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Ragothaman M. Yennamalli - Publications

Affiliations: 
University of Wisconsin, Madison, Madison, WI 
Area:
Computational Biology
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35 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
2019 Srivastava PA, Hegg EL, Fox BG, Yennamalli RM. PreDSLpmo: a neural network-based prediction tool for functional annotation of lytic polysaccharide monooxygenases. Journal of Biotechnology. PMID 31830497 DOI: 10.1016/J.Jbiotec.2019.12.002  0.303
2019 Chauhan D, Srivastava PA, Agnihotri V, Yennamalli RM, Priyadarshini R. Structure and function prediction of arsenate reductase from Deinococcus indicus DR1. Journal of Molecular Modeling. 25: 15. PMID 30610463 DOI: 10.1007/S00894-018-3885-3  0.353
2018 Arora R, Bharval P, Sarswati S, Sen TZ, Yennamalli RM. Structural dynamics of lytic polysaccharide monoxygenases reveals a highly flexible substrate binding region. Journal of Molecular Graphics & Modelling. 88: 1-10. PMID 30612037 DOI: 10.1016/J.Jmgm.2018.12.012  0.648
2018 Panigrahi PP, Singla R, Bansal A, Junior MC, Jaitak V, Yennamalli RM, Singh TR. In silico Screening and Molecular Interaction Studies of Tetrahydrocannabinol and its Derivatives with Acetylcholine Binding Protein Current Chemical Biology. 12: 181-190. DOI: 10.2174/2212796812666180416145232  0.323
2018 Shukla A, Yennamalli RM, Singh TR. Network and structure based inference of functional single nucleotide polymorphisms associated with the TGFβ1 gene and its role in colorectal cancer (CRC) Gene Reports. 11: 131-142. DOI: 10.1016/J.Genrep.2018.03.009  0.348
2018 Arora M, Yennamalli RM, Sen TZ. Application of Molecular Simulations Toward Understanding Cellulase Mechanisms Bioenergy Research. 11: 850-867. DOI: 10.1007/s12155-018-9944-x  0.513
2018 Arora M, Yennamalli RM, Sen TZ. Application of Molecular Simulations Toward Understanding Cellulase Mechanisms Bioenergy Research. 11: 850-867. DOI: 10.1007/S12155-018-9944-X  0.609
2017 Gautam LK, Yennamalli RM, Rathore JS. Implication on the Function of Novel Xn-relE Toxin Structure of Xenorhabdus nematophila Using Homology Modeling Current Bioinformatics. 12. DOI: 10.2174/1574893611666160620093520  0.354
2017 Vij A, Yennamalli RM, Changotra H. Non-synonymous single nucleotide polymorphisms of ATG5 destabilize ATG12–ATG5/ATG16L1 complex: An enzyme with E3 like activity of ubiquitin conjugation system Meta Gene. 13: 38-47. DOI: 10.1016/J.Mgene.2017.04.008  0.379
2016 Chang CY, Lohman JR, Cao H, Tan K, Rudolf JD, Ma M, Xu W, Bingman CA, Yennamalli RM, Bigelow L, Babnigg G, Yan X, Joachimiak A, Phillips GN, Shen B. Crystal Structures of SgcE6 and SgcC, the Two-Component Monooxygenase that Catalyzes Hydroxylation of a Carrier Protein-Tethered Substrate in Biosynthesis of the Enediyne Antitumor Antibiotic C-1027 in Streptomyces globisporus. Biochemistry. PMID 27560143 DOI: 10.1021/Acs.Biochem.6B00713  0.612
2016 Jones DC, Zheng W, Huang S, Du C, Zhao X, Yennamalli RM, Sen TZ, Nettleton D, Wurtele ES, Li L. A Clade-Specific Arabidopsis Gene Connects Primary Metabolism and Senescence. Frontiers in Plant Science. 7: 983. PMID 27462324 DOI: 10.3389/Fpls.2016.00983  0.562
2016 Huang T, Chang CY, Lohman JR, Rudolf JD, Kim Y, Chang C, Yang D, Ma M, Yan X, Crnovcic I, Bigelow L, Clancy S, Bingman CA, Yennamalli RM, Babnigg G, et al. Crystal structure of SgcJ, an NTF2-like superfamily protein involved in biosynthesis of the nine-membered enediyne antitumor antibiotic C-1027. The Journal of Antibiotics. PMID 27406907 DOI: 10.1038/Ja.2016.88  0.517
2016 Cao H, Tan K, Wang F, Bigelow L, Yennamalli RM, Jedrzejczak R, Babnigg G, Bingman CA, Joachimiak A, Kharel MK, Singh S, Thorson JS, Phillips GN. Structural dynamics of a methionine γ-lyase for calicheamicin biosynthesis: Rotation of the conserved tyrosine stacking with pyridoxal phosphate. Structural Dynamics (Melville, N.Y.). 3: 034702. PMID 27191010 DOI: 10.1063/1.4948539  0.702
2016 Chauhan M, Yennamalli RM, Garlapati VK. Biochemical characterization and molecular modeling of a unique lipase fromStaphylococcus arlettaeJPBW-1 Engineering in Life Sciences. 16: 762-768. DOI: 10.1002/Elsc.201600074  0.35
2015 Singh S, Michalska K, Bigelow L, Endres M, Kharel MK, Babnigg G, Yennamalli RM, Bingman CA, Joachimiak A, Thorson JS, Phillips GN. Structural Characterization of CalS8, a TDP-alpha-D-Glucose Dehydrogenase Involved in Calicheamicin Aminodideoxypentose Biosynthesis. The Journal of Biological Chemistry. PMID 26240141 DOI: 10.1074/Jbc.M115.673459  0.475
2015 Auldridge ME, Cao H, Sen S, Franz LP, Bingman CA, Yennamalli RM, Phillips GN, Mead D, Steinmetz EJ. LucY: A Versatile New Fluorescent Reporter Protein. Plos One. 10: e0124272. PMID 25906065 DOI: 10.1371/Journal.Pone.0124272  0.568
2015 Weerth RS, Michalska K, Bingman CA, Yennamalli RM, Li H, Jedrzejczak R, Wang F, Babnigg G, Joachimiak A, Thomas MG, Phillips GN. Structure of a cupin protein Plu4264 from Photorhabdus luminescens subsp. laumondii TTO1 at 1.35 Å resolution. Proteins. 83: 383-8. PMID 25354690 DOI: 10.1002/Prot.24705  0.637
2014 Book AJ, Yennamalli RM, Takasuka TE, Currie CR, Phillips GN, Fox BG. Evolution of substrate specificity in bacterial AA10 lytic polysaccharide monooxygenases. Biotechnology For Biofuels. 7: 109. PMID 25161697 DOI: 10.1186/1754-6834-7-109  0.502
2014 Elshahawi SI, Ramelot TA, Seetharaman J, Chen J, Singh S, Yang Y, Pederson K, Kharel MK, Xiao R, Lew S, Yennamalli RM, Miller MD, Wang F, Tong L, Montelione GT, et al. Structure-guided functional characterization of enediyne self-sacrifice resistance proteins, CalU16 and CalU19. Acs Chemical Biology. 9: 2347-58. PMID 25079510 DOI: 10.1021/Cb500327M  0.646
2014 Yennamalli R, Arangarasan R, Bryden A, Gleicher M, Phillips GN. Using a commodity high-definition television for collaborative structural biology. Journal of Applied Crystallography. 47: 1153-1157. PMID 24904249 DOI: 10.1107/S160057671400939X  0.433
2014 Ilgu M, Fulton DB, Yennamalli RM, Lamm MH, Sen TZ, Nilsen-Hamilton M. An adaptable pentaloop defines a robust neomycin-B RNA aptamer with conditional ligand-bound structures. Rna (New York, N.Y.). 20: 815-24. PMID 24757168 DOI: 10.1261/Rna.041145.113  0.591
2014 Yennamalli R, Arangarasan R, Bryden A, Gleicher M, Phillips GN. Using a commodity high-definition television for collaborative structural biology Journal of Applied Crystallography. 47: 1153-1157. DOI: 10.1107/S160057671400939X  0.463
2013 Yennamalli RM, Rader AJ, Kenny AJ, Wolt JD, Sen TZ. Endoglucanases: insights into thermostability for biofuel applications. Biotechnology For Biofuels. 6: 136. PMID 24070146 DOI: 10.1186/1754-6834-6-136  0.567
2013 Wang F, Zhou M, Singh S, Yennamalli RM, Bingman CA, Thorson JS, Phillips GN. Crystal structure of SsfS6, the putative C-glycosyltransferase involved in SF2575 biosynthesis. Proteins. 81: 1277-82. PMID 23526584 DOI: 10.1002/Prot.24289  0.62
2012 Rader AJ, Yennamalli RM, Harter AK, Sen TZ. A rigid network of long-range contacts increases thermostability in a mutant endoglucanase. Journal of Biomolecular Structure & Dynamics. 30: 628-37. PMID 22731517 DOI: 10.1080/07391102.2012.689696  0.631
2011 Yennamalli RM, Wolt JD, Sen TZ. Dynamics of endoglucanase catalytic domains: implications towards thermostability. Journal of Biomolecular Structure & Dynamics. 29: 509-26. PMID 22066537 DOI: 10.1080/07391102.2011.10507402  0.636
2011 Yennamalli RM, Rader AJ, Wolt JD, Sen TZ. Thermostability in endoglucanases is fold-specific. Bmc Structural Biology. 11: 10. PMID 21291533 DOI: 10.1186/1472-6807-11-10  0.635
2011 Khan SN, Yennamalli R, Subbarao N, Khan AU. Mitoxantrone induced impediment of histone acetylation and structural flexibility of the protein. Cell Biochemistry and Biophysics. 60: 209-18. PMID 21136304 DOI: 10.1007/S12013-010-9141-9  0.324
2011 Yennamalli RM, Wolt JD, Rader AJ, Sen TZ. Sequence, Structure and Dynamics Analysis of Thermostability in Endoglucanases Biophysical Journal. 100: 536a. DOI: 10.1016/J.Bpj.2010.12.3126  0.638
2010 Yennamalli RM, Wolt JD, Sen TZ. Origins of Thermophilicity in Endoglucanases Biophysical Journal. 98: 455a. DOI: 10.1016/j.bpj.2009.12.2472  0.502
2010 Yennamalli RM, Wolt JD, Sen TZ. Origins of Thermophilicity in Endoglucanases Biophysical Journal. 98: 455a. DOI: 10.1016/J.Bpj.2009.12.2472  0.638
2009 Yennamalli R, Subbarao N, Kampmann T, McGeary RP, Young PR, Kobe B. Identification of novel target sites and an inhibitor of the dengue virus E protein Journal of Computer-Aided Molecular Design. 23: 333-341. PMID 19241120 DOI: 10.1007/S10822-009-9263-6  0.301
2008 Khan SN, Islam B, Yennamalli R, Zia Q, Subbarao N, Khan AU. Characterization of doxorubicin binding site and drug induced alteration in the functionally important structural state of oxyhemoglobin Journal of Pharmaceutical and Biomedical Analysis. 48: 1096-1104. PMID 18842373 DOI: 10.1016/J.Jpba.2008.08.030  0.353
2008 Khan SN, Islam B, Yennamalli R, Sultan A, Subbarao N, Khan AU. Interaction of mitoxantrone with human serum albumin: Spectroscopic and molecular modeling studies European Journal of Pharmaceutical Sciences. 35: 371-382. PMID 18762252 DOI: 10.1016/J.Ejps.2008.07.010  0.326
2008 Mueller DS, Kampmann T, Yennamalli R, Young PR, Kobe B, Mark AE. Histidine protonation and the activation of viral fusion proteins. Biochemical Society Transactions. 36: 43-5. PMID 18208382 DOI: 10.1042/Bst0360043  0.354
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