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

Summary

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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

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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_003279.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003279.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The plakin domain plays a central role in mechanotransduction and raise the possibility that VAB-10/plectin might act as a mechanosensor.
Title: The plakin domain of C. elegans VAB-10/plectin acts as a hub in a mechanotransduction pathway to promote morphogenesis.
EFF-1 enhanced the F-actin bundling activity of VAB-10A in vitro, and actin dynamics in the cortex were reduced in eff-1 or vab-10a mutants.
Title: Spectraplakin Induces Positive Feedback between Fusogens and the Actin Cytoskeleton to Promote Cell-Cell Fusion.
study identified the integrin-binding cytolinker plakin (VAB-10A) and integrin (INA-1/PAT-3) as key basement membrane (BM)-BM linkage regulators
Title: B-LINK: a hemicentin, plakin, and integrin-dependent adhesion system that links tissues by connecting adjacent basement membranes.
VAB-10B1/spectraplakin regulates the polarized alignment of microtubule(MTs), possibly by linking F-actin and MTs, which enables normal nuclear translocation and cell migration of distal tip cells.
Title: VAB-10 spectraplakin acts in cell and nuclear migration in Caenorhabditis elegans.
Here, we report the identification of new mutations in a gene known as vab-10, which lead to severe morphogenesis defects, and show that vab-10 corresponds to the C. elegans spectraplakin locus.
Title: The Caenorhabditis elegans vab-10 spectraplakin isoforms protect the epidermis against internal and external forces.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

ZK1151.3 (e-PCR)
- UniSTS:308256

ZK1151.1 (e-PCR)
- UniSTS:311653

ZK1151.2 (e-PCR)
- UniSTS:310421

F53B8.1 (e-PCR)
- UniSTS:307691

STS1-16 (e-PCR)
- UniSTS:241647

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables actin binding	IEA Inferred from Electronic Annotation more info
enables actin filament binding	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables microtubule binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables structural molecule activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cytoplasmic microtubule organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in epidermis morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intermediate filament cytoskeleton organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in intermediate filament cytoskeleton organization	IEA Inferred from Electronic Annotation more info
involved_in wound healing	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in apical plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in basal plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in cell projection	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
is_active_in hemidesmosome	IBA Inferred from Biological aspect of Ancestor more info
located_in hemidesmosome	IDA Inferred from Direct Assay more info	PubMed
colocalizes_with intermediate filament	IBA Inferred from Biological aspect of Ancestor more info
located_in intracellular organelle	IDA Inferred from Direct Assay more info	PubMed
is_active_in membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in microtubule	IEA Inferred from Electronic Annotation more info

General protein information

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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)

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Genome Annotation

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

Reference assembly

Genomic

NC_003279.8 Reference assembly

Range

11747424..11804991 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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; ...
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
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
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
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; ...
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; ...
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; ...
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; ...
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; ...
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
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; ...
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
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