NM_000546.6(TP53):c.529_546del (p.Pro177_Cys182del)
criteria provided, conflicting classifications. Learn more about how ClinVar calculates review status.
Pathogenic (1); Likely pathogenic (2); Uncertain significance (1)
The aggregate germline classification for this variant, typically for a monogenic or Mendelian disorder as in the ACMG/AMP guidelines, or for response to a drug. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the aggregate classification.
criteria provided, single submitter. Learn more about how ClinVar calculates review status.
The aggregate somatic clinical impact for this variant for one or more tumor types, using the AMP/ASCO/CAP terminology. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the aggregate classification.
criteria provided, single submitter. Learn more about how ClinVar calculates review status.
The aggregate oncogenicity classification for this variant for one or more tumor types, using the ClinGen/CGC/VICC terminology. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the aggregate classification.
Variant Details
- Identifiers
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NM_000546.6(TP53):c.529_546del (p.Pro177_Cys182del)
Variation ID: 840834 Accession: VCV000840834.16
- Type and length
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Deletion, 18 bp
- Location
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Cytogenetic: 17p13.1 17: 7675066-7675083 (GRCh38) [ NCBI UCSC ] 17: 7578384-7578401 (GRCh37) [ NCBI UCSC ]
- Timeline in ClinVar
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First in ClinVar Help The date this variant first appeared in ClinVar with each type of classification.
Last submission Help The date of the most recent submission for each type of classification for this variant.
Last evaluated Help The most recent date that a submitter evaluated this variant for each type of classification.
Germline Apr 15, 2020 Feb 15, 2026 Mar 11, 2025 Somatic - Clinical impact Nov 22, 2025 Nov 22, 2025 Apr 11, 2024 Somatic - Oncogenicity Aug 11, 2024 Mar 11, 2025 Mar 4, 2025 - HGVS
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... more HGVS ... less HGVSNucleotide Protein Molecular
consequenceNM_000546.6:c.529_546del MANE Select Help Transcripts from the Matched Annotation from the NCBI and EMBL-EBI (MANE) collaboration.
NP_000537.3:p.Pro177_Cys182del inframe deletion NM_000546.4:c.529_546delCCCCACCATGAGCGCTGC NM_001126112.3:c.529_546del NP_001119584.1:p.Pro177_Cys182del inframe deletion NM_001126113.3:c.529_546del NP_001119585.1:p.Pro177_Cys182del inframe deletion NM_001126114.3:c.529_546del NP_001119586.1:p.Pro177_Cys182del inframe deletion NM_001126115.2:c.133_150del NP_001119587.1:p.Pro45_Cys50del inframe deletion NM_001126116.2:c.133_150del NP_001119588.1:p.Pro45_Cys50del inframe deletion NM_001126117.2:c.133_150del NP_001119589.1:p.Pro45_Cys50del inframe deletion NM_001126118.2:c.412_429del NP_001119590.1:p.Pro138_Cys143del inframe deletion NM_001276695.3:c.412_429del NP_001263624.1:p.Pro138_Cys143del inframe deletion NM_001276696.3:c.412_429del NP_001263625.1:p.Pro138_Cys143del inframe deletion NM_001276697.3:c.52_69del NP_001263626.1:p.Pro18_Cys23del inframe deletion NM_001276698.3:c.52_69del NP_001263627.1:p.Pro18_Cys23del inframe deletion NM_001276699.3:c.52_69del NP_001263628.1:p.Pro18_Cys23del inframe deletion NM_001276760.3:c.412_429del NP_001263689.1:p.Pro138_Cys143del inframe deletion NM_001276761.3:c.412_429del NP_001263690.1:p.Pro138_Cys143del inframe deletion NC_000017.11:g.7675073_7675090del NC_000017.10:g.7578391_7578408del NG_017013.2:g.17468_17485del LRG_321:g.17468_17485del LRG_321t1:c.529_546del - Protein change
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- Other names
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- Canonical SPDI
- NC_000017.11:7675065:GCAGCGCTCATGGTGGGGGCAGCGC:GCAGCGC
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Global minor allele
frequency (GMAF) HelpThe global minor allele frequency calculated by the 1000 Genomes Project. The minor allele at this location is indicated in parentheses and may be different from the allele represented by this VCV record.
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Allele frequency
Help
The frequency of the allele represented by this VCV record.
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- Links
Genes
| Gene | OMIM | ClinGen Gene Dosage Sensitivity Curation |
Variation Viewer
Help
Links to Variation Viewer, a genome browser to view variation data from NCBI databases. |
Related variants | ||
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| HI score
Help
The haploinsufficiency score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team. |
TS score
Help
The triplosensitivity score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team. |
Within gene
Help
The number of variants in ClinVar that are contained within this gene, with a link to view the list of variants. |
All
Help
The number of variants in ClinVar for this gene, including smaller variants within the gene and larger CNVs that overlap or fully contain the gene. |
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| TP53 | Sufficient evidence for dosage pathogenicity | No evidence available |
GRCh38 GRCh37 |
3915 | 4016 | |
Conditions - Germline
| Condition
Help
The condition for this variant-condition (RCV) record in ClinVar. |
Classification
Help
The aggregate germline classification for this variant-condition (RCV) record in ClinVar. The number of submissions that contribute to this aggregate classification is shown in parentheses. (# of submissions) |
Review status
Help
The aggregate review status for this variant-condition (RCV) record in ClinVar. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status. |
Last evaluated
Help
The most recent date that a submitter evaluated this variant for the condition. |
Variation/condition record
Help
The RCV accession number, with most recent version number, for the variant-condition record, with a link to the RCV web page. |
|---|---|---|---|---|
| Pathogenic (1) |
criteria provided, single submitter
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Nov 19, 2024 | RCV001042929.10 | |
| Likely pathogenic (1) |
criteria provided, single submitter
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Dec 9, 2024 | RCV003160297.3 | |
| Likely pathogenic (1) |
criteria provided, single submitter
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Feb 14, 2024 | RCV004031305.1 | |
| Uncertain significance (1) |
criteria provided, single submitter
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Mar 11, 2025 | RCV005251243.1 |
Submissions - Germline
| Classification
Help
The submitted germline classification for each SCV record. (Last evaluated) |
Review status
Help
Stars represent the review status, or the level of review supporting the submitted (SCV) record. This value is calculated by NCBI based on data from the submitter. Read our rules for calculating the review status. This column also includes a link to the submitter’s assertion criteria if provided, and the collection method. (Assertion criteria) |
Condition
Help
The condition for the classification, provided by the submitter for this submitted (SCV) record. This column also includes the affected status and allele origin of individuals observed with this variant. |
Submitter
Help
The submitting organization for this submitted (SCV) record. This column also includes the SCV accession and version number, the date this SCV first appeared in ClinVar, and the date that this SCV was last updated in ClinVar. |
Expand all rows
Collapse all rows
Help
This column includes more information supporting the classification, including citations, the comment on classification, and detailed evidence provided as observations of the variant by the submitter. |
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Likely pathogenic
(Dec 09, 2024)
C
Contributing to aggregate classification
|
criteria provided, single submitter
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Hereditary cancer-predisposing syndrome |
Ambry Genetics
Accession: SCV003856778.3
First in ClinVar: Apr 15, 2023 Last updated: Jan 13, 2025 |
Comment:
show
The c.529_546del18 variant (also known as p.P177_C182del) is located in coding exon 4 of the TP53 gene. This variant results from an in-frame deletion of 18 nucleotides (CCCCACCATGAGCGCTGC) at nucleotide positions 529 to 546. This results in the in-frame deletion of 6 amino acids (PHHERC) at codons 177 to 182. Other variants impacting this region, p.P177R, p.H179Q, p.H179Y, p.E180K have been identified in individuals with features consistent with Li-Fraumeni syndrome (Ambry internal data). This alteration was detected in a cohort of 2538 Chinese breast cancer patients who tested negative for BRCA1/2 mutations (Kwong A et al. BMC Cancer, 2020 Nov;20:1053), as well as in a cohort of 1876 well-defined familial HBOC index patients from Germany who were tested negative for a germline BRCA1/2 mutations (Grill S et al. Arch Gynecol Obstet, 2021 Jun;303:1557-1567). These amino acid positions are generally well conserved in available vertebrate species. In addition, this alteration is predicted to be deleterious by in silico analysis (Choi Y et al. PLoS ONE. 2012; 7(10):e46688). Based on the majority of available evidence to date, this variant is likely to be pathogenic. (less)
Observation: 1
Collection method: clinical testing
Allele origin: germline
Affected status: unknown
Observation 1
Collection method: clinical testing
Allele origin: germline
Affected status: unknown
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Pathogenic
(Nov 19, 2024)
C
Contributing to aggregate classification
|
criteria provided, single submitter
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Li-Fraumeni syndrome |
Labcorp Genetics (formerly Invitae), Labcorp
Accession: SCV001206638.7
First in ClinVar: Apr 15, 2020 Last updated: Feb 15, 2026 |
Comment:
show
This variant, c.529_546del, results in the deletion of 6 amino acid(s) of the TP53 protein (p.Pro177_Cys182del), but otherwise preserves the integrity of the reading frame. This variant is not present in population databases (gnomAD no frequency). This variant has been observed in individual(s) with clinical features of TP53-related conditions (PMID: 29489754, 33138793, 33245408). ClinVar contains an entry for this variant (Variation ID: 840834). This variant disrupts a region of the TP53 protein in which other variant(s) (p.Pro177Arg) have been determined to be pathogenic (PMID: 12826609, 20421238, 26787237, 27501770, 27873457, 30224644; internal data). This suggests that this is a clinically significant region of the protein, and that variants that disrupt it are likely to be disease-causing. For these reasons, this variant has been classified as Pathogenic. (less)
Observation: 1
Collection method: clinical testing
Allele origin: germline
Affected status: unknown
Observation 1
Collection method: clinical testing
Allele origin: germline
Affected status: unknown
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Likely pathogenic
(Feb 14, 2024)
C
Contributing to aggregate classification
|
criteria provided, single submitter
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Li-Fraumeni syndrome 1 |
Myriad Genetics, Inc.
Accession: SCV004933252.1
First in ClinVar: May 01, 2024 Last updated: May 01, 2024 |
Comment:
show
This variant is considered likely pathogenic. This variant is expected to disrupt protein structure [Myriad internal data]. Functional studies indicate this variant impacts protein function [PMID: 8336941, 12509279, 17530187]. This variant has been reported in multiple individuals with clinical features of gene-specific disease [PMID: 16633321, 21590121]. (less)
Observation: 1
Collection method: clinical testing
Allele origin: unknown
Affected status: unknown
Observation 1
Collection method: clinical testing
Allele origin: unknown
Affected status: unknown
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Uncertain significance
(Mar 11, 2025)
C
Contributing to aggregate classification
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criteria provided, single submitter
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Hereditary breast ovarian cancer syndrome |
German Consortium for Hereditary Breast and Ovarian Cancer, University Hospital Cologne
Accession: SCV005903104.1
First in ClinVar: Apr 07, 2025 Last updated: Apr 07, 2025 |
Comment:
show
According to the ClinGen ACMG TP53 v1.4.0 criteria we chose these criteria: PS2 (medium pathogenic): Kwong (2020, PMID: 33138793): Confirmed Germline de novo with VAF = 33.1%; Breast cancer with Age of Dx of 30 --> 2P, PS4 (supporting pathogenic): 2 x LFS1 Fälle (Lefrou L et al 2006, Ayan I et al 1997), 1 de novo; weitere Daten fehlen, PM1 (medium pathogenic): 10x in cancer hotspots, PM2 (supporting pathogenic): absent from gnomAD v4/3/2, PP3 (supporting pathogenic): BayesDel: 0,6431 (less)
Observation: 1
Collection method: curation
Allele origin: germline
Affected status: not provided
Observation 1
Collection method: curation
Allele origin: germline
Affected status: not provided
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Citations for germline classification of this variant
Help| Title | Author | Journal | Year | Link |
|---|---|---|---|---|
| TP53 germline mutations in the context of families with hereditary breast and ovarian cancer: a clinical challenge. | Grill S | Archives of gynecology and obstetrics | 2021 | PMID: 33245408 |
| Mutation screening of germline TP53 mutations in high-risk Chinese breast cancer patients. | Kwong A | BMC cancer | 2020 | PMID: 33138793 |
| Mutational processes shape the landscape of TP53 mutations in human cancer. | Giacomelli AO | Nature genetics | 2018 | PMID: 30224644 |
| The landscape of genomic alterations across childhood cancers. | Gröbner SN | Nature | 2018 | PMID: 29489754 |
| Using yeast to determine the functional consequences of mutations in the human p53 tumor suppressor gene: An introductory course-based undergraduate research experience in molecular and cell biology. | Hekmat-Scafe DS | Biochemistry and molecular biology education : a bimonthly publication of the International Union of Biochemistry and Molecular Biology | 2017 | PMID: 27873457 |
| Biochemical and imaging surveillance in germline TP53 mutation carriers with Li-Fraumeni syndrome: 11 year follow-up of a prospective observational study. | Villani A | The Lancet. Oncology | 2016 | PMID: 27501770 |
| Incidental germline variants in 1000 advanced cancers on a prospective somatic genomic profiling protocol. | Meric-Bernstam F | Annals of oncology : official journal of the European Society for Medical Oncology | 2016 | PMID: 26787237 |
| Novel germ line mutation p53-P177R in adult adrenocortical carcinoma producing neuron-specific enolase as a possible marker. | Ide H | Japanese journal of clinical oncology | 2010 | PMID: 20421238 |
| The over-expression of p53 H179Y residue mutation causes the increase of cyclin A1 and Cdk4 expression in HELF cells. | Yang D | Molecular and cellular biochemistry | 2007 | PMID: 17530187 |
| [Germline tp53 neomutation in a patient with Li-Fraumeni syndrome and pancreatic adenocarcinoma]. | Lefrou L | Gastroenterologie clinique et biologique | 2006 | PMID: 16633321 |
| Understanding the function-structure and function-mutation relationships of p53 tumor suppressor protein by high-resolution missense mutation analysis. | Kato S | Proceedings of the National Academy of Sciences of the United States of America | 2003 | PMID: 12826609 |
| A novel p53 mutant retained functional activity in lung carcinomas. | Ko JL | DNA repair | 2002 | PMID: 12509279 |
| De novo germline mutations of the p53 gene in young children with sarcomas. | Ayan I | Oncology reports | 1997 | PMID: 21590121 |
| Heterogeneity of transcriptional activity of mutant p53 proteins and p53 DNA target sequences. | Chen JY | Oncogene | 1993 | PMID: 8336941 |
| click to load more citations click to collapse | ||||
Conditions - Somatic
| Tumor type
Help
The tumor type for this variant-condition (RCV) record in ClinVar. |
Clinical impact (# of submissions)
Help
The aggregate somatic clinical impact for this variant-condition (RCV) record in ClinVar. The number of submissions that contribute to the aggregate somatic clinical impact is shown in parentheses. The corresponding review status for the RCV record is indicated by stars. Read our rules for calculating the review status. |
Oncogenicity
Help
The aggregate oncogenicity classification for this variant-condition (RCV) record in ClinVar. The number of submissions that contribute to the aggregate oncogenicity classification is shown in parentheses. The corresponding review status for the RCV record is indicated by stars. Read our rules for calculating the review status. |
Last evaluated
Help
The most recent date that a submitter evaluated this variant for the tumor type. |
Variation/condition record
Help
The most recent date that a submitter evaluated this variant for the tumor type. |
|---|---|---|---|---|
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Likely oncogenic
criteria provided, single submitter
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Mar 4, 2025 | RCV004671187.2 | ||
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Tier I (Strong)
- diagnostic
- supports diagnosis
(1)
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Apr 11, 2024 | RCV006254190.1 |
Submissions - Somatic
|
Clinical impact
Help
The submitted somatic clinical impact for each SCV record. (Last evaluated) |
Review Status
Help
Stars represent the review status, or the level of review supporting the submitted (SCV) record. This value is calculated by NCBI based on data from the submitter. Read our rules for calculating the review status. This column also includes a link to the submitter’s assertion criteria if provided, and the collection method. (Assertion criteria) |
Tumor type
Help
The tumor type for the classification, provided by the submitter for this submitted (SCV) record. This column also includes the affected status and allele origin of individuals observed with this variant. |
Submitter
Help
The submitting organization for this submitted (SCV) record. This column also includes the SCV accession and version number, the date this SCV first appeared in ClinVar, and the date that this SCV was last updated in ClinVar. |
Expand all rows
Help
This column includes more information supporting the somatic clinical impact, including citations, the comment on classification, and detailed evidence provided as observations of the variant by the submitter. |
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Tier I (Strong)
- Diagnostic
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supports diagnosis (Apr 11, 2024)
C
Contributing to aggregate classification
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criteria provided, single submitter
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Astrocytoma IDH-mutant |
Institute for Genomic Medicine (IGM) Clinical Laboratory, Nationwide Children's Hospital
Accession: SCV007105161.1
First In ClinVar: Nov 22, 2025 Last updated: Nov 22, 2025 |
Comment:
show
Variant has Tier I (strong) clinical significance as a diagnostic inclusion criterion in Astrocytoma IDH-mutant, based on the following evidence: 1) Documented in one or more cancer databases (e.g., St. Jude Pecan, COSMIC, CIViC, OncoKB). 2) Appears in one or more well-established professional guidelines (e.g., World Health Organization [WHO]; National Comprehensive Cancer Network [NCCN]) as providing diagnostic, prognostic, or therapeutic information. 3) Information in the literature supports potential biologic effect of variant (PMIDs: 11900253, 8023157). 4) Diagnostic for a specific tumor type/classification according to professional guidelines (Evidence Level A; PMIDs: 33772213, 24140581, 21971842, 33692446, 30326163). (less)
Observation: 1
Collection method: clinical testing
Allele origin: somatic
Affected status: yes
Observation 1
Collection method: clinical testing
Allele origin: somatic
Affected status: yes
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Oncogenicity
Help
The submitted oncogenicity classification for each SCV record. (Last evaluated) |
Review Status
Help
Stars represent the review status, or the level of review supporting the submitted (SCV) record. This value is calculated by NCBI based on data from the submitter. Read our rules for calculating the review status. This column also includes a link to the submitter’s assertion criteria if provided, and the collection method. (Assertion criteria) |
Tumor type
Help
The tumor type for the classification, provided by the submitter for this submitted (SCV) record. This column also includes the affected status and allele origin of individuals observed with this variant. |
Submitter
Help
The submitting organization for this submitted (SCV) record. This column also includes the SCV accession and version number, the date this SCV first appeared in ClinVar, and the date that this SCV was last updated in ClinVar. |
Expand all rows
Help
This column includes more information supporting the somatic clinical impact, including citations, the comment on classification, and detailed evidence provided as observations of the variant by the submitter. |
|---|
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Likely oncogenic
(Mar 04, 2025)
C
Contributing to aggregate classification
|
criteria provided, single submitter
|
Neoplasm |
Center for Genomic Medicine, Rigshospitalet, Copenhagen University Hospital
Accession: SCV005094437.2
First In ClinVar: Aug 11, 2024 Last updated: Mar 11, 2025 |
Observation: 1
Collection method: clinical testing
Allele origin: somatic
Affected status: yes
Observation 1
Collection method: clinical testing
Allele origin: somatic
Affected status: yes
|
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Citations for somatic classification of this variant
Help| Title | Author | Journal | Year | Link |
|---|---|---|---|---|
| IDH-mutant gliomas with additional class-defining molecular events. | Ahrendsen JT | Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc | 2021 | PMID: 33772213 |
| Molecular landscape of IDH-mutant primary astrocytoma Grade IV/glioblastomas. | Wong QH | Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc | 2021 | PMID: 33692446 |
| Integrated molecular characterization of IDH-mutant glioblastomas. | Korshunov A | Neuropathology and applied neurobiology | 2019 | PMID: 30326163 |
| The genetic landscape of anaplastic astrocytoma. | Killela PJ | Oncotarget | 2014 | PMID: 24140581 |
| IDH1/2 gene status defines the prognosis and molecular profiles in patients with grade III gliomas. | Shibahara I | International journal of clinical oncology | 2012 | PMID: 21971842 |
| Rescuing the function of mutant p53. | Bullock AN | Nature reviews. Cancer | 2001 | PMID: 11900253 |
| Crystal structure of a p53 tumor suppressor-DNA complex: understanding tumorigenic mutations. | Cho Y | Science (New York, N.Y.) | 1994 | PMID: 8023157 |
Text-mined citations for rs2073361326 ...
HelpRecord last updated Apr 13, 2026
This date represents the last time this VCV record was updated. The update may be due to an update to one of the included submitted records (SCVs), or due to an update that ClinVar made to the variant such as adding HGVS expressions or a rs number. So this date may be different from the date of the “most recent submission” reported at the top of this page.
