Debanu Das, Ph.D. - Publications

Affiliations: 
2004 Rutgers University, New Brunswick, New Brunswick, NJ, United States 
Area:
Biochemistry, General Biophysics, Molecular Biology

52 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Das D, Duncton MAJ, Georgiadis TM, Pellicena P, Clark J, Sobol RW, Georgiadis MM, King-Underwood J, Jobes DV, Chang C, Gao Y, Deacon AM, Wilson DM. A New Drug Discovery Platform: Application to DNA Polymerase Eta and Apurinic/Apyrimidinic Endonuclease 1. International Journal of Molecular Sciences. 24. PMID 38068959 DOI: 10.3390/ijms242316637  0.623
2020 Wilson DM, Deacon AM, Duncton MAJ, Pellicena P, Georgiadis MM, Yeh AP, Arvai AS, Moiani D, Tainer JA, Das D. Fragment- and structure-based drug discovery for developing therapeutic agents targeting the DNA Damage Response. Progress in Biophysics and Molecular Biology. PMID 33115610 DOI: 10.1016/j.pbiomolbio.2020.10.005  0.642
2016 Stepanyuk GA, Serrano P, Peralta E, Farr CL, Axelrod HL, Geralt M, Das D, Chiu HJ, Jaroszewski L, Deacon AM, Lesley SA, Elsliger MA, Godzik A, Wilson IA, Wüthrich K, et al. UHM-ULM interactions in the RBM39-U2AF65 splicing-factor complex. Acta Crystallographica. Section D, Structural Biology. 72: 497-511. PMID 27050129 DOI: 10.1107/S2059798316001248  0.565
2016 Grewal JS, McLuskey K, Das D, Myburgh E, Wilkes J, Brown E, Lemgruber L, Gould MK, Burchmore RJ, Coombs GH, Schnaufer A, Mottram JC. PNT1 is a C11 Cysteine Peptidase Essential for Replication of the Trypanosome Kinetoplast. The Journal of Biological Chemistry. PMID 26940875 DOI: 10.1074/Jbc.M116.714972  0.37
2016 McLuskey K, Grewal JS, Das D, Godzik A, Lesley SA, Deacon AM, Coombs GH, Elsliger MA, Wilson IA, Mottram JC. Crystal Structure and Activity Studies of the C11 Cysteine Peptidase from Parabacteroides merdae in the Human Gut Microbiome. The Journal of Biological Chemistry. PMID 26940874 DOI: 10.1074/Jbc.M115.706143  0.558
2015 Sablin EP, Blind RD, Uthayaruban R, Chiu HJ, Deacon AM, Das D, Ingraham HA, Fletterick RJ. Structure of Liver Receptor Homolog-1 (NR5A2) with PIP3 hormone bound in the ligand binding pocket. Journal of Structural Biology. PMID 26416531 DOI: 10.1016/J.Jsb.2015.09.012  0.359
2015 Hayashi Y, Caboni L, Das D, Yumoto F, Clayton T, Deller MC, Nguyen P, Farr CL, Chiu HJ, Miller MD, Elsliger MA, Deacon AM, Godzik A, Lesley SA, Tomoda K, et al. Structure-based discovery of NANOG variant with enhanced properties to promote self-renewal and reprogramming of pluripotent stem cells. Proceedings of the National Academy of Sciences of the United States of America. 112: 4666-71. PMID 25825768 DOI: 10.1073/Pnas.1502855112  0.523
2014 Blind RD, Sablin EP, Kuchenbecker KM, Chiu HJ, Deacon AM, Das D, Fletterick RJ, Ingraham HA. The signaling phospholipid PIP3 creates a new interaction surface on the nuclear receptor SF-1. Proceedings of the National Academy of Sciences of the United States of America. 111: 15054-9. PMID 25288771 DOI: 10.1073/Pnas.1416740111  0.372
2014 Kumar A, Punta M, Axelrod HL, Das D, Farr CL, Grant JC, Chiu HJ, Miller MD, Coggill PC, Klock HE, Elsliger MA, Deacon AM, Godzik A, Lesley SA, Wilson IA. Crystal structures of three representatives of a new Pfam family PF14869 (DUF4488) suggest they function in sugar binding/uptake. Protein Science : a Publication of the Protein Society. 23: 1380-91. PMID 25044324 DOI: 10.1002/Pro.2522  0.618
2014 Fleischman NM, Das D, Kumar A, Xu Q, Chiu HJ, Jaroszewski L, Knuth MW, Klock HE, Miller MD, Elsliger MA, Godzik A, Lesley SA, Deacon AM, Wilson IA, Toney MD. Molecular characterization of novel pyridoxal-5'-phosphate-dependent enzymes from the human microbiome. Protein Science : a Publication of the Protein Society. 23: 1060-76. PMID 24888348 DOI: 10.1002/Pro.2493  0.475
2014 Das D, Murzin AG, Rawlings ND, Finn RD, Coggill P, Bateman A, Godzik A, Aravind L. Structure and computational analysis of a novel protein with metallopeptidase-like and circularly permuted winged-helix-turn-helix domains reveals a possible role in modified polysaccharide biosynthesis. Bmc Bioinformatics. 15: 75. PMID 24646163 DOI: 10.1186/1471-2105-15-75  0.489
2014 Das D, Chiu HJ, Farr CL, Grant JC, Jaroszewski L, Knuth MW, Miller MD, Tien HJ, Elsliger MA, Deacon AM, Godzik A, Lesley SA, Wilson IA. Crystal structure of a putative quorum sensing-regulated protein (PA3611) from the Pseudomonas-specific DUF4146 family. Proteins. 82: 1086-92. PMID 24174223 DOI: 10.1002/Prot.24455  0.586
2014 Das D, Yumoto F, Kuchenbecker K, Deacon A, Fletterick R, Wilson I. Understanding disease mutations from the crystal structure of SOX9 with DNA Acta Crystallographica Section a Foundations and Advances. 70: C1398-C1398. DOI: 10.1107/S205327331408601X  0.562
2013 Das D, Hervé M, Elsliger MA, Kadam RU, Grant JC, Chiu HJ, Knuth MW, Klock HE, Miller MD, Godzik A, Lesley SA, Deacon AM, Mengin-Lecreulx D, Wilson IA. Structure and function of a novel LD-carboxypeptidase a involved in peptidoglycan recycling. Journal of Bacteriology. 195: 5555-66. PMID 24123814 DOI: 10.1128/Jb.00900-13  0.601
2013 Coggill P, Eberhardt RY, Finn RD, Chang Y, Jaroszewski L, Godzik A, Das D, Xu Q, Axelrod HL, Aravind L, Murzin AG, Bateman A. Two Pfam protein families characterized by a crystal structure of protein lpg2210 from Legionella pneumophila. Bmc Bioinformatics. 14: 265. PMID 24004689 DOI: 10.1186/1471-2105-14-265  0.528
2013 Das D, Lee WS, Grant JC, Chiu HJ, Farr CL, Vance J, Klock HE, Knuth MW, Miller MD, Elsliger MA, Deacon AM, Godzik A, Lesley SA, Kornfeld S, Wilson IA. Structure and function of the DUF2233 domain in bacteria and in the human mannose 6-phosphate uncovering enzyme. The Journal of Biological Chemistry. 288: 16789-99. PMID 23572527 DOI: 10.1074/Jbc.M112.434977  0.592
2012 Brunger AT, Das D, Deacon AM, Grant J, Terwilliger TC, Read RJ, Adams PD, Levitt M, Schröder GF. Application of DEN refinement and automated model building to a difficult case of molecular-replacement phasing: the structure of a putative succinyl-diaminopimelate desuccinylase from Corynebacterium glutamicum. Acta Crystallographica. Section D, Biological Crystallography. 68: 391-403. PMID 22505259 DOI: 10.1107/S090744491104978X  0.306
2011 DiMaio F, Terwilliger TC, Read RJ, Wlodawer A, Oberdorfer G, Wagner U, Valkov E, Alon A, Fass D, Axelrod HL, Das D, Vorobiev SM, Iwaï H, Pokkuluri PR, Baker D. Improved molecular replacement by density- and energy-guided protein structure optimization. Nature. 473: 540-3. PMID 21532589 DOI: 10.1038/Nature09964  0.477
2011 Das D, Hervé M, Feuerhelm J, Farr CL, Chiu HJ, Elsliger MA, Knuth MW, Klock HE, Miller MD, Godzik A, Lesley SA, Deacon AM, Mengin-Lecreulx D, Wilson IA. Structure and function of the first full-length murein peptide ligase (Mpl) cell wall recycling protein. Plos One. 6: e17624. PMID 21445265 DOI: 10.1371/Journal.Pone.0017624  0.577
2011 Das D, Hervé M, Mengin-Lecreulx D, Deacon A, Wilson IA. Crystal structures of an enzyme duo involved in bacterial cell wall recycling Acta Crystallographica Section a Foundations of Crystallography. 67: C588-C588. DOI: 10.1107/S0108767311085126  0.513
2011 Miller MD, Axelrod HL, Chiu H-, Das D, Kumar A, Trame CB, van den Bedem H, Xu Q, Deacon AM. Cases of twinning at the Joint Center for Structural Genomics Acta Crystallographica Section a Foundations of Crystallography. 67: C658-C659. DOI: 10.1107/S0108767311083358  0.343
2010 Xu Q, Abdubek P, Astakhova T, Axelrod HL, Bakolitsa C, Cai X, Carlton D, Chen C, Chiu HJ, Chiu M, Clayton T, Das D, Deller MC, Duan L, Ellrott K, et al. Structure of the γ-D-glutamyl-L-diamino acid endopeptidase YkfC from Bacillus cereus in complex with L-Ala-γ-D-Glu: insights into substrate recognition by NlpC/P60 cysteine peptidases. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1354-64. PMID 20944232 DOI: 10.1107/S1744309110021214  0.518
2010 Axelrod HL, Das D, Abdubek P, Astakhova T, Bakolitsa C, Carlton D, Chen C, Chiu HJ, Clayton T, Deller MC, Duan L, Ellrott K, Farr CL, Feuerhelm J, Grant JC, et al. Structures of three members of Pfam PF02663 (FmdE) implicated in microbial methanogenesis reveal a conserved α+β core domain and an auxiliary C-terminal treble-clef zinc finger. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1335-46. PMID 20944230 DOI: 10.1107/S1744309110020166  0.595
2010 Chiu HJ, Abdubek P, Astakhova T, Axelrod HL, Carlton D, Clayton T, Das D, Deller MC, Duan L, Feuerhelm J, Grant JC, Grzechnik A, Han GW, Jaroszewski L, Jin KK, et al. The structure of Haemophilus influenzae prephenate dehydrogenase suggests unique features of bifunctional TyrA enzymes. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1317-25. PMID 20944228 DOI: 10.1107/S1744309110021688  0.583
2010 Xu Q, Abdubek P, Astakhova T, Axelrod HL, Bakolitsa C, Cai X, Carlton D, Chen C, Chiu HJ, Clayton T, Das D, Deller MC, Duan L, Ellrott K, Farr CL, et al. Structure of a membrane-attack complex/perforin (MACPF) family protein from the human gut symbiont Bacteroides thetaiotaomicron. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1297-305. PMID 20944225 DOI: 10.1107/S1744309110023055  0.574
2010 Yeh AP, Abdubek P, Astakhova T, Axelrod HL, Bakolitsa C, Cai X, Carlton D, Chen C, Chiu HJ, Chiu M, Clayton T, Das D, Deller MC, Duan L, Ellrott K, et al. Structure of Bacteroides thetaiotaomicron BT2081 at 2.05 Å resolution: the first structural representative of a new protein family that may play a role in carbohydrate metabolism. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1287-96. PMID 20944224 DOI: 10.1107/S1744309110028228  0.616
2010 Xu Q, Abdubek P, Astakhova T, Axelrod HL, Bakolitsa C, Cai X, Carlton D, Chen C, Chiu HJ, Chiu M, Clayton T, Das D, Deller MC, Duan L, Ellrott K, et al. A conserved fold for fimbrial components revealed by the crystal structure of a putative fimbrial assembly protein (BT1062) from Bacteroides thetaiotaomicron at 2.2 Å resolution. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1281-6. PMID 20944223 DOI: 10.1107/S1744309110006548  0.566
2010 Bakolitsa C, Xu Q, Rife CL, Abdubek P, Astakhova T, Axelrod HL, Carlton D, Chen C, Chiu HJ, Clayton T, Das D, Deller MC, Duan L, Ellrott K, Farr CL, et al. Structure of BT_3984, a member of the SusD/RagB family of nutrient-binding molecules. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1274-80. PMID 20944222 DOI: 10.1107/S1744309110032999  0.63
2010 Das D, Finn RD, Carlton D, Miller MD, Abdubek P, Astakhova T, Axelrod HL, Bakolitsa C, Chen C, Chiu HJ, Chiu M, Clayton T, Deller MC, Duan L, Ellrott K, et al. The structure of BVU2987 from Bacteroides vulgatus reveals a superfamily of bacterial periplasmic proteins with possible inhibitory function. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1265-73. PMID 20944221 DOI: 10.1107/S1744309109046788  0.607
2010 Das D, Kozbial P, Han GW, Carlton D, Jaroszewski L, Abdubek P, Astakhova T, Axelrod HL, Bakolitsa C, Chen C, Chiu HJ, Chiu M, Clayton T, Deller MC, Duan L, et al. The structure of KPN03535 (gi|152972051), a novel putative lipoprotein from Klebsiella pneumoniae, reveals an OB-fold. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1254-60. PMID 20944219 DOI: 10.1107/S1744309109018168  0.625
2010 Kumar A, Lomize A, Jin KK, Carlton D, Miller MD, Jaroszewski L, Abdubek P, Astakhova T, Axelrod HL, Chiu HJ, Clayton T, Das D, Deller MC, Duan L, Feuerhelm J, et al. Open and closed conformations of two SpoIIAA-like proteins (YP_749275.1 and YP_001095227.1) provide insights into membrane association and ligand binding. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1245-53. PMID 20944218 DOI: 10.1107/S1744309109042481  0.599
2010 Han GW, Elsliger MA, Yeates TO, Xu Q, Murzin AG, Krishna SS, Jaroszewski L, Abdubek P, Astakhova T, Axelrod HL, Carlton D, Chen C, Chiu HJ, Clayton T, Das D, et al. Structure of a putative NTP pyrophosphohydrolase: YP_001813558.1 from Exiguobacterium sibiricum 255-15. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1237-44. PMID 20944217 DOI: 10.1107/S1744309110025534  0.59
2010 Han GW, Bakolitsa C, Miller MD, Kumar A, Carlton D, Najmanovich RJ, Abdubek P, Astakhova T, Axelrod HL, Chen C, Chiu HJ, Clayton T, Das D, Deller MC, Duan L, et al. Structures of the first representatives of Pfam family PF06938 (DUF1285) reveal a new fold with repeated structural motifs and possible involvement in signal transduction. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1218-25. PMID 20944214 DOI: 10.1107/S1744309109050416  0.621
2010 Bakolitsa C, Bateman A, Jin KK, McMullan D, Krishna SS, Miller MD, Abdubek P, Acosta C, Astakhova T, Axelrod HL, Burra P, Carlton D, Chiu HJ, Clayton T, Das D, et al. The structure of Jann_2411 (DUF1470) from Jannaschia sp. at 1.45 Å resolution reveals a new fold (the ABATE domain) and suggests its possible role as a transcription regulator. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1198-204. PMID 20944211 DOI: 10.1107/S1744309109025196  0.577
2010 Bakolitsa C, Kumar A, Jin KK, McMullan D, Krishna SS, Miller MD, Abdubek P, Acosta C, Astakhova T, Axelrod HL, Burra P, Carlton D, Chen C, Chiu HJ, Clayton T, ... Das D, et al. Structures of the first representatives of Pfam family PF06684 (DUF1185) reveal a novel variant of the Bacillus chorismate mutase fold and suggest a role in amino-acid metabolism. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1182-9. PMID 20944209 DOI: 10.1107/S1744309109050647  0.629
2010 Das D, Grishin NV, Kumar A, Carlton D, Bakolitsa C, Miller MD, Abdubek P, Astakhova T, Axelrod HL, Burra P, Chen C, Chiu HJ, Chiu M, Clayton T, Deller MC, et al. The structure of the first representative of Pfam family PF09836 reveals a two-domain organization and suggests involvement in transcriptional regulation. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 1174-81. PMID 20944208 DOI: 10.1107/S1744309109022672  0.594
2010 Das D, Finn RD, Abdubek P, Astakhova T, Axelrod HL, Bakolitsa C, Cai X, Carlton D, Chen C, Chiu HJ, Chiu M, Clayton T, Deller MC, Duan L, Ellrott K, et al. The crystal structure of a bacterial Sufu-like protein defines a novel group of bacterial proteins that are similar to the N-terminal domain of human Sufu. Protein Science : a Publication of the Protein Society. 19: 2131-40. PMID 20836087 DOI: 10.1002/Pro.497  0.618
2010 Das D, Moiani D, Axelrod HL, Miller MD, McMullan D, Jin KK, Abdubek P, Astakhova T, Burra P, Carlton D, Chiu HJ, Clayton T, Deller MC, Duan L, Ernst D, et al. Crystal structure of the first eubacterial Mre11 nuclease reveals novel features that may discriminate substrates during DNA repair. Journal of Molecular Biology. 397: 647-63. PMID 20122942 DOI: 10.1016/J.Jmb.2010.01.049  0.586
2010 Xu Q, Bateman A, Finn RD, Abdubek P, Astakhova T, Axelrod HL, Bakolitsa C, Carlton D, Chen C, Chiu HJ, Chiu M, Clayton T, Das D, Deller MC, Duan L, et al. Bacterial pleckstrin homology domains: a prokaryotic origin for the PH domain. Journal of Molecular Biology. 396: 31-46. PMID 19913036 DOI: 10.1016/J.Jmb.2009.11.006  0.549
2009 Xu Q, Traag BA, Willemse J, McMullan D, Miller MD, Elsliger MA, Abdubek P, Astakhova T, Axelrod HL, Bakolitsa C, Carlton D, Chen C, Chiu HJ, Chruszcz M, Clayton T, ... Das D, et al. Structural and functional characterizations of SsgB, a conserved activator of developmental cell division in morphologically complex actinomycetes. The Journal of Biological Chemistry. 284: 25268-79. PMID 19567872 DOI: 10.1074/Jbc.M109.018564  0.632
2009 Das D, Kozbial P, Axelrod HL, Miller MD, McMullan D, Krishna SS, Abdubek P, Acosta C, Astakhova T, Burra P, Carlton D, Chen C, Chiu HJ, Clayton T, Deller MC, et al. Crystal structure of a novel Sm-like protein of putative cyanophage origin at 2.60 A resolution. Proteins. 75: 296-307. PMID 19173316 DOI: 10.1002/Prot.22360  0.64
2009 Das D, Krishna SS, McMullan D, Miller MD, Xu Q, Abdubek P, Acosta C, Astakhova T, Axelrod HL, Burra P, Carlton D, Chiu HJ, Clayton T, Deller MC, Duan L, et al. Crystal structure of the Fic (Filamentation induced by cAMP) family protein SO4266 (gi|24375750) from Shewanella oneidensis MR-1 at 1.6 A resolution. Proteins. 75: 264-71. PMID 19127588 DOI: 10.1002/Prot.22338  0.618
2009 Xu Q, McMullan D, Abdubek P, Astakhova T, Carlton D, Chen C, Chiu HJ, Clayton T, Das D, Deller MC, Duan L, Elsliger MA, Feuerhelm J, Hale J, Han GW, et al. A structural basis for the regulatory inactivation of DnaA. Journal of Molecular Biology. 385: 368-80. PMID 19000695 DOI: 10.1016/J.Jmb.2008.10.059  0.597
2008 Das D, Kumar A, Jaroszewski L, Deacon A. Structural studies of novel proteases from the CATH family of zinc peptidases Acta Crystallographica Section a Foundations of Crystallography. 64: C360-C360. DOI: 10.1107/S0108767308088491  0.415
2007 Shin DH, Hou J, Chandonia JM, Das D, Choi IG, Kim R, Kim SH. Structure-based inference of molecular functions of proteins of unknown function from Berkeley Structural Genomics Center. Journal of Structural and Functional Genomics. 8: 99-105. PMID 17764033 DOI: 10.1007/S10969-007-9025-4  0.763
2007 Das D, Hyun H, Lou Y, Yokota H, Kim R, Kim SH. Crystal structure of a novel single-stranded DNA binding protein from Mycoplasma pneumoniae. Proteins. 67: 776-82. PMID 17348019 DOI: 10.1002/Prot.21340  0.673
2007 Das D, Xu QS, Lee JY, Ankoudinova I, Huang C, Lou Y, DeGiovanni A, Kim R, Kim SH. Crystal structure of the multidrug efflux transporter AcrB at 3.1A resolution reveals the N-terminal region with conserved amino acids. Journal of Structural Biology. 158: 494-502. PMID 17275331 DOI: 10.1016/J.Jsb.2006.12.004  0.723
2005 Kim SH, Shin DH, Liu J, Oganesyan V, Chen S, Xu QS, Kim JS, Das D, Schulze-Gahmen U, Holbrook SR, Holbrook EL, Martinez BA, Oganesyan N, DeGiovanni A, Lou Y, et al. Structural genomics of minimal organisms and protein fold space. Journal of Structural and Functional Genomics. 6: 63-70. PMID 16211501 DOI: 10.1007/S10969-005-2651-9  0.769
2005 Das D, Oganesyan N, Yokota H, Pufan R, Kim R, Kim SH. Crystal structure of the conserved hypothetical protein MPN330 (GI: 1674200) from Mycoplasma pneumoniae. Proteins. 58: 504-8. PMID 15562512 DOI: 10.1002/Prot.20316  0.654
2004 Crowther RL, Remeta DP, Minetti CA, Das D, Montano SP, Georgiadis MM. Structural and energetic characterization of nucleic acid-binding to the fingers domain of Moloney murine leukemia virus reverse transcriptase. Proteins. 57: 15-26. PMID 15326591 DOI: 10.1002/Prot.20224  0.716
2004 Das D, Georgiadis MM. The crystal structure of the monomeric reverse transcriptase from Moloney murine leukemia virus. Structure (London, England : 1993). 12: 819-29. PMID 15130474 DOI: 10.1016/J.Str.2004.02.032  0.673
2001 Das D, Georgiadis MM. A directed approach to improving the solubility of Moloney murine leukemia virus reverse transcriptase. Protein Science : a Publication of the Protein Society. 10: 1936-41. PMID 11567084 DOI: 10.1110/Ps.16301  0.665
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