Photo Shuchismita Dutta
Scientific Educational Development Lead, RCSB Protein Data Bank
Associate Research Professor, Institute for Quantitative Biomedicine
174 Frelinghuysen Road
Piscataway, NJ 08854-8076

Tel: 848-445-4915
Fax: 732-445-4320
Email Address: sdutta@rcsb.rutgers.edu
Homepage Address: https://oirap.rutgers.edu/Facsurv/html/Shuchismita_Dutta.html
  Education
Highest Earned Degree
1994-2000: Ph.D. in Biophysics, Boston University School of Medicine, Boston, MA
  Honors and Awards
Fellowships
1998: Graduate Student Research Fellowship, to complete Ph.D. studies, Boston University, MA
1996: Competitive Fellowship award for attending “Macromolecular Crystallography” course in Cold Spring Harbor, NY
Professional Awards and Honors
2017: Excellence in Teaching Award, The National Society of Leadership and Success
1999: Henry Russek Student achievement award
  Research Interests
Professional Identification
Structural Biologist committed to STEM Education; interested in Science Pedagogy and the use of molecular visualization in teaching and learning
Description of Research and Scholarly or Creative Objectives
Promote a molecular structural view of Biology and Medicine in students, educators, researchers, scientists, health care providers, and the curious public
  Employment History
Positions Held
01/2019-ongoing: Associate Research Professor, Institute for Quantitative Biomedicine, Rutgers University, Piscataway NJ
Titles or Assignments within Positions Held
09/2020-ongoing: Member, Cancer Pharmacology, Cancer Institute of New Jersey
2014-ongoing: Scientific Educational Development Lead
  Publications
Chapters in Books or Monographs
2019: Dutta, S., Dries, D. (2019) "Virtual Exploration of Biomolecular Structure and Function" in ACS Books titled "Biochemistry Education: From Theory to Practice, 21-41. doi:10.1021/bk-2019-1337.ch002

2015: Berman, H.M., Rose, P.W., Dutta, S., Zardecki, C., Prlić, A. (2015) "The Protein Data Bank: Overview and Tools for Drug Discovery" Multifaceted Roles of Crystallography in Modern Drug Discovery, Series: NATO Science for Peace and Security Series A: Chemistry and Biology G. Scapin, D. Patel, E. Arnold, editors. Springer Science + Business Media Dordrecht, pp. 93-106 doi:10.1007/978-94-017-9719-1_8

2012: Schneider, B., de la Cruz, J., Dutta, S., Feng, Z., Chen, L., Westbrook, J., Yang, H., Young, J., Zardecki, C., Berman, H.M. (2012), The Nucleic Acid Database. International Tables for Crystallography. Vol. F, ch. 24.2, pp. 833-837

2009: Schneider, B., Cruz, J.D.L., Feng, Z., Chen, L., Dutta, S., Persikova, I., Westbrook, J.D., Yang, H., Young, J., Zardecki, C. et al. (2009) In Gu, J. and Bourne, P. E. (eds.), Structural Bioinformatics, Second Edition. John Wiley & Sons, Inc., Hoboken, NJ, pp. 305-319.

2009: Dutta, S., Burkhardt, K., Young, J., Swaminathan, G.J., Matsuura T., Henrick, K., Nakamura, H., Berman, H.M. (2009) Data Deposition and Annotation at the Worldwide Protein Data Bank. Mol Biotechnol. 42(1):1-13. Epub 2008 Dec 10

2008: Dutta, S., Burkhardt, K., Swaminathan, G.J., Kosada, T. Henrick, K., Nakamura, H., Berman, H.M. (2008) Data Deposition and Annotation at the Worldwide Protein Data Bank. Structural Proteomics: High-Throughput Methods (Methods in Molecular Biology) 426, 81-101

2007: Dutta, S., Berman H.M., Bluhm, W.F. (2007) Using the tools and resources of the RCSB Protein Data Bank. Current Protocols in Bioinformatics 1.9.1-1.9.24.

2005: Dutta, S., Burkhardt, K., Bluhm, W.F., Berman H.M. (2005) Using the tools and resources of the RCSB Protein Data Bank. Current Protocols in Bioinformatics 1.9.1-1.9.40.
Articles in Refereed Journals
2020: Burley, S.K., Bromberg, Y., Craig, P., Duffy, S., Dutta, S., Hall, B.L., Hudson, B.P., Jiang, J., Khare, S.D., Koeppe, J.R., Lubin, J.H., Mills, S.A., Pikaart, M.J., Roberts, R., Sarma, V., Singh, J., Tischfield, J.A., Xie, L., and Zardecki, C., (2020) "Virtual Boot Camp: COVID‐19 evolution and structural biolog", Biochem Mol Biol Educ. 2020;1 – 3, https://iubmb.onlinelibrary.wiley.com/doi/full/10.1002/bmb.21428

2020: Kurnat-Thoma, E., Baranova, A., Baird, P., Brodsky, E., Butte, A.J., Cheema, A.K., Cheng, F., Dutta, S., Grant, C., Giordano, J., Maitland-van der Zee, A.H., Fridsma, D.B., Jarrin, R., Kann, M.G., Keeney, J., Loscalzo, J., Madhavan, G., Maron, B.A., McBride, D.K., McKean, M., Mun, S.K., Palmer, J.C., Patel, B., Parakh, K., Pariser, A.R., Pristipino, C., Radstake, T.R.D.J., Rajasimha, H.K., Rouse, W.B., Rozman, D., Saleh, A., Schmidt, H.H.H.W., Schultz, N., Sethi, T., Silverman, E.K., Skopac, J., Svab, I., Trujillo, S., Valentine, J.E., Verma, D., West, B.J., Vasudevan, S. (2020) "Recent Advances in Systems and Network Medicine: Meeting Report from the First International Conference in Systems and Network Medicine", Syst Med (New Rochelle), 3(1):22-35. doi: 10.1089/sysm.2020.0001. eCollection 2020. PMID: 32226924

2019: wwPDB Consortium (2019) "Protein Data Bank: The Single Global Archive for 3D Macromolecular Structure Data Jointly Managed by the Worldwide Protein Data Bank" Nucleic Acid Research

2019: Burley, S.K., Berman, H.M., Bhikadiya, C., Bi, C., Chen, L., Di Costanzo, L., Christie, C., Dalenberg K., Duarte, J., Dutta, S., Feng, Z., Ghosh, S., Goodsell, D., Green, R.K., Guranović, V., Guzenko, D., Hudson, B., Kalro, T, Liang, Y., Lowe, R., Namkoong, H., Peisach, E., Periskova, I., Prlić, A., Randle, C., Rose, A., Rose, P., Sekharan, M., Shao, C., Tan, L., Tao, W., Valasatava, Y., Voigt, M., Westbrook, J., Woo, J., Yang, H., Young, J., Zardecki, C., and Zhuravleva, M. (2019) "RCSB Protein Data Bank: Biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology, and energy" Nucleic Acid Research

2018: Di Costanzo, L., Dutta, S., Burley, S.K. (2018) "Amino Acid Modifications for Conformationally Constraining Naturally-Occurring and Engineered Peptide Backbones: Insights from the Protein Data Bank" Biopolymers doi: 10.1002/bip.23230

2018: Dutta, S., Eswaran, S., Sanelli, A., Bhattacharya, M., and Tempsick, R. (2018) "Learning Biology Through Molecular Storytelling" The Science Teacher, NSTA Journal

2017: Rose, P.W., Prlić, A., Altunkaya, A., Bi, C., Bradley, A.R., Christie, C.H., Costanzo, L.D., Duarte, J.M., Dutta, S., Feng, Z., Green, R.K., Goodsell, D.S., Hudson, B., Kalro, T., Lowe, R., Peisach, E., Randle, C., Rose, A.S., Shao, C., Tao, Y.P., Valasatava, Y., Voigt, M., Westbrook, J.D., Woo, J., Yang, H., Young, J.Y., Zardecki, C., Berman, H.M., Burley, S.K. (2017) "The RCSB Protein Data Bank: Integrative View of Protein, Gene and 3D Structural Information" Nucleic Acids Res. 45(D1): D271-D281. doi: 10.1093/nar/gkw1000

2016: Zardecki, C., Dutta, S., Goodsell, D.S., Voigt, M., Burley, S. K. (2016) "RCSB Protein Data Bank: A resource for chemical, biochemical, and structural explorations of large and small biomolecules" Journal of Chemical Education 93 (3), 569-575 doi: 10.1021/acs.jchemed.5b00404

2015: Rose, P.W., Prlić, A., Bi, C., Bluhm, W.F., Christie, C.H., Dutta, S., Green, R.K., Goodsell, D.S., Westbrook, J., Woo, J., Young, J., Zardecki, C., Berman, H.M., Bourne, P., and Burley, S.K. (2015) “The RCSB Protein Data Bank: Views of Structural Biology for Basic and Applied Research and Education” Nucleic Acids Research 43(D1): D345-356 doi:10.1093/nar/gku1214

2015: Goodsell, D.S., Dutta, S., Zardecki, C., Voigt, M., Berman, H.M. and Burley, S.K. (2015) “The RCSB PDB 'Molecule of the Month': Inspiring a Molecular View of Biology” PLOS Biology doi: 10.1371/journal.pbio.1002140

2014: Dutta, S., Dimitripoulos, D., Feng, Z., Persikova, I., Sen, S., Shao, C., Westbrook, J., Young, J., Zhuravleva, M.A., Kleywegt, G., and Berman H.M. (2014) "Improving the representation of peptide-like inhibitor and antibiotic molecules in the Protein Data Bank." Biopolymers 101: 659–668. doi:10.1002/bip.22434

2014: Sen, S., Young, J., Berrisford, J.M.,Chen, M., Conroy, M.J., Dutta, S., Di Costanzo, L., Gao, G., Ghosh, S., Hudson, B.P., Igarashi, R., Kengaku, Y., Liang, Y., Peisach, E., Persikova, I., Mukhopadhyay, A., Narayanan, B.C., Sahni, G., Sato, J., Sekharan, M., Shao, C., Tan, L. and Zhuravleva M.A. (2014) “Small Molecule Annotation for the Protein Data Bank” Database: bau116 doi: 10.1093/database/bau116

2013: Berman, H., Coimbatore Narayanan, B., Di Costanzo, L., Dutta, S., Ghosh, S., Hudson, B., Lawson, C.L., Peisach, E., Prlić, A., Rose, P.W., Shao, C., Yang, H., Young, J., and Zardecki, C. (2013) "Trendspotting in the Protein Data Bank" FEBS Lett. 587: 1036-45

2013: Rose, P.W., Bi, C., Bluhm, W.F., Christie, C.H., Dimitropoulos, D., Dutta, S., Green, R.K., Goodsell, D.S., Prlic´, A., Quesada, M., Quinn, G.B., Ramos, A.G., Westbrook, J.W., Young, J., Zardecki, C., Berman, H.M. and Bourne, P.E. (2013) "The RCSB Protein Data Bank: new resources for research and education" Nucleic Acids Research D475–D482, https://doi.org/10.1093/nar/gks1200

2010: Dutta, S., Zardecki, C., Goodsell, D.S., and Berman, H.M. (2010) "Promoting a structural view of biology for varied audiences: an overview of RCSB PDB resources and experiences" J. Appl. Cryst. 43:1224-1229

2008: Henrick K., Feng Z., Bluhm W.F., Dimitropoulos D., Doreleijers J.F., Dutta S., Flippen-Anderson J.L., Ionides J., Kamada C., Krissinel E., Lawson C.L., Markley J.L., Nakamura H., Newman R., Shimizu Y., Swaminathan J., Velankar S., Ory J., Ulrich E.L., Vranken W., Westbrook J., Yamashita R., Yang H., Young J., Yousufuddin M., and Berman H.M. (2008) "Remediation of the Protein Data Bank archive." Nucleic Acids Res. D426-33.

2008: Lawson C.L., Dutta S., Westbrook, J.D., Henrick, H., and Berman, H.M. (2008) "Representation of Viruses in the Remediated PDB Archive" Acta Cryst. D64, 874-882

2005: Dutta, S., and Berman. H.M. (2005) "Large macromolecular complexes in the Protein Data Bank: a status report." Structure 13, 381-388.

2004: Li, Y., Dutta, S., Doublie, S., Bdour, H.M., Taylor, J.S., and Ellenberger, T. (2004) "Nucleotide insertion opposite a cis-syn thymine dimer by a replicative DNA polymerase from bacteriophage T7." Nat Struct Mol Biol. 8, 784-790.

2004: Yang, H., Guranovic, V., Dutta, S., Feng, Z., Berman, H.M., and Westbrook, J.D. (2004) "Automated and accurate deposition of structures solved by X-ray diffraction to the Protein Data Bank." Acta Crystallogr D Biol Crystallogr. 60 1833-1839.

2004: Dutta, S., Li, Y., Johnson, D., Dzantiev, L., Richardson, C.C., Romano, L.J., and Ellenberger, T. (2004) "Crystal structures of 2-acetylaminofluorene and 2-aminofluorene in complex with T7 DNA polymerase reveal mechanisms of mutagenesis." Proc Natl Acad Sci USA. 101, 16186-16191.

2003:  Namboodiri, V. M. H., Dutta, S., Akey, I. V., Head, J. F., and Akey, C. W. (2003) "The Crystal Structure of Drosophila Nlp-Core Provides Insight Into Pentamer Formation and Histone Binding." Structure 11, 175-186.

2001: Dutta, S., Akey, I.V., Dingwall, C., Hartman, K.L., Laue, T., Nolte, R.T., Head, J.F., and Akey, C.W. (2001) "The Crystal Structure of Nucleoplasmin-Core: Implications for Histone Binding and nucleosome assembly." Molecular Cell, 8, 841-853.
Articles in Non-refereed or General Journals
2004: "X-rays, Crystals, Molecules and You" ACA Newsletter
Electronic Publications, Not Refereed
2020: "COVID-19: Molecular Basis of Infection" Molecular CaseNet; Vardar-Ulu, D. and Dutta, S. (https://qubeshub.org/publications/1912/1) doi:10.25334/HQCA-QD59
2020: "A Case of Severe Insulin Resistance" Molecular CaseNet; Lenahan, M. and Dutta, S. (https://qubeshub.org/publications/1911/1) doi:10.25334/DTTA-WW18
2020: "Piwi Matters" Molecular CaseNet; Lorenz L. and Dutta, S. (https://qubeshub.org/publications/1910/1) doi:10.25334/ZM3H-4149
2020: "Evolution of Caffeine Biosynthesis Enzymes" Molecular CaseNet; Sullivan, B. and Dutta, S. (https://qubeshub.org/publications/1909/1) doi:10.25334/225Z-KR22
2020: "Waking up Anna" Molecular CaseNet; O'Toole, K. and Dutta, S., (https://qubeshub.org/publications/1908/1) doi:10.25334/Y88F-9279
2020: "Happy Blue Baby" Molecular CaseNet; Dutta, S., (https://qubeshub.org/publications/1902/1) doi:10.25334/2R67-W933
2020: "Nicholas' Story", Molecular CaseNet; Dutta, S., Cortes, K., Jakubowski, H., Lenahan,M., Marcey, D., Marsteller, M., and Terrell, C. (https://qubeshub.org/publications/1907/1) doi:10.25334/H82J-3C28
2009: "Biological Assemblies", RCSB PDB Dutta, S., Green, R.K., and Lawson, C.L. (http://pdb101.rcsb.org/learn/guide-to-understanding-pdb-data/biological-assemblies)
2005: Molecule of the Month "Phenylalanine Hydroxylase" Dutta, S., and Goodsell, D. (Jan 2005) (http://pdb101.rcsb.org/motm/61) doi:10.2210/rcsb_pdb/mom_2005_1
2004: Molecule of the Month "Growth Hormone" Dutta, S., and Goodsell, D. (Apr 2004) (http://pdb101.rcsb.org/motm/52) doi:10.2210/rcsb_pdb/mom_2004_4
2004: Molecule of the Month "Carbonic Anhydrase" Dutta, S., and Goodsell, D. (Jan 2004) (http://pdb101.rcsb.org/motm/49) doi:10.2210/rcsb_pdb/mom_2004_1
2003: Molecule of the Month "Calmodulin" Dutta, S., and Goodsell, D. (Aug 2003) (http://pdb101.rcsb.org/motm/44) doi:10.2210/rcsb_pdb/mom_2003_8
2003: Molecule of the Month "Hemoglobin" Dutta, S., and Goodsell, D. (May 2003) (http://pdb101.rcsb.org/motm/41) doi:10.2210/rcsb_pdb/mom_2003_5
2003: Molecule of the Month "Potassium Channel" Dutta, S., and Goodsell, D. (Feb 2003) (http://pdb101.rcsb.org/motm/38) doi:10.2210/rcsb_pdb/mom_2003_2