains (8) summary
      smart00243
      Location:4720 → 4792
      GAS2; Growth-Arrest-Specific Protein 2 Domain
      PTZ00121
      Location:1506 → 2356
      PTZ00121; MAEBL; Provisional
      COG1196
      Location:2193 → 2972
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd00176
      Location:3752 → 3957
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam17902
      Location:808 → 872
      SH3_10; SH3 domain
      cd21188
      Location:38 → 142
      CH_PLEC-like_rpt1; first calponin homology (CH) domain found in the plectin/dystonin/MACF1 family
      cd21189
      Location:180 → 286
      CH_PLEC-like_rpt2; second calponin homology (CH) domain found in the plectin/dystonin/MACF1 family
      cl02488
      Location:988 → 1202
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    3. NM_001348620.3 → NP_001335520.1  Spectrin beta chain [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1N7SYR7, G5EFM3
      Conserved Domains (9) summary
      smart00243
      Location:4596 → 4668
      GAS2; Growth-Arrest-Specific Protein 2 Domain
      PTZ00121
      Location:4112 → 4531
      PTZ00121; MAEBL; Provisional
      COG1196
      Location:2080 → 2859
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      COG5069
      Location:40 → 284
      SAC6; Ca2+-binding actin-bundling protein fimbrin/plastin (EF-Hand superfamily) [Cytoskeleton]
      cd00176
      Location:3639 → 3844
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      TIGR02168
      Location:1490 → 2280
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam15921
      Location:1063 → 1843
      CCDC158; Coiled-coil domain-containing protein 158
      cl02488
      Location:875 → 1089
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam17902
      Location:695 → 759
      SH3_10; SH3 domain
    4. NM_001348622.3 → NP_001335522.1  Calponin-homology (CH) domain-containing protein [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1N7SYN7, G5EFM3
      Conserved Domains (10) summary
      smart00243
      Location:4723 → 4795
      GAS2; Growth-Arrest-Specific Protein 2 Domain
      PTZ00121
      Location:4239 → 4658
      PTZ00121; MAEBL; Provisional
      smart00150
      Location:551 → 645
      SPEC; Spectrin repeats
      COG1196
      Location:2207 → 2986
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd00176
      Location:3766 → 3971
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      TIGR02168
      Location:1617 → 2407
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam15921
      Location:1190 → 1970
      CCDC158; Coiled-coil domain-containing protein 158
      cl02488
      Location:1002 → 1216
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam00307
      Location:307 → 413
      CH; Calponin homology (CH) domain
      pfam17902
      Location:822 → 886
      SH3_10; SH3 domain
    5. NM_001348623.3 → NP_001335521.1  Microtubule-actin cross-linking factor 1 [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1N7SYP3, G5EFM3
      Conserved Domains (10) summary
      smart00243
      Location:4836 → 4908
      GAS2; Growth-Arrest-Specific Protein 2 Domain
      PTZ00121
      Location:4352 → 4771
      PTZ00121; MAEBL; Provisional
      smart00150
      Location:664 → 758
      SPEC; Spectrin repeats
      COG1196
      Location:2320 → 3099
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd00176
      Location:3879 → 4084
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      TIGR02168
      Location:1730 → 2520
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam15921
      Location:1303 → 2083
      CCDC158; Coiled-coil domain-containing protein 158
      cl02488
      Location:1115 → 1329
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam00307
      Location:307 → 413
      CH; Calponin homology (CH) domain
      pfam17902
      Location:935 → 999
      SH3_10; SH3 domain
    6. NM_001348624.3 → NP_001335523.1  GAR domain-containing protein [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1N7SYQ0
      Conserved Domains (6) summary
      smart00243
      Location:3341 → 3413
      GAS2; Growth-Arrest-Specific Protein 2 Domain
      PTZ00121
      Location:2857 → 3276
      PTZ00121; MAEBL; Provisional
      COG1196
      Location:825 → 1604
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd00176
      Location:2384 → 2589
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      TIGR02168
      Location:235 → 1025
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cl02488
      Location:1723 → 1934
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    7. NM_001348625.3 → NP_001335524.1  GAR domain-containing protein [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1N7SYN2
      Conserved Domains (6) summary
      smart00243
      Location:3227 → 3299
      GAS2; Growth-Arrest-Specific Protein 2 Domain
      PTZ00121
      Location:2743 → 3162
      PTZ00121; MAEBL; Provisional
      COG1196
      Location:711 → 1490
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd00176
      Location:2270 → 2475
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      TIGR02168
      Location:121 → 911
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cl02488
      Location:1609 → 1820
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    8. NM_001377640.3 → NP_001364629.1  Nesprin-1 [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5EEC3, G5EEC4
      Conserved Domains (7) summary
      smart00150
      Location:807 → 901
      SPEC; Spectrin repeats
      smart00250
      Location:1848 → 1885
      PLEC; Plectin repeat
      cd00176
      Location:903 → 1076
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam17902
      Location:1078 → 1142
      SH3_10; SH3 domain
      cd21188
      Location:308 → 412
      CH_PLEC-like_rpt1; first calponin homology (CH) domain found in the plectin/dystonin/MACF1 family
      cd21189
      Location:450 → 556
      CH_PLEC-like_rpt2; second calponin homology (CH) domain found in the plectin/dystonin/MACF1 family
      cl02488
      Location:1383 → 1611
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    9. NM_001377641.2 → NP_001364630.1  Nesprin-1 [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5EEC3, G5EFM4
      Conserved Domains (7) summary
      smart00150
      Location:684 → 778
      SPEC; Spectrin repeats
      smart00250
      Location:1725 → 1762
      PLEC; Plectin repeat
      cd00176
      Location:780 → 953
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam17902
      Location:955 → 1019
      SH3_10; SH3 domain
      cd21188
      Location:185 → 289
      CH_PLEC-like_rpt1; first calponin homology (CH) domain found in the plectin/dystonin/MACF1 family
      cd21189
      Location:327 → 433
      CH_PLEC-like_rpt2; second calponin homology (CH) domain found in the plectin/dystonin/MACF1 family
      cl02488
      Location:1260 → 1488
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    10. NM_001377643.4 → NP_001364644.1  Spectrin beta chain [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5ECG8, G5EEC3
      Conserved Domains (7) summary
      smart00150
      Location:424 → 518
      SPEC; Spectrin repeats
      smart00250
      Location:1465 → 1502
      PLEC; Plectin repeat
      cd00176
      Location:520 → 693
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam17902
      Location:695 → 759
      SH3_10; SH3 domain
      cd21188
      Location:38 → 142
      CH_PLEC-like_rpt1; first calponin homology (CH) domain found in the plectin/dystonin/MACF1 family
      cd21189
      Location:180 → 286
      CH_PLEC-like_rpt2; second calponin homology (CH) domain found in the plectin/dystonin/MACF1 family
      cl02488
      Location:1000 → 1228
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    11. NM_001377642.2 → NP_001364643.1  Spectrin beta chain [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5EEC3, G5EFW2
      Conserved Domains (6) summary
      smart00150
      Location:506 → 600
      SPEC; Spectrin repeats
      smart00250
      Location:1547 → 1584
      PLEC; Plectin repeat
      cd00176
      Location:602 → 775
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam17902
      Location:777 → 841
      SH3_10; SH3 domain
      cd21189
      Location:149 → 255
      CH_PLEC-like_rpt2; second calponin homology (CH) domain found in the plectin/dystonin/MACF1 family
      cl00030
      Location:38 → 118
      CH_SF; calponin homology (CH) domain superfamily
    12. NM_001377644.4 → NP_001364645.1  Spectrin beta chain [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5EEC3, G5EFK7
      Conserved Domains (7) summary
      smart00150
      Location:537 → 631
      SPEC; Spectrin repeats
      smart00250
      Location:1464 → 1501
      PLEC; Plectin repeat
      cd00176
      Location:633 → 806
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam17902
      Location:808 → 872
      SH3_10; SH3 domain
      cd21188
      Location:38 → 142
      CH_PLEC-like_rpt1; first calponin homology (CH) domain found in the plectin/dystonin/MACF1 family
      cd21189
      Location:180 → 286
      CH_PLEC-like_rpt2; second calponin homology (CH) domain found in the plectin/dystonin/MACF1 family
      cl02488
      Location:1113 → 1341
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    13. NM_001047256.5 → NP_001040721.1  Spectrin beta chain [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001040721.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5ECP9, G5EEC3
      Conserved Domains (6) summary
      smart00150
      Location:537 → 631
      SPEC; Spectrin repeats
      smart00250
      Location:1578 → 1615
      PLEC; Plectin repeat
      COG5069
      Location:40 → 300
      SAC6; Ca2+-binding actin-bundling protein fimbrin/plastin (EF-Hand superfamily) [Cytoskeleton]
      cd00176
      Location:633 → 806
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam00681
      Location:3295 → 3331
      Plectin; Plectin repeat
      pfam17902
      Location:808 → 872
      SH3_10; SH3 domain
    14. NM_001129093.3 → NP_001122565.1  Microtubule-actin cross-linking factor 1 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001122565.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5EFD1
      Conserved Domains (4) summary
      smart00150
      Location:664 → 758
      SPEC; Spectrin repeats
      cd00176
      Location:760 → 933
      SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
      pfam00307
      Location:307 → 413
      CH; Calponin homology (CH) domain
      pfam17902
      Location:935 → 999
      SH3_10; SH3 domain
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