CRYBB1

protein-coding

crystallin beta B1, the group of Beta-gamma crystallins

Gene summary

Crystallins are separated into two classes: taxon-specific, or enzyme, and ubiquitous. The latter class constitutes the major proteins of vertebrate eye lens and maintains the transparency and refractive index of the lens. Since lens central fiber cells lose their nuclei during development, these crystallins are made and then retained throughout life, making them extremely stable proteins. Mammalian lens crystallins are divided into alpha, beta, and gamma families; beta and gamma crystallins are also considered as a superfamily. Alpha and beta families are further divided into acidic and basic groups. Seven protein regions exist in crystallins: four homologous motifs, a connecting peptide, and N- and C-terminal extensions. Beta-crystallins, the most heterogeneous, differ by the presence of the C-terminal extension (present in the basic group, none in the acidic group). Beta-crystallins form aggregates of different sizes and are able to self-associate to form dimers or to form heterodimers with other beta-crystallins. This gene, a beta basic group member, undergoes extensive cleavage at its N-terminal extension during lens maturation. It is also a member of a gene cluster with beta-A4, beta-B2, and beta-B3. [provided by RefSeq, Jul 2008]

MANE transcript

NM_001887.4

Inheritance

AD, AR, SD

ClinVar variants

P:18U:73B:22

Top phenotype

Cataract 17, multiple types

gnomAD constraint

pLI —, LoF o/e 0.53

Max pathogenic AF

—

Genomic locus

chr22:26,599,278-26,618,027

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~18.7 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

cataract 17 multiple typesDEFINITIVE

Inheritance Pattern: AD

Disease ID:MONDO:0012688

Submitter: G2P

cataract 17 multiple typesSTRONG

Inheritance Pattern: AR

Disease ID:MONDO:0012688

Submitter: Labcorp Genetics (formerly Invitae)

cataract - microcornea syndromeSUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0015300

Submitter: Orphanet

pulverulent cataractSUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0011430

Submitter: Orphanet

cataract 17 multiple typesSTRONG

Inheritance Pattern: AD

Disease ID:MONDO:0012688

Submitter: Labcorp Genetics (formerly Invitae)

early-onset nuclear cataractSUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0020376

Submitter: Orphanet

cataract 17 multiple typesMODERATE

Inheritance Pattern: SD

Disease ID:MONDO:0012688

Submitter: Ambry Genetics

cataract 17 multiple typesSTRONG

Inheritance Pattern: AR

Disease ID:MONDO:0012688

Submitter: G2P

Clinical Genomic Database (CGD)

Cataract 17, multiple typesAD/AR

Manifestation: Ophthalmologic

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: 12360425; 17460281; 21972112Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to CRYBB1 variants in ClinVar

9 Conditions Cataloged
Cataract 17 multiple typesTotal: 62
Inborn genetic diseasesTotal: 42
not providedTotal: 22
CRYBB1-related disorderTotal: 20
not specifiedTotal: 7
Developmental cataractTotal: 2
Cataract 17Total: 1
Early-onset non-syndromic cataractTotal: 1

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_001887.4. 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
5
clinvar
14
clinvar
19
missense
1
clinvar
6
clinvar
63
clinvar
7
clinvar
1
clinvar
78
nonsense
2
clinvar
2
clinvar
2
clinvar
6
start loss
1
clinvar
1
frameshift
1
clinvar
4
clinvar
3
clinvar
8
splice donor/acceptor (+/-2bp)
1
clinvar
1
Total51373211113

Highest pathogenic variant AF is 0.000019830966

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 15 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_001887.4RefSeqNP_001878.15MANE Select
ENST00000647684.1EnsemblENSP00000497249.15MANE Select
ENST00000872124.1EnsemblENSP00000542183.15Standard
ENST00000872124.2EnsemblENSP00000542183.15Standard

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Biological Process

  • visual perception

Molecular Function

  • structural constituent of eye lens
  • protein binding

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000215939
Coding exons
5
Length
18811
Individuals with no LoFs
125716
Homozygous LoFs
0
Heterozygous LoFs
32
Defined
125748
p
0.000127
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense0.3511561690.9240.00001231632
Missense (PolyPhen)5157.2850.89029583
Synonymous-0.07276968.21.010.00000509514
Loss of Function1.58713.20.5308.53e-7120

Population LoF Frequency

PopulationCAFp-valueStatus
African0.000430.00043rare
Latino/Admixed American0.000140.00014rare
Ashkenazi Jewish00.0absent
East Asian0.000270.00027rare
Finnish0.0000930.000092rare
European (Non-Finnish)0.000110.00011rare
South Asian00.0absent
Other00.0absent

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Crystallins are the dominant structural components of the vertebrate eye lens.;
Disease
DISEASE: Cataract 17, multiple types (CTRCT17) [MIM:611544]: An opacification of the crystalline lens of the eye that frequently results in visual impairment or blindness. Opacities vary in morphology, are often confined to a portion of the lens, and may be static or progressive. In general, the more posteriorly located and dense an opacity, the greater the impact on visual function. CTRCT17 includes nuclear and pulverulent cataracts, among others. Nuclear cataracts affect the central nucleus of the eye, are often not highly visually significant. The density of the opacities varies greatly from fine dots to a dense, white and chalk-like, central cataract. The condition is usually bilateral. Nuclear cataracts are often combined with opacified cortical fibers encircling the nuclear opacity, which are referred to as cortical riders. Pulverulent cataracts are characterized by a dust-like, 'pulverised' appearance of the opacities which can be found in any part of the lens. {ECO:0000269|PubMed:12360425, ECO:0000269|PubMed:17460281, ECO:0000269|PubMed:23508780}. Note=The disease is caused by mutations affecting the gene represented in this entry.; DISEASE: Note=CRYBB1 mutations may be a cause of congenital cataract and microcornea syndrome, a disease characterized by the association of congenital cataract and microcornea without any other systemic anomaly or dysmorphism. Clinical findings include a corneal diameter inferior to 10 mm in both meridians in an otherwise normal eye, and an inherited cataract, which is most often bilateral posterior polar with opacification in the lens periphery. The cataract progresses to form a total cataract after visual maturity has been achieved, requiring cataract extraction in the first to third decade of life (PubMed:16110300 and PubMed:21972112). {ECO:0000305|PubMed:16110300, ECO:0000305|PubMed:21972112}.;

Recessive Scores

pRec
0.134

Intolerance Scores

LoFtool
0.713
RVIS EVS
-0.23
RVIS percentile EVS
37.32

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
N
Essential (gene trap)
N
Indispensability pred.
N
Indispensability score
0.314

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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