anomeric and gauche effects

Velikian, Irina, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Trifonova, Anna, Foldesi, Andras and Chattopadhyaya, Jyoti (2000) The RNA molecular wire: The pH-dependent change of the electronic character of adenin-9-yl is transmitted to drive the sugar and phosphate torsions in adenosine 3′, 5′-bisphosphate. Journal of Physical Organic Chemistry, 13 (5). pp. 300-305. ISSN 0894-3230 (Print), 1099-1395 (Online) (doi:10.1002/1099-1395(200005)13:5<300::AID-POC245>3.0.CO;2-W)

base stacking

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968 and Chattopadhyaya, Jyoti (2009) Electrostatic cross-modulation of the pseudoaromatic character in single-stranded RNA by nearest-neighbor interactions. Pure and Applied Chemistry, 77 (1). pp. 291-311. ISSN 0033-4545 (Print), 1365-3075 (Online) (doi:10.1351/pac200577010291)

computational study

Luzhkov, Victor B. ORCID: https://orcid.org/0000-0003-2521-9968, Osterberg, Fredrik, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Chattopadhyaya, Jyoti and Agvist, Johan (2002) Computational and NMR study of quaternary ammonium ion conformations in solution. Physical Chemistry Chemical Physics, 4 (19). pp. 4640-4647. ISSN 1463-9076 (Print), 1463-9084 (Online) (doi:10.1039/b203526j)

conformation

Luzhkov, Victor B. ORCID: https://orcid.org/0000-0003-2521-9968, Osterberg, Fredrik, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Chattopadhyaya, Jyoti and Agvist, Johan (2002) Computational and NMR study of quaternary ammonium ion conformations in solution. Physical Chemistry Chemical Physics, 4 (19). pp. 4640-4647. ISSN 1463-9076 (Print), 1463-9084 (Online) (doi:10.1039/b203526j)

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Trifonova, Anna, Thibaudeau, Christophe, Foldesi, Andras and Chattopadhyaya, Jyoti (1999) The transmission of the electronic character of guanin-9-yl drives the sugar-phosphate backbone torsions in guanosine 3',5'-bisphosphate. Angewandte Chemie - International Edition, 38 (24). pp. 3645-3650. ISSN 1433-7851 (Print), 1521-3773 (Online) (doi:10.1002/(SICI)1521-3773(19991216)38:24<3645::AID-ANIE3645>3.0.CO;2-O)

electrostatic force

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968 and Chattopadhyaya, Jyoti (2009) Electrostatic cross-modulation of the pseudoaromatic character in single-stranded RNA by nearest-neighbor interactions. Pure and Applied Chemistry, 77 (1). pp. 291-311. ISSN 0033-4545 (Print), 1365-3075 (Online) (doi:10.1351/pac200577010291)

electrostatics

Acharya, Sandipta ORCID: https://orcid.org/0000-0003-2521-9968, Barman, Jharna, Cheruku, Pradeep, Chatterjee, Subhrangsu, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Isaksson, Johan and Chattopadhyaya, Jyoti (2004) Significant pKa perturbation of nucleobases is an intrinsic property of the sequence context in DNA and RNA. Journal of the American Chemical Society, 126 (28). pp. 8674-8681. ISSN 0002-7863 (Print), 1520-5126 (Online) (doi:10.1021/ja048484c)

free energy

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Cheruku, Pradeep, Chatterjee, Subhrangshu and Chattopadhyaya, Jyoti (2004) Measurement of nucleobase pKa values in model mononucleotides shows RNA-RNA duplexes to be more stable than DNA-DNA duplexes. Journal of the American Chemical Society, 126 (9). pp. 2862-2869. ISSN 0002-7863 (Print), 1520-5126 (Online) (doi:10.1021/ja0386546)

genetics

Acharya, Sandipta ORCID: https://orcid.org/0000-0003-2521-9968, Barman, Jharna, Cheruku, Pradeep, Chatterjee, Subhrangsu, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Isaksson, Johan and Chattopadhyaya, Jyoti (2004) Significant pKa perturbation of nucleobases is an intrinsic property of the sequence context in DNA and RNA. Journal of the American Chemical Society, 126 (28). pp. 8674-8681. ISSN 0002-7863 (Print), 1520-5126 (Online) (doi:10.1021/ja048484c)

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Cheruku, Pradeep, Chatterjee, Subhrangshu and Chattopadhyaya, Jyoti (2004) Measurement of nucleobase pKa values in model mononucleotides shows RNA-RNA duplexes to be more stable than DNA-DNA duplexes. Journal of the American Chemical Society, 126 (9). pp. 2862-2869. ISSN 0002-7863 (Print), 1520-5126 (Online) (doi:10.1021/ja0386546)

hydrogen bonding

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968 and Chattopadhyaya, Jyoti (2009) Electrostatic cross-modulation of the pseudoaromatic character in single-stranded RNA by nearest-neighbor interactions. Pure and Applied Chemistry, 77 (1). pp. 291-311. ISSN 0033-4545 (Print), 1365-3075 (Online) (doi:10.1351/pac200577010291)

molecular mechanism

Acharya, Sandipta ORCID: https://orcid.org/0000-0003-2521-9968, Barman, Jharna, Cheruku, Pradeep, Chatterjee, Subhrangsu, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Isaksson, Johan and Chattopadhyaya, Jyoti (2004) Significant pKa perturbation of nucleobases is an intrinsic property of the sequence context in DNA and RNA. Journal of the American Chemical Society, 126 (28). pp. 8674-8681. ISSN 0002-7863 (Print), 1520-5126 (Online) (doi:10.1021/ja048484c)

NMR

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968 and Chattopadhyaya, Jyoti (2009) Electrostatic cross-modulation of the pseudoaromatic character in single-stranded RNA by nearest-neighbor interactions. Pure and Applied Chemistry, 77 (1). pp. 291-311. ISSN 0033-4545 (Print), 1365-3075 (Online) (doi:10.1351/pac200577010291)

Luzhkov, Victor B. ORCID: https://orcid.org/0000-0003-2521-9968, Osterberg, Fredrik, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Chattopadhyaya, Jyoti and Agvist, Johan (2002) Computational and NMR study of quaternary ammonium ion conformations in solution. Physical Chemistry Chemical Physics, 4 (19). pp. 4640-4647. ISSN 1463-9076 (Print), 1463-9084 (Online) (doi:10.1039/b203526j)

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Trifonova, Anna, Thibaudeau, Christophe, Foldesi, Andras and Chattopadhyaya, Jyoti (1999) The transmission of the electronic character of guanin-9-yl drives the sugar-phosphate backbone torsions in guanosine 3',5'-bisphosphate. Angewandte Chemie - International Edition, 38 (24). pp. 3645-3650. ISSN 1433-7851 (Print), 1521-3773 (Online) (doi:10.1002/(SICI)1521-3773(19991216)38:24<3645::AID-ANIE3645>3.0.CO;2-O)

NMR conformation

Velikian, Irina, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Trifonova, Anna, Foldesi, Andras and Chattopadhyaya, Jyoti (2000) The RNA molecular wire: The pH-dependent change of the electronic character of adenin-9-yl is transmitted to drive the sugar and phosphate torsions in adenosine 3′, 5′-bisphosphate. Journal of Physical Organic Chemistry, 13 (5). pp. 300-305. ISSN 0894-3230 (Print), 1099-1395 (Online) (doi:10.1002/1099-1395(200005)13:5<300::AID-POC245>3.0.CO;2-W)

nucleic acids

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Cheruku, Pradeep, Chatterjee, Subhrangshu and Chattopadhyaya, Jyoti (2004) Measurement of nucleobase pKa values in model mononucleotides shows RNA-RNA duplexes to be more stable than DNA-DNA duplexes. Journal of the American Chemical Society, 126 (9). pp. 2862-2869. ISSN 0002-7863 (Print), 1520-5126 (Online) (doi:10.1021/ja0386546)

nucleobase

Acharya, Sandipta ORCID: https://orcid.org/0000-0003-2521-9968, Barman, Jharna, Cheruku, Pradeep, Chatterjee, Subhrangsu, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Isaksson, Johan and Chattopadhyaya, Jyoti (2004) Significant pKa perturbation of nucleobases is an intrinsic property of the sequence context in DNA and RNA. Journal of the American Chemical Society, 126 (28). pp. 8674-8681. ISSN 0002-7863 (Print), 1520-5126 (Online) (doi:10.1021/ja048484c)

nucleobases

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Cheruku, Pradeep, Chatterjee, Subhrangshu and Chattopadhyaya, Jyoti (2004) Measurement of nucleobase pKa values in model mononucleotides shows RNA-RNA duplexes to be more stable than DNA-DNA duplexes. Journal of the American Chemical Society, 126 (9). pp. 2862-2869. ISSN 0002-7863 (Print), 1520-5126 (Online) (doi:10.1021/ja0386546)

nucleotide

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Trifonova, Anna, Thibaudeau, Christophe, Foldesi, Andras and Chattopadhyaya, Jyoti (1999) The transmission of the electronic character of guanin-9-yl drives the sugar-phosphate backbone torsions in guanosine 3',5'-bisphosphate. Angewandte Chemie - International Edition, 38 (24). pp. 3645-3650. ISSN 1433-7851 (Print), 1521-3773 (Online) (doi:10.1002/(SICI)1521-3773(19991216)38:24<3645::AID-ANIE3645>3.0.CO;2-O)

oligomerization

Acharya, Sandipta ORCID: https://orcid.org/0000-0003-2521-9968, Barman, Jharna, Cheruku, Pradeep, Chatterjee, Subhrangsu, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Isaksson, Johan and Chattopadhyaya, Jyoti (2004) Significant pKa perturbation of nucleobases is an intrinsic property of the sequence context in DNA and RNA. Journal of the American Chemical Society, 126 (28). pp. 8674-8681. ISSN 0002-7863 (Print), 1520-5126 (Online) (doi:10.1021/ja048484c)

protonation

Velikian, Irina, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Trifonova, Anna, Foldesi, Andras and Chattopadhyaya, Jyoti (2000) The RNA molecular wire: The pH-dependent change of the electronic character of adenin-9-yl is transmitted to drive the sugar and phosphate torsions in adenosine 3′, 5′-bisphosphate. Journal of Physical Organic Chemistry, 13 (5). pp. 300-305. ISSN 0894-3230 (Print), 1099-1395 (Online) (doi:10.1002/1099-1395(200005)13:5<300::AID-POC245>3.0.CO;2-W)

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Trifonova, Anna, Thibaudeau, Christophe, Foldesi, Andras and Chattopadhyaya, Jyoti (1999) The transmission of the electronic character of guanin-9-yl drives the sugar-phosphate backbone torsions in guanosine 3',5'-bisphosphate. Angewandte Chemie - International Edition, 38 (24). pp. 3645-3650. ISSN 1433-7851 (Print), 1521-3773 (Online) (doi:10.1002/(SICI)1521-3773(19991216)38:24<3645::AID-ANIE3645>3.0.CO;2-O)

RNA

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968 and Chattopadhyaya, Jyoti (2009) Electrostatic cross-modulation of the pseudoaromatic character in single-stranded RNA by nearest-neighbor interactions. Pure and Applied Chemistry, 77 (1). pp. 291-311. ISSN 0033-4545 (Print), 1365-3075 (Online) (doi:10.1351/pac200577010291)

Velikian, Irina, Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Trifonova, Anna, Foldesi, Andras and Chattopadhyaya, Jyoti (2000) The RNA molecular wire: The pH-dependent change of the electronic character of adenin-9-yl is transmitted to drive the sugar and phosphate torsions in adenosine 3′, 5′-bisphosphate. Journal of Physical Organic Chemistry, 13 (5). pp. 300-305. ISSN 0894-3230 (Print), 1099-1395 (Online) (doi:10.1002/1099-1395(200005)13:5<300::AID-POC245>3.0.CO;2-W)

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Trifonova, Anna, Thibaudeau, Christophe, Foldesi, Andras and Chattopadhyaya, Jyoti (1999) The transmission of the electronic character of guanin-9-yl drives the sugar-phosphate backbone torsions in guanosine 3',5'-bisphosphate. Angewandte Chemie - International Edition, 38 (24). pp. 3645-3650. ISSN 1433-7851 (Print), 1521-3773 (Online) (doi:10.1002/(SICI)1521-3773(19991216)38:24<3645::AID-ANIE3645>3.0.CO;2-O)

stability

Acharya, Parag ORCID: https://orcid.org/0000-0003-2521-9968, Cheruku, Pradeep, Chatterjee, Subhrangshu and Chattopadhyaya, Jyoti (2004) Measurement of nucleobase pKa values in model mononucleotides shows RNA-RNA duplexes to be more stable than DNA-DNA duplexes. Journal of the American Chemical Society, 126 (9). pp. 2862-2869. ISSN 0002-7863 (Print), 1520-5126 (Online) (doi:10.1021/ja0386546)