MYBPC1

protein-coding

myosin binding protein C1, the group of I-set domain containing|Myosin binding proteins

Gene summary

This gene encodes a member of the myosin-binding protein C family. Myosin-binding protein C family members are myosin-associated proteins found in the cross-bridge-bearing zone (C region) of A bands in striated muscle. The encoded protein is the slow skeletal muscle isoform of myosin-binding protein C and plays an important role in muscle contraction by recruiting muscle-type creatine kinase to myosin filaments. Mutations in this gene are associated with distal arthrogryposis type I. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Dec 2011]

MANE transcript

NM_002465.4

Inheritance

AR, AD

ClinVar variants

P:18U:213B:61

Top phenotype

Arthrogryposis, distal, type 1B; Congenital myopathy 16; Lethal congenital contractural syndrome 4

gnomAD constraint

pLI —, LoF o/e 0.32

Max pathogenic AF

—

Genomic locus

chr12:101,568,353-101,686,028

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~117.7 kb
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GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

lethal congenital contracture syndrome 4LIMITED

Inheritance Pattern: AR

Disease ID:MONDO:0013965

Submitter: Ambry Genetics

arthrogryposis, distal, type 1BSTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0013698

Submitter: Labcorp Genetics (formerly Invitae)

lethal congenital contracture syndrome 3SUPPORTIVE

Inheritance Pattern: AR

Disease ID:MONDO:0012656

Submitter: Orphanet

myopathy, congenital, with tremorSTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0032797

Submitter: Labcorp Genetics (formerly Invitae)

myopathy, congenital, with tremorMODERATE

Inheritance Pattern: AD

Disease ID:MONDO:0032797

Submitter: Ambry Genetics

arthrogryposis, distal, type 1BMODERATE

Inheritance Pattern: AD

Disease ID:MONDO:0013698

Submitter: Ambry Genetics

lethal congenital contracture syndrome 4STRONG

Inheritance Pattern: AR

Disease ID:MONDO:0013965

Submitter: Labcorp Genetics (formerly Invitae)

lethal congenital contracture syndrome 4STRONG

Inheritance Pattern: AR

Disease ID:MONDO:0013965

Submitter: G2P

arthrogryposisSTRONG

Inheritance Pattern: AR

Disease ID:MONDO:0008779

Submitter: PanelApp Australia

myopathySTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0005336

Submitter: PanelApp Australia

digitotalar dysmorphismSUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0015240

Submitter: Orphanet

Clinical Genomic Database (CGD)

Arthrogryposis, distal, type 1B; Congenital myopathy 16; Lethal congenital contractural syndrome 4AD/AR

Manifestation: Musculoskeletal

Intervention: General

Rationale: Genetic knowledge may be beneficial related to issues such as selection of optimal supportive care, informed medical decision-making, prognostic considerations, and avoidance of unnecessary testing

Refs: 20045868; 22610851; 31025394; 31264822Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to MYBPC1 variants in ClinVar

11 Conditions Cataloged
not providedTotal: 195
Inborn genetic diseasesTotal: 140
Arthrogryposis, distal, type 1BTotal: 62
not specifiedTotal: 38
MYBPC1-related disorderTotal: 27
Myopathy, congenital, with tremorTotal: 23
Lethal congenital contracture syndrome 4Total: 16
MYBPC1-related autosomal recessive non-lethal arthrogryposis multiplex congenita syndromeTotal: 1

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_002465.4. Only rare variants are included.

We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.

Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.

EffectPLPVUSLBBSum
synonymous
4
clinvar
28
clinvar
5
clinvar
37
missense
5
clinvar
7
clinvar
199
clinvar
26
clinvar
2
clinvar
239
nonsense
2
clinvar
1
clinvar
3
start loss
0
frameshift
3
clinvar
3
clinvar
6
splice donor/acceptor (+/-2bp)
1
clinvar
6
clinvar
7
Total513213547292

Highest pathogenic variant AF is 0.0000065690074

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 140 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_002465.4RefSeqNP_002456.231MANE Select
ENST00000361466.7EnsemblENSP00000354849.231MANE Select
NM_001254718.3RefSeqNP_001241647.130Standard
NM_001254719.3RefSeqNP_001241648.129Standard

Model Organisms & Knockout Phenotypes

Observed phenotypic effects in mouse and zebrafish models

Gene / ModelOrganismObserved Phenotype
mybpc1Danio rerio

Structure: slow muscle cell

Quality: has fewer parts of type

abnormal

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • Striated Muscle Contraction
  • Striated Muscle Contraction
  • Muscle contraction

Biological Process

  • muscle contraction
  • cell adhesion
  • muscle filament sliding
  • skeletal muscle thin filament assembly
  • skeletal muscle myosin thick filament assembly

Molecular Function

  • protein binding
  • structural constituent of muscle
  • titin binding
  • actin filament binding
  • muscle alpha-actinin binding

Cellular Component

  • cytosol
  • striated muscle thin filament
  • myofibril
  • sarcomere
  • Z disc

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000452455
Coding exons
30
Length
117666
Individuals with no LoFs
125717
Homozygous LoFs
0
Heterozygous LoFs
31
Defined
125748
p
0.000123
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense1.025566280.8850.00003267758
Missense (PolyPhen)245306.410.799573751
Synonymous-0.4772222131.040.00001122188
Loss of Function5.032063.20.3170.00000296809

Population LoF Frequency

PopulationCAFp-valueStatus
African00.0absent
Latino/Admixed American0.000120.00012rare
Ashkenazi Jewish00.0absent
East Asian0.0000540.000054rare
Finnish00.0absent
European (Non-Finnish)0.000140.00014rare
South Asian0.000260.00026rare
Other0.000330.00033rare

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Thick filament-associated protein located in the crossbridge region of vertebrate striated muscle a bands. In vitro it binds MHC, F-actin and native thin filaments, and modifies the activity of actin-activated myosin ATPase. It may modulate muscle contraction or may play a more structural role.;
Disease
DISEASE: Arthrogryposis, distal, 1B (DA1B) [MIM:614335]: A form of distal arthrogryposis, a disease characterized by congenital joint contractures that mainly involve two or more distal parts of the limbs, in the absence of a primary neurological or muscle disease. Distal arthrogryposis type 1 is characterized largely by camptodactyly and clubfoot. Hypoplasia and/or absence of some interphalangeal creases is common. The shoulders and hips are less frequently affected. {ECO:0000269|PubMed:20045868, ECO:0000269|PubMed:26661508}. Note=The disease is caused by mutations affecting the gene represented in this entry.; DISEASE: Lethal congenital contracture syndrome 4 (LCCS4) [MIM:614915]: A form of lethal congenital contracture syndrome, an autosomal recessive disorder characterized by degeneration of anterior horn neurons, extreme skeletal muscle atrophy and congenital non-progressive joint contractures. The contractures can involve the upper or lower limbs and/or the vertebral column, leading to various degrees of flexion or extension limitations evident at birth. {ECO:0000269|PubMed:22610851}. Note=The disease is caused by mutations affecting the gene represented in this entry.;

Recessive Scores

pRec
0.208

Intolerance Scores

LoFtool
0.645
RVIS EVS
-1.17
RVIS percentile EVS
6.03

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
N
Essential (gene trap)
N
Indispensability pred.
N
Indispensability score
0.487

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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