Spondyloepimetaphyseal dysplasia with multiple dislocations

disease
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Also known as SEMD-MDSEMDJL2spondyloepimetaphyseal dysplasia with joint laxicity, Hall typespondyloepimetaphyseal dysplasia with JOINT laxity type 2spondyloepimetaphyseal dysplasia with joint laxity, leptodactylic typespondyloepimetaphyseal dysplasia with multiple dislocations Hall typespondyloepimetaphyseal dysplasia with multiple dislocations leptodactylic typespondyloepimetaphyseal dysplasia with multiple dislocations, Hall type

Summary

Spondyloepimetaphyseal dysplasia with multiple dislocations (MONDO:0011335) is a disease caused by KIF22 (GenCC Definitive), with 1 cohort gene.

At a glance

  • Prevalence: <1 / 1 000 000 (Europe)
  • Causal gene: KIF22 (GenCC Definitive)
  • Cohort genes: 1
  • ClinVar variants: 29
  • Phenotypes (HPO): 41

Clinical features

Epidemiology

Prevalence records

1 prevalence record(s), Orphanet:

TypeClassValueGeographyValidation
Point prevalence<1 / 1 000 000EuropeNot yet validated

Signs & symptoms

Clinical features (HPO)

41 HPO clinical features (Orphanet curated; top 41 by frequency):

HPO IDTermFrequency
HP:0001382Joint hypermobilityVery frequent (80-99%)
HP:0002652Skeletal dysplasiaVery frequent (80-99%)
HP:0002656Epiphyseal dysplasiaVery frequent (80-99%)
HP:0004322Short statureVery frequent (80-99%)
HP:0011800Midface retrusionVery frequent (80-99%)
HP:0000926PlatyspondylyFrequent (30-79%)
HP:0001238Slender fingerFrequent (30-79%)
HP:0001518Small for gestational ageFrequent (30-79%)
HP:0001602Laryngeal stenosisFrequent (30-79%)
HP:0001832Abnormal metatarsal morphologyFrequent (30-79%)
HP:0002651Spondyloepimetaphyseal dysplasiaFrequent (30-79%)
HP:0002663Delayed epiphyseal ossificationFrequent (30-79%)
HP:0002761Generalized joint laxityFrequent (30-79%)
HP:0002857Genu valgumFrequent (30-79%)
HP:0002970Genu varumFrequent (30-79%)
HP:0003025Metaphyseal irregularityFrequent (30-79%)
HP:0003088Premature osteoarthritisFrequent (30-79%)
HP:0006014Abnormally shaped carpal bonesFrequent (30-79%)
HP:0006236Slender metacarpalsFrequent (30-79%)
HP:0008755LaryngotracheomalaciaFrequent (30-79%)
HP:0008857Neonatal short-trunk short statureFrequent (30-79%)
HP:0009815Aplasia/hypoplasia of the extremitiesFrequent (30-79%)
HP:0010674Abnormality of the curvature of the vertebral columnFrequent (30-79%)
HP:0012095Multiple joint dislocationFrequent (30-79%)
HP:0012368Flat faceFrequent (30-79%)
HP:0031367Metaphyseal striationsFrequent (30-79%)
HP:0040064Abnormality of limbsFrequent (30-79%)
HP:0100168Fragmented epiphysesFrequent (30-79%)
HP:0000486StrabismusOccasional (5-29%)
HP:0001250SeizureOccasional (5-29%)
HP:0002650ScoliosisOccasional (5-29%)
HP:0002751KyphoscoliosisOccasional (5-29%)
HP:0002808KyphosisOccasional (5-29%)
HP:0002827Hip dislocationOccasional (5-29%)
HP:0002987Elbow flexion contractureOccasional (5-29%)
HP:0003048Radial head subluxationOccasional (5-29%)
HP:0003370Flat capital femoral epiphysisOccasional (5-29%)
HP:0004875Neonatal inspiratory stridorOccasional (5-29%)
HP:0005619Thoracolumbar kyphosisOccasional (5-29%)
HP:0006536Airway obstructionOccasional (5-29%)
HP:0030043Hip subluxationOccasional (5-29%)

Identifiers

Disease identifiers

FieldValue
Canonical namespondyloepimetaphyseal dysplasia with multiple dislocations
Mondo IDMONDO:0011335
MeSHC535784
OMIM603546
Orphanet93360
DOIDDOID:0112199
NCITC125419
SNOMED CT766820007
UMLSC1863732
MedGen350960
GARD0009866
Is cancer (heuristic)no

Also known as: SEMD-MD · SEMDJL2 · spondyloepimetaphyseal dysplasia with joint laxicity, Hall type · spondyloepimetaphyseal dysplasia with JOINT laxity type 2 · spondyloepimetaphyseal dysplasia with joint laxity type 2 · spondyloepimetaphyseal dysplasia with joint laxity, leptodactylic type · spondyloepimetaphyseal dysplasia with multiple dislocations Hall type · spondyloepimetaphyseal dysplasia with multiple dislocations leptodactylic type · spondyloepimetaphyseal dysplasia with multiple dislocations, Hall type

Data availability: 29 ClinVar variants · 5 GenCC gene-disease records · 1 cell line.

Disease family

Classification path: disease › human disease › disease by etiologic mechanism › disease of genetic or genomic mechanism › hereditary disease › autosomal genetic disease › autosomal dominant disease › spondyloepimetaphyseal dysplasia with multiple dislocations

Related subtypes (191): autosomal dominant polycystic liver disease, cerebral arteriopathy, autosomal dominant, with subcortical infarcts and leukoencephalopathy, type 1, tuberous sclerosis, Treacher-Collins syndrome, hereditary breast ovarian cancer syndrome, autosomal dominant polycystic kidney disease, Lynch syndrome, branchio-oto-renal syndrome, autosomal dominant Aarskog syndrome, acroosteolysis dominant type, ADULT syndrome, autosomal dominant Alport syndrome, amelogenesis imperfecta type 1B, Townes-Brocks syndrome, nevoid basal cell carcinoma syndrome, blepharophimosis, ptosis, and epicanthus inversus syndrome, autosomal dominant brachyolmia, branchiooculofacial syndrome, pheochromocytoma/paraganglioma syndrome 4, cataract-aberrant oral frenula-growth delay syndrome, cherubism, autosomal dominant chondrodysplasia punctata, autosomal dominant popliteal pterygium syndrome, blepharocheilodontic syndrome, cochleosaccular degeneration-cataract syndrome, renal coloboma syndrome, Beare-Stevenson cutis gyrata syndrome, autosomal dominant vibratory urticaria, neurohypophyseal diabetes insipidus, autosomal dominant Kenny-Caffey syndrome, Rapp-Hodgkin syndrome, Ehlers-Danlos syndrome, classic type, autosomal dominant Ehlers-Danlos syndrome, vascular type, multiple endocrine neoplasia type 1, Coffin-Siris syndrome 1, isolated congenital adermatoglyphia, Flynn-Aird syndrome, Frasier syndrome, hand-foot-genital syndrome, Holt-Oram syndrome, hyperkeratosis-hyperpigmentation syndrome, autosomal dominant ichthyosis vulgaris, hyper-IgE recurrent infection syndrome 1, autosomal dominant, autosomal dominant keratitis, autosomal dominant keratitis-ichthyosis-hearing loss syndrome, LADD syndrome, trichorhinophalangeal syndrome type II, Noonan syndrome with multiple lentigines, microcephaly with or without chorioretinopathy, lymphedema, or intellectual disability, Marfan syndrome, melanoma, cutaneous malignant, susceptibility to, 2, autosomal dominant primary microcephaly, autosomal dominant progressive external ophthalmoplegia, monilethrix, Muir-Torre syndrome, autosomal dominant myoglobinuria, autosomal dominant centronuclear myopathy, nail-patella syndrome, multiple endocrine neoplasia type 2B, autosomal dominant omodysplasia, pheochromocytoma/paraganglioma syndrome 1, Pelger-Huet anomaly, multiple endocrine neoplasia type 2A, piebaldism, autosomal dominant medullary cystic kidney disease with or without hyperuricemia, generalized juvenile polyposis/juvenile polyposis coli, juvenile polyposis/hereditary hemorrhagic telangiectasia syndrome, Peutz-Jeghers syndrome, contractures, pterygia, and spondylocarpotarsal fusion syndrome 1A, autosomal dominant distal renal tubular acidosis, retinoschisis, autosomal dominant, autosomal dominant Robinow syndrome, scapuloperoneal spinal muscular atrophy, autosomal dominant, autosomal dominant sideroblastic anemia, spondyloepiphyseal dysplasia tarda, autosomal dominant, proximal symphalangism, calcaneonavicular coalition, thanatophoric dysplasia type 1, trichorhinophalangeal syndrome type I, Muckle-Wells syndrome, autosomal dominant hypophosphatemic rickets, von Hippel-Lindau disease, Denys-Drash syndrome, autosomal dominant severe congenital neutropenia, Costello syndrome, EEC syndrome, multiple cutaneous and mucosal venous malformations, diffuse nonepidermolytic palmoplantar keratoderma, Timothy syndrome, pheochromocytoma/paraganglioma syndrome 2, Brooke-Spiegler syndrome, macrocephaly-autism syndrome, pheochromocytoma/paraganglioma syndrome 3, Duane-radial ray syndrome, PCWH syndrome, heart-hand syndrome, Slovenian type, congenital stationary night blindness autosomal dominant 3, mandibulofacial dysostosis-microcephaly syndrome, multiple endocrine neoplasia type 4, juvenile cataract-microcornea-renal glucosuria syndrome, Crouzon syndrome-acanthosis nigricans syndrome, Birk-Barel syndrome, thrombophilia due to protein S deficiency, autosomal dominant, dyskeratosis congenita, autosomal dominant 2, dyskeratosis congenita, autosomal dominant 3, colorectal cancer, hereditary nonpolyposis, type 6, colorectal cancer, hereditary nonpolyposis, type 7, brain small vessel disease 2A, autosomal dominant, intellectual disability, autosomal dominant 14, intellectual disability, autosomal dominant 15, intellectual disability, autosomal dominant 16, hypopigmentation-punctate palmoplantar keratoderma syndrome, intellectual disability-facial dysmorphism syndrome due to SETD5 haploinsufficiency, postaxial polydactyly-anterior pituitary anomalies-facial dysmorphism syndrome, intellectual developmental disorder with microcephaly and with or without ocular malformations or hypogonadotropic hypogonadism, intellectual disability, autosomal dominant 29, intellectual disability, autosomal dominant 30, Houge-Janssens syndrome 2, severe achondroplasia-developmental delay-acanthosis nigricans syndrome, dyskeratosis congenita, autosomal dominant 6, epidermolysis bullosa simplex 6, generalized, with scarring and hair loss, autosomal dominant complex spastic paraplegia, early-onset autosomal dominant Alzheimer disease, muscular dystrophy, limb-girdle, autosomal dominant, Feingold syndrome, Carney complex, neuronopathy, distal hereditary motor, autosomal dominant, autosomal dominant coarctation of aorta, autosomal dominant spondylocostal dysostosis, autosomal dominant hypohidrotic ectodermal dysplasia, Cowden disease, autosomal dominant distal myopathy, autosomal dominant rhegmatogenous retinal detachment, palmoplantar keratoderma-spastic paralysis syndrome, Alagille syndrome due to a JAG1 point mutation, PTEN hamartoma tumor syndrome, gastric adenocarcinoma and proximal polyposis of the stomach, autosomal dominant proximal renal tubular acidosis, autosomal dominant spastic ataxia, Waardenburg syndrome, hereditary retinoblastoma, autosomal dominant hypocalcemia, Li-Fraumeni syndrome, Loeys-Dietz syndrome, hereditary hemorrhagic telangiectasia, hereditary inclusion body myopathy-joint contractures-ophthalmoplegia syndrome, microcephalic osteodysplastic dysplasia, Saul-Wilson type, autosomal dominant intermediate Charcot-Marie-Tooth disease, autosomal dominant cutis laxa, autosomal dominant nonsyndromic hearing loss, autosomal dominant optic atrophy, autosomal dominant Emery-Dreifuss muscular dystrophy, autosomal dominant cerebellar ataxia, autosomal dominant osteopetrosis, autosomal dominant epidermolytic ichthyosis, ventricular arrhythmias due to cardiac ryanodine receptor calcium release deficiency syndrome, distal arthrogryposis type 2B1, neurofibromatosis, autosomal dominant cataract, arthrogryposis, distal, type 2B2, arthrogryposis, distal, type 2B3, Charcot-Marie-Tooth disease, demyelinating, type 1G, Delpire-McNeill syndrome, LAMA5-related multisystemic syndrome, autosomal dominant oculocutaneous albinism, Charcot-Marie-tooth disease, axonal, type 2DD, Pilarowski-Bjornsson syndrome, intellectual disability, autosomal dominant, fatty acyl-CoA reductase 1 upregulation, GUCY2D-related dominant retinopathy, RPE65-related dominant retinopathy, autosomal dominant titinopathy, NOG-related symphalangism spectrum disorder, ALPL-related autosomal dominant hypophosphatasia, MYH10-related neurodevelopmental disorder with congenital anomalies, spastic paraplegia 30A, autosomal dominant, TMEM127-related tumor predisposition, MAX-related tumor predisposition, BMPR1A-related juvenile polyposis syndrome, RP1-related dominant retinopathy, Birt-Hogg-Dube syndrome, inclusion body myopathy and brain white matter abnormalities, KINSSHIP syndrome, autosomal dominant nebulin-related myopathy, IMPG1-related dominant retinopathy, PROM1-related dominant retinopathy, PURA-related severe neonatal hypotonia-seizures-encephalopathy syndrome, ALG8-related autosomal dominant polycystic kidney and/or liver disease, NOTCH1-related AOS spectrum disorder, FLNB-associated autosomal dominant filamin related bone disorder, familial antiphospholipid syndrome

Genetics & variants

GWAS landscape

No GWAS associations recorded — common-variant (GWAS) studies don’t cover this disease (typical for Mendelian / rare diseases). See the curated gene cohort and Mendelian overlap below.

Variant details and genetic-evidence tiers

ClinVar germline variants

29 retrieved; paginated sample, class counts are floors:

16 uncertain significance, 3 likely pathogenic, 3 benign/likely benign, 2 benign, 2 pathogenic, 2 pathogenic/likely pathogenic, 1 conflicting classifications of pathogenicity

ClinVarVariant (HGVS)GeneClassificationReview
2575102NM_007317.3(KIF22):c.146G>A (p.Arg49Gln)KIF22Pathogeniccriteria provided, single submitter
30334NM_007317.3(KIF22):c.443C>T (p.Pro148Leu)KIF22Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
30335NM_007317.3(KIF22):c.446G>A (p.Arg149Gln)KIF22Pathogeniccriteria provided, multiple submitters, no conflicts
30336NM_007317.3(KIF22):c.446G>T (p.Arg149Leu)KIF22Pathogenic/Likely pathogeniccriteria provided, multiple submitters, no conflicts
1299611NM_007317.3(KIF22):c.752T>C (p.Leu251Pro)KIF22Likely pathogeniccriteria provided, single submitter
1685360NM_007317.3(KIF22):c.1399G>A (p.Glu467Lys)KIF22Likely pathogeniccriteria provided, single submitter
30333NM_007317.3(KIF22):c.442C>T (p.Pro148Ser)KIF22Likely pathogeniccriteria provided, single submitter
2330348NM_007317.3(KIF22):c.127C>T (p.Arg43Cys)KIF22Conflicting classifications of pathogenicitycriteria provided, conflicting classifications
1029156NM_007317.3(KIF22):c.502T>C (p.Trp168Arg)KIF22Uncertain significancecriteria provided, multiple submitters, no conflicts
1034376NM_007317.3(KIF22):c.1647C>G (p.His549Gln)KIF22Uncertain significancecriteria provided, multiple submitters, no conflicts
1034377NM_007317.3(KIF22):c.1818T>G (p.Ser606Arg)KIF22Uncertain significancecriteria provided, multiple submitters, no conflicts
1034378NM_007317.3(KIF22):c.8C>T (p.Ala3Val)KIF22Uncertain significancecriteria provided, multiple submitters, no conflicts
1474517NM_007317.3(KIF22):c.641C>A (p.Pro214His)KIF22Uncertain significancecriteria provided, multiple submitters, no conflicts
2498246NM_007317.3(KIF22):c.361G>A (p.Ala121Thr)KIF22Uncertain significancecriteria provided, single submitter
2582410NM_007317.3(KIF22):c.1898_1915del (p.Asp633_Glu638del)KIF22Uncertain significancecriteria provided, single submitter
2663884NM_007317.3(KIF22):c.392C>G (p.Ala131Gly)KIF22Uncertain significancecriteria provided, single submitter
2689309NM_007317.3(KIF22):c.1396C>T (p.Arg466Ter)KIF22Uncertain significancecriteria provided, single submitter
3362333NM_007317.3(KIF22):c.1807G>C (p.Asp603His)KIF22Uncertain significancecriteria provided, single submitter
3367134NM_007317.3(KIF22):c.1913A>C (p.Glu638Ala)KIF22Uncertain significancecriteria provided, single submitter
3891483NM_007317.3(KIF22):c.1835C>T (p.Pro612Leu)KIF22Uncertain significancecriteria provided, single submitter
520925NM_007317.3(KIF22):c.1387A>G (p.Thr463Ala)KIF22Uncertain significancecriteria provided, multiple submitters, no conflicts
547879NM_007317.3(KIF22):c.1424T>G (p.Val475Gly)KIF22Uncertain significancecriteria provided, single submitter
597025NM_007317.3(KIF22):c.1385G>A (p.Ser462Asn)KIF22Uncertain significancecriteria provided, multiple submitters, no conflicts
992442NM_007317.3(KIF22):c.1630C>G (p.Pro544Ala)KIF22Uncertain significanceno assertion criteria provided
1170585NM_007317.3(KIF22):c.1230C>T (p.Ile410=)KIF22Benigncriteria provided, multiple submitters, no conflicts
780181NM_007317.3(KIF22):c.1145-6A>GKIF22Benign/Likely benigncriteria provided, multiple submitters, no conflicts
784332NM_007317.3(KIF22):c.576G>C (p.Ser192=)KIF22Benign/Likely benigncriteria provided, multiple submitters, no conflicts
784333NM_007317.3(KIF22):c.1737G>A (p.Gln579=)KIF22Benign/Likely benigncriteria provided, multiple submitters, no conflicts
803248NM_007317.3(KIF22):c.1425G>A (p.Val475=)KIF22Benigncriteria provided, multiple submitters, no conflicts

Genes & proteins

Mendelian disease overlap and somatic drivers

GenCC: 5 · Orphanet: 1 · OMIM-shared: 0 · Dual-evidence (GWAS+Mendelian): 0

GenCC gene–disease validity (cohort genes)

the Disease column is the GenCC-asserted condition — a cohort gene’s strongest validity may be for a related predisposition syndrome.

GeneClassificationInheritanceDiseaseRecords
KIF22DefinitiveAutosomal dominantspondyloepimetaphyseal dysplasia with multiple dislocations5

Orphanet rare-disease linkage (cohort genes)

GeneOrphanet IDRare disease
KIF22Orphanet:93360Spondyloepimetaphyseal dysplasia with joint laxity, leptodactylic type

Cohort genes → proteins

1 cohort genes, 1 distinct canonical proteins.

Evidence partition

SubsetGenes
multi_evidence1

Cohort genes (full)

SymbolHGNCEnsemblUniProtNameEvidence
KIF22HGNC:6391ENSG00000079616Q14807Kinesin-like protein KIF22gencc,clinvar

Cohort function summary

Lead sentence per gene, UniProt-curated.

SymbolProtein nameFunction (lead sentence)
KIF22Kinesin-like protein KIF22Kinesin family member that is involved in spindle formation and the movements of chromosomes during mitosis and meiosis.

Protein-family classification

Druggable: 0 · Difficult: 0 · Unknown: 1 · Druggable fraction: 0.0

Family distribution

Cohort families vs a genome-wide background (hypergeometric, BH-FDR; fold = observed/expected). Counts kept; sorted by enrichment, so the catch-all Other/Unknown bucket no longer leads.

FamilyGenesFoldFDR
Other/Unknown11.8×0.558

Per-gene assignment

SymbolFamilyDruggable?ECInterPro (top 3)
KIF22Other/UnknownnoKinesin_motor_dom, Hlx-hairpin-Hlx_DNA-bd_motif, RuvA_2-like

Expression context

Cohort genes with no expression data: 0.

1 cohort gene are a single-cell marker in ≥1 SCXA experiment.

Breadth distribution (Bgee present_calls)

BucketGenes
narrow (1-5 tissues)0
moderate (6-20)0
broad (>20)1
unknown0

Top tissues across cohort

TissueCohort genes
ganglionic eminence1
right lobe of thyroid gland1
ventricular zone1

Per-gene tissue summary (top 30)

SymbolBgee breadthFANTOM5 breadthSCXATop tissues
KIF22242ubiquitousmarkerventricular zone, ganglionic eminence, right lobe of thyroid gland

Protein interactions among cohort

Intra-cohort edges: 0.

Hub genes (top 10 by interactor count)

SymbolInteractor count
KIF222,097

Structural data

PDB: 1 · AlphaFold-only: 0 · No structure: 0

Cohort genes with PDB structures (top 30)

SymbolUniProtPDB entries
KIF22Q148072

Function

Pathway analysis

Distinct Reactome pathways touched by cohort: 11. Enrichment computed across 1 evidence-associated genes (1 with Reactome annotation).

Pathways by enrichment

Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 1 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

PathwayCohort genesFoldFDRSample cohort genes
Kinesins1178.4×0.025KIF22
Golgi-to-ER retrograde transport1132.8×0.025KIF22
COPI-dependent Golgi-to-ER retrograde traffic1110.9×0.025KIF22
Intra-Golgi and retrograde Golgi-to-ER traffic1104.8×0.025KIF22
MHC class II antigen presentation189.2×0.025KIF22
Factors involved in megakaryocyte development and platelet production166.4×0.028KIF22
Membrane Trafficking137.1×0.035KIF22
Hemostasis136.0×0.035KIF22
Vesicle-mediated transport134.8×0.035KIF22
Adaptive Immune System129.8×0.037KIF22
Immune System113.0×0.077KIF22

GO biological processes by enrichment

Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 1 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

GO termCohort genesFoldFDRSample cohort genes
metaphase chromosome alignment11053.2×0.004KIF22
sister chromatid cohesion1766.0×0.004KIF22
mitotic metaphase chromosome alignment1383.0×0.005KIF22
microtubule-based movement1295.6×0.005KIF22
mitotic cell cycle1133.8×0.009KIF22
DNA repair163.8×0.016KIF22

Therapeutics

Drug target analysis

Approved (phase 4): 0 · Phase ≥3: 0 · Phased (≥1): 0 · Undrugged: 1

Druggability breadth: 1 of 1 evidence-associated genes (100%) have a ChEMBL target (buckets above are over the deeply-mined display cohort).

Top cohort targets by molecule count

SymbolMoleculesMax phase
KIF2200

Bioactivity and enzyme data

Enzyme cohort genes (≥1 EC): 0.

Cohort genes with ChEMBL bioactivity (full, sorted by assay count)

SymbolAssaysType breakdown
KIF224Binding:4

Pharmacogenomics

Cohort genes with a PharmGKB record: 1; with CPIC/DPWG dosing guidelines: 0.

No cohort gene has a CPIC/DPWG genotype-guided dosing guideline (PharmGKB).

Chemical tractability of cohort targets

0 approved/phased compounds have measured bioactivity against a cohort gene (and aren’t yet in disease-level trials). This is a research / tractability signal, NOT a therapeutic recommendation — a bioactivity row often reflects off-target or screening binding (e.g. promiscuous kinase inhibitors against a cohort kinase), implying no disease mechanism.

Druggability pyramid

Cohort genes binned by druggability tier (high → low):

TierDefinitionGenesSymbols
AApproved (phase 4 drug)0
BPhased (≥1) drug, not yet approved0
CDruggable family + PDB, no drug0
DDruggable family + AlphaFold only, no drug0
EDifficult family or no structure, no drug1KIF22

Undrugged target profiles

1 cohort genes are undrugged. Ranked by ‘starting-point quality’ (assay depth + drugged-partner adjacency).

SymbolChEMBL assaysDrugged partners (top 3)
KIF224

Clinical trials & evidence

Clinical trials

Clinical trials: 0.