1
|
Choudhary RK, Siddiqui MQ, Gadewal N, Kumar NS, Kuligina ES, Varma AK. Biophysical evaluation to categorize pathogenicity of cancer-predisposing mutations identified in the BARD1 BRCT domain. RSC Adv 2018; 8:34056-34068. [PMID: 35548793 PMCID: PMC9086705 DOI: 10.1039/c8ra06524a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2018] [Accepted: 09/17/2018] [Indexed: 11/21/2022] Open
Abstract
The BRCT domain of BARD1 (BARD1 BRCT) is involved in many cellular processes such as DNA damage repair (DDR) and cell-cycle checkpoint regulation. BARD1 BRCT performs tumor suppressor function by recruiting BRCA1 at DNA damage site via interactions with other DNA damage repair (DDR) proteins. Considering the importance of the BRCT domain in genomic integrity, we decided to evaluate reported mutations of BARD1 BRCT Cys645Arg, Val695Leu, and Ser761Asn for their pathogenicity. To explore the effect of the mutation on the structure and function, BARD1 BRCT wild-type proteins and the mutant proteins were studied using different biochemical, biophysical and in silico techniques. Comparative fluorescence, circular dichroism (CD) spectroscopy and limited proteolysis studies demonstrate the well-folded structural conformation of wild-type and mutant proteins. However, thermal and chemical denaturation studies revealed similarity in the folding pattern of BARD1 BRCT wild-type and Cys645Arg mutant proteins, whereas there was a significant loss in the thermodynamic stability of Val695Leu and Ser761Asn mutants. Molecular dynamics (MD) simulation studies on wild-type and mutant protein structures indicate the loss in structural integrity of mutants compared with the wild-type protein.
Collapse
Affiliation(s)
- Rajan Kumar Choudhary
- Advanced Centre for Treatment, Research and Education in CancerKhargharNavi MumbaiMaharashtra 410 210India+91-22-2740 5085+91-22-2740 5112,Department of Biological Chemistry, The Alexander Silberman Institute of Life Sciences, Edmond J. Safra Campus, The Hebrew University of JerusalemJerusalem 91904Israel
| | - M. Quadir Siddiqui
- Advanced Centre for Treatment, Research and Education in CancerKhargharNavi MumbaiMaharashtra 410 210India+91-22-2740 5085+91-22-2740 5112,University of Nebraska Medical CentreOmahaNEUSA
| | - Nikhil Gadewal
- Advanced Centre for Treatment, Research and Education in CancerKhargharNavi MumbaiMaharashtra 410 210India+91-22-2740 5085+91-22-2740 5112
| | - Nachimuthu Senthil Kumar
- Department of Biotechnology, Mizoram University (A Central University)Aizawl – 796 004MizoramIndia
| | - Ekaterina S. Kuligina
- Laboratory of Molecular Oncology, Department of Tumor Growth Biology, N.N. Petrov Institute of OncologyRU-197758, Pesochny-2St.-PetersburgRussia
| | - Ashok K. Varma
- Advanced Centre for Treatment, Research and Education in CancerKhargharNavi MumbaiMaharashtra 410 210India+91-22-2740 5085+91-22-2740 5112,Homi Bhabha National Institute, Training School ComplexAnushaktinagarMumbai - 400 094India
| |
Collapse
|
2
|
Kar SP, Berchuck A, Gayther SA, Goode EL, Moysich KB, Pearce CL, Ramus SJ, Schildkraut JM, Sellers TA, Pharoah PDP. Common Genetic Variation and Susceptibility to Ovarian Cancer: Current Insights and Future Directions. Cancer Epidemiol Biomarkers Prev 2018; 27:395-404. [PMID: 28615364 DOI: 10.1158/1055-9965.epi-17-0315] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2017] [Revised: 05/24/2017] [Accepted: 06/06/2017] [Indexed: 11/16/2022] Open
Abstract
In this review, we summarize current progress in the genetic epidemiology of epithelial ovarian cancer (EOC), focusing exclusively on elucidating the role of common germline genetic variation in conferring susceptibility to EOC. We provide an overview of the more than 30 EOC risk loci identified to date by genome-wide association studies (GWAS) and describe the contribution of large-scale, cross-cancer type, custom genotyping projects, such as the OncoArray and the Collaborative Oncological Gene-Environment Study, to locus discovery and replication. We discuss the histotype-specific nature of these EOC risk loci, pleiotropy, or overlapping genetic effects between EOC and other hormone-related cancer types, and the application of findings to polygenic risk prediction for EOC. The second part of the article offers a concise review of primarily laboratory-based studies that have led to the identification of several putative EOC susceptibility genes using common variants at the known EOC risk loci as starting points. More global biological insights emerging from network- and pathway-based analyses of GWAS for EOC susceptibility are also highlighted. Finally, we delve into potential future directions, including the need to identify EOC risk loci in non-European populations and the next generation of GWAS functional studies that are likely to involve genome editing to establish the cell type-specific carcinogenic effects of EOC risk variants Cancer Epidemiol Biomarkers Prev; 27(4); 395-404. ©2018 AACRSee all articles in this CEBP Focus section, "Genome-Wide Association Studies in Cancer."
Collapse
Affiliation(s)
- Siddhartha P Kar
- Centre for Cancer Genetic Epidemiology, Department of Public Health and Primary Care, University of Cambridge, Strangeways Research Laboratory, Cambridge, United Kingdom.
| | - Andrew Berchuck
- Department of Obstetrics and Gynecology, Duke University Medical Center, Durham, North Carolina
| | - Simon A Gayther
- Department of Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California
- Samuel Oschin Comprehensive Cancer Institute, Cedars-Sinai Medical Center, Los Angeles, California
| | - Ellen L Goode
- Department of Health Science Research, Division of Epidemiology, Mayo Clinic, Rochester, Minnesota
| | - Kirsten B Moysich
- Department of Cancer Prevention and Control, Roswell Park Cancer Institute, Buffalo, New York
| | - Celeste Leigh Pearce
- Department of Epidemiology, University of Michigan School of Public Health, Ann Arbor, Michigan
| | - Susan J Ramus
- School of Women's and Children's Health, University of New South Wales, Sydney, Australia
| | - Joellen M Schildkraut
- Department of Public Health Sciences, University of Virginia School of Medicine, Virginia
| | - Thomas A Sellers
- Department of Cancer Epidemiology, Moffitt Cancer Center, Tampa, Florida
| | - Paul D P Pharoah
- Centre for Cancer Genetic Epidemiology, Department of Public Health and Primary Care, University of Cambridge, Strangeways Research Laboratory, Cambridge, United Kingdom.
- Centre for Cancer Genetic Epidemiology, Department of Oncology, University of Cambridge, Strangeways Research Laboratory, Cambridge, United Kingdom
| |
Collapse
|
3
|
Ng HM, Wei L, Lan L, Huen MSY. The Lys63-deubiquitylating Enzyme BRCC36 Limits DNA Break Processing and Repair. J Biol Chem 2016; 291:16197-207. [PMID: 27288411 DOI: 10.1074/jbc.m116.731927] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2016] [Indexed: 12/31/2022] Open
Abstract
Multisubunit protein assemblies offer integrated functionalities for efficient cell signal transduction control. One example of such protein assemblies, the BRCA1-A macromolecular complex, couples ubiquitin recognition and metabolism and promotes cellular responses to DNA damage. Specifically, the BRCA1-A complex not only recognizes Lys(63)-linked ubiquitin (K63-Ub) adducts at the damaged chromatin but is endowed with K63-Ub deubiquitylase (DUB) activity. To explore how the BRCA1-A DUB activity contributes to its function at DNA double strand breaks (DSBs), we used RNAi and genome editing approaches to target BRCC36, the protein subunit that confers the BRCA1-A complex its DUB activity. Intriguingly, we found that the K63-Ub DUB activity, although dispensable for maintaining the integrity of the macromolecular protein assembly, is important in enforcing the accumulation of the BRCA1-A complex onto DSBs. Inactivating BRCC36 DUB attenuated BRCA1-A functions at DSBs and led to unrestrained DSB end resection and hyperactive DNA repair. Together, our findings uncover a pivotal role of BRCC36 DUB in limiting DSB processing and repair and illustrate how cells may physically couple ubiquitin recognition and metabolizing activities for fine tuning of DNA repair processes.
Collapse
Affiliation(s)
- Hoi-Man Ng
- From the School of Biomedical Sciences, LKS Faculty of Medicine, and
| | - Leizhen Wei
- the Department of Microbiology and Molecular Genetics, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania 15213
| | - Li Lan
- the Department of Microbiology and Molecular Genetics, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania 15213
| | - Michael S Y Huen
- From the School of Biomedical Sciences, LKS Faculty of Medicine, and the State Key Laboratory of Brain and Cognitive Sciences, University of Hong Kong, L1-46, Laboratory Block, 21 Sassoon Road, Pokfulam, Hong Kong and
| |
Collapse
|
4
|
Choudhary RK, Vikrant, Siddiqui QM, Thapa PS, Raikundalia S, Gadewal N, Kumar NS, Hosur M, Varma AK. Multimodal approach to explore the pathogenicity of BARD1, ARG 658 CYS, and ILE 738 VAL mutants. J Biomol Struct Dyn 2015; 34:1533-44. [DOI: 10.1080/07391102.2015.1082149] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- Rajan Kumar Choudhary
- Advanced Centre for Treatment, Research and Education in Cancer, Kharghar, Navi Mumbai 410 210, Maharashtra, India
| | - Vikrant
- Advanced Centre for Treatment, Research and Education in Cancer, Kharghar, Navi Mumbai 410 210, Maharashtra, India
| | - Quadir M. Siddiqui
- Advanced Centre for Treatment, Research and Education in Cancer, Kharghar, Navi Mumbai 410 210, Maharashtra, India
| | - Pankaj S. Thapa
- Advanced Centre for Treatment, Research and Education in Cancer, Kharghar, Navi Mumbai 410 210, Maharashtra, India
| | - Sweta Raikundalia
- Advanced Centre for Treatment, Research and Education in Cancer, Kharghar, Navi Mumbai 410 210, Maharashtra, India
| | - Nikhil Gadewal
- Advanced Centre for Treatment, Research and Education in Cancer, Kharghar, Navi Mumbai 410 210, Maharashtra, India
| | - Nachimuthu Senthil Kumar
- Department of Biotechnology, Mizoram University (A Central University), Aizawl 796 004, Mizoram, India
| | - M.V. Hosur
- Advanced Centre for Treatment, Research and Education in Cancer, Kharghar, Navi Mumbai 410 210, Maharashtra, India
| | - Ashok K. Varma
- Advanced Centre for Treatment, Research and Education in Cancer, Kharghar, Navi Mumbai 410 210, Maharashtra, India
| |
Collapse
|
5
|
Vikrant, Kumar R, Siddiqui Q, Singh N, Waghmare SK, Varma AK. Mislocalization of BRCA1-complex due to ABRAXAS Arg361Gln mutation. J Biomol Struct Dyn 2014; 33:1291-301. [DOI: 10.1080/07391102.2014.945484] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
|