| Research Publications |
| 31. |
Interface of apoptotic protein complexes has distinct properties.
Pralay Mitra,
Riddhiman Dhar and
Debnath Pal.
In Silico Biol. 9, 0029 (2009)
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| 30. |
Inferring molecular function: contributions from functional linkages.
Arturo Medrano-Soto,
Debnath Pal
and David Eisenberg.
Trends in Genetics 24, 587-590 (2008)
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| 29. |
Functionally important segments in proteins dissected using Gene Ontology and geometric clustering of peptide fragments.
K. Manikandan,
Debnath Pal,
S. Ramakumar,
Nathan E Brener,
Seetharama Iyenger,
Guna Seetharaman.
Genome Biology , 9:R52(2008)
PDF | Cover Page
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| 28. |
The Saccharomyces cerevisiae Hop1 protein zinc finger motif binds to the Holliday junction and distorts the DNA structure: implications for Holliday junction migration.
Pankaj Tripathy,
Debnath Pal
and Kalappa Muniyappa.
Biochemistry 46, 12530-12542 (2007)
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| 27. |
Functional Linkages can Reveal Protein Complexes for Structure Determination.
Sul-Min Kim, Peter M. Bowers,
Debnath Pal
, Michael Strong, Thomas C. Terwilliger, Markus Kaufmann and David Eisenberg.
Structure 15, 1079-1089 (2007).
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| 26. |
On Gene Ontology and Function Annotation.
Debnath Pal.
Bioinformation 1, 97-98 (2006).
PDF
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| 25. |
Inference of protein function from protein structure.
Debnath Pal
and David Eisenberg.
Structure 13, 121-130 (2005). (http://www.doe-mbi.ucla.edu/Services/ProKnow)(Focus Article)(Among Top 20 Downloads at Structure until April 2005)
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| 24. |
Disulfide bonds, their stereospecific environment and conservation in protein structures. Rajasri Bhattacharyya,
Debnath Pal
and Pinak Chakrabarti.
Protein Engineering Design and Selection 17, 795-808 (2004).
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| 23. |
New principles of protein structure: nest, eggs and what next?
Debnath Pal
, Juergen Suehnel and Manfred S. Weiss.
Angewandte Chemie 41, 4663-4665(2002).
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| 22. |
Secondary structures at polypeptide-chain termini and their features. Rajasri Bhattacharyya,
Debnath Pal
and Pinak Chakrabarti.
Acta Crystallographica D 58, 1793-1802(2002).
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| 21. |
An overview on 2-methyl-2,4-pentanediol in crystallization and in crystals of biological macromolecules. Kanchan Anand,
Debnath Pal
and Rolf Hilgenfeld.
Proceedings of the ICCBM9 conference, Acta Crystallographica D Supplement 58, 1722-1728 (2002).
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| 20. |
Silver(I) oxide-silver halide mediated alcoholysis of O-benzoyl-myo-inositol 1,3,5-orthoformates: intramolecular assistance by sulfonyl group. Thoniyot Praveen, Tanya Das, Kana M. Sureshan, Mysore S. Shashidhar, Uttamkumar Samanta,
Debnath Pal
and Pinak Chakrabarti.
Journal of the Chemical Society, Perkin Transactions 2 358-365 (2002).
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| 19. |
On residues in the the disallowed region of the Ramachandran map.
Debnath Pal
and Pinak Chakrabarti.
Biopolymers 63, 195-206 (2002).
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| 18. |
Conformational properties of a-tubulin tail peptide: implications for tail-body interaction.
Debnath Pal
, Pradip Mahapatra, Tapas Manna, Pinak Chakrabarti, Bhabatarak Bhattacharyya, Anirban Banerjee, Gautam Basu and Siddhartha Roy.
Biochemistry 40, 15512-15519 (2001).
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| 17. |
More hydrogen bonds for the (structural) biologist. Manfred S. Weiss, Maria Brandl, Jurgen Sünhel,
Debnath Pal
and Rolf Hilgenfeld.
Trends in Biochemical Sciences 26, 521-523 (2001).
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| 16. |
Non-hydrogen bond interactions involving the methionine sulfur atom.
Debnath Pal
and Pinak Chakrabarti.
Journal of Biomolecular Structure and Dynamics 19, 115-128 (2001).
PDF
Fig2a and Fig2b
Fig2c
Fig2d
Fig4a
Fig6a and Fig6b
Fig6c
Fig6d
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| 15. |
Interrelationships of side-chain and main-chain conformations in proteins. Pinak Chakrabarti and
Debnath Pal
.
Progress in Biophysics and Molecular Biology 76, 1-102 (2001).
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| 14. |
Conformational similarity indices between different residues in proteins and a-helix propensities.
Debnath Pal
and Pinak Chakrabarti.
Journal of Biomolecular Structure and Dynamics 18, 273-280 (2000).
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| 13. |
b-sheet propensity and its correlation with parameters based on conformation.
Debnath Pal
and Pinak Chakrabarti.
Acta Crystallographica D56, 589-594 (2000).
PDF
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| 12. |
Synthesis of 11b-(4-dimethylaminophenyl)-17b-hydroxy-17a-(3-methyl-1-butynyl)-4,9-estradien-3-one and 11b-(4-acetophenyl)-17b-hydroxy-17a-(3-methyl-1-butynyl)-4,9-estradien-3-one: Two new analogues of mifepristone (RU-486). Braja G. Hazra, Sourav Basu, Vandana S. Pore, Padmaker L. Joshi,
Debnath Pal
and Pinak Chakrabarti.
Steroids 65, 157-162 (2000).
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| 11. |
Terminal residues in protein chains: residue preference and conformation.
Debnath Pal
and Pinak Chakrabarti.
Biopolymers 53, 467-475 (2000).
PDF
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| 10. |
Environment of tryptophan side chains in proteins. Uttamkumar Samanta,
Debnath Pal
and Pinak Chakrabarti.
Proteins: Structure, Function and Genetics 38, 288-300 (2000).
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| 9. |
Cis peptide bonds in proteins: residues involved, their conformation, interactions and locations.
Debnath Pal
and Pinak Chakrabarti.
Journal of Molecular Biology 294, 271-288 (1999).
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| 8. |
Packing of aromatic rings against tryptophan residues in proteins. Uttamkumar Samanta,
Debnath Pal
and Pinak Chakrabarti.
Acta Crystallographica D55, 1421-1427 (1999).
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| 7. |
Graphical representation of salient conformational features of protein residues.
Debnath Pal
and Pinak Chakrabarti.
Protein Engineering 12, 523-526 (1999).
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| 6. |
Estimates of the loss of main-chain conformational entropy of different residues on protein folding.
Debnath Pal
and Pinak Chakrabarti.
Proteins: Structure, Function and Genetics 36, 332-339 (1999).
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| 5. |
Main-chain conformational features at different conformations of the side-chains in proteins. Pinak Chakrabarti and
Debnath Pal
.
Protein Engineering 11, 631-647 (1998).
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| 4. |
Different types of interactions involving cysteine sulfhydryl group in proteins.
Debnath Pal
and Pinak Chakrabarti.
Journal of Biomolecular Structure and Dynamics 15, 1059-1072 (1998).
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| 3. |
Push-pull butadienes: Evidence for a possible C-H...S hydrogen bond in 4-(Methylthio)-4-nitro-1-(pyrrolidin-1-yl)-buta-1,3-diene. Sheetal S. Surange, Govindaraj Kumaran, Srinivasachari Rajappa,
Debnath Pal
and Pinak Chakrabarti.
Helv. Chimica Acta 80, 2329-2336 (1997).
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| 2. |
An electrophile-nucleophile interaction in metalloprotein structures. Pinak Chakrabarti and
Debnath Pal
.
Protein Science 6, 851-859 (1997).
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| 1. |
Stereodivergent C-C bond formation on arene-chromium template: endo-selective allylation by Hosomi-Sakurai reaction. S. Sur, S. Ganesh,
D. Pal
, P. Chakrabarti and A. Sarkar.
Journal of Organic Chemistry 61, 8362-8363 (1996).
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