Andrić, Jelena M.

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Authority KeyName Variants
orcid::0000-0002-9827-2543
  • Andrić, Jelena M. (8)
  • Živković, Jelena M. (7)
  • Živković, Jelena (1)

Author's Bibliography

Water: new aspect of hydrogen bonding in the solid state

Milovanović, Milan R.; Stanković, Ivana M.; Živković, Jelena; Ninković, Dragan; Hall, Michael B.; Zarić, Snežana

(International Union of Crystallography (IUCr), 2022)

TY  - JOUR
AU  - Milovanović, Milan R.
AU  - Stanković, Ivana M.
AU  - Živković, Jelena
AU  - Ninković, Dragan
AU  - Hall, Michael B.
AU  - Zarić, Snežana
PY  - 2022
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/5326
AB  - All water–water contacts in the crystal structures from the Cambridge Structural
Database with dOO   4.0 A˚ have been found. These contacts were analysed on
the basis of their geometries and interaction energies from CCSD(T)/CBS
calculations. The results show 6729 attractive water–water contacts, of which
4717 are classical hydrogen bonds (dOH   3.0 A˚ and     120 ) with most being
stronger than  3.3 kcal mol 1
. Beyond the region of these hydrogen bonds,
there is a large number of attractive interactions (2062). The majority are
antiparallel dipolar interactions, where the O—H bonds of two water molecules
lying in parallel planes are oriented antiparallel to each other. Developing
geometric criteria for these antiparallel dipoles ( 1,  2   160 , 80       140  and
THOHO > 40 ) yielded 1282 attractive contacts. The interaction energies of these
antiparallel oriented water molecules are up to  4.7 kcal mol 1
, while most of
the contacts have interaction energies in the range  0.9 to  2.1 kcal mol 1
. This
study suggests that the geometric criteria for defining attractive water–water
interactions should be broader than the classical hydrogen-bonding criteria, a
change that may reveal undiscovered and unappreciated interactions controlling
molecular structure and chemistry
PB  - International Union of Crystallography (IUCr)
T2  - IUCrJ
T1  - Water: new aspect of hydrogen bonding in the solid state
VL  - 9
SP  - 639
EP  - 647
DO  - 10.1107/S2052252522006728
ER  - 
@article{
author = "Milovanović, Milan R. and Stanković, Ivana M. and Živković, Jelena and Ninković, Dragan and Hall, Michael B. and Zarić, Snežana",
year = "2022",
abstract = "All water–water contacts in the crystal structures from the Cambridge Structural
Database with dOO   4.0 A˚ have been found. These contacts were analysed on
the basis of their geometries and interaction energies from CCSD(T)/CBS
calculations. The results show 6729 attractive water–water contacts, of which
4717 are classical hydrogen bonds (dOH   3.0 A˚ and     120 ) with most being
stronger than  3.3 kcal mol 1
. Beyond the region of these hydrogen bonds,
there is a large number of attractive interactions (2062). The majority are
antiparallel dipolar interactions, where the O—H bonds of two water molecules
lying in parallel planes are oriented antiparallel to each other. Developing
geometric criteria for these antiparallel dipoles ( 1,  2   160 , 80       140  and
THOHO > 40 ) yielded 1282 attractive contacts. The interaction energies of these
antiparallel oriented water molecules are up to  4.7 kcal mol 1
, while most of
the contacts have interaction energies in the range  0.9 to  2.1 kcal mol 1
. This
study suggests that the geometric criteria for defining attractive water–water
interactions should be broader than the classical hydrogen-bonding criteria, a
change that may reveal undiscovered and unappreciated interactions controlling
molecular structure and chemistry",
publisher = "International Union of Crystallography (IUCr)",
journal = "IUCrJ",
title = "Water: new aspect of hydrogen bonding in the solid state",
volume = "9",
pages = "639-647",
doi = "10.1107/S2052252522006728"
}
Milovanović, M. R., Stanković, I. M., Živković, J., Ninković, D., Hall, M. B.,& Zarić, S.. (2022). Water: new aspect of hydrogen bonding in the solid state. in IUCrJ
International Union of Crystallography (IUCr)., 9, 639-647.
https://doi.org/10.1107/S2052252522006728
Milovanović MR, Stanković IM, Živković J, Ninković D, Hall MB, Zarić S. Water: new aspect of hydrogen bonding in the solid state. in IUCrJ. 2022;9:639-647.
doi:10.1107/S2052252522006728 .
Milovanović, Milan R., Stanković, Ivana M., Živković, Jelena, Ninković, Dragan, Hall, Michael B., Zarić, Snežana, "Water: new aspect of hydrogen bonding in the solid state" in IUCrJ, 9 (2022):639-647,
https://doi.org/10.1107/S2052252522006728 . .
2
11

Study of noncovalent interactions using crystal structure data in the Cambridge Structural Database

Milovanović, Milan R.; Živković, Jelena M.; Ninković, Dragan B.; Blagojević Filipović, Jelena P.; Vojislavljević-Vasilev, Dubravka Z.; Veljković, Ivana S.; Stanković, Ivana M.; Malenov, Dušan P.; Medaković, Vesna; Veljković, Dušan Ž.; Zarić, Snežana D.

(The International Union of Crystallography (IUCr), 2021)

TY  - CONF
AU  - Milovanović, Milan R.
AU  - Živković, Jelena M.
AU  - Ninković, Dragan B.
AU  - Blagojević Filipović, Jelena P.
AU  - Vojislavljević-Vasilev, Dubravka Z.
AU  - Veljković, Ivana S.
AU  - Stanković, Ivana M.
AU  - Malenov, Dušan P.
AU  - Medaković, Vesna
AU  - Veljković, Dušan Ž.
AU  - Zarić, Snežana D.
PY  - 2021
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/5347
AB  - In the recent review it was point out that the crystal structures in the Cambridge Structural Database (CSD), collected, have contributeto various fields of chemical research such as geometries of molecules, noncovalent interactions of molecules, and large assemblies ofmolecules. The CSD also contributed to the study and the design of biologically active molecules and the study of gas storage anddelivery [1].In our group we use analysis of the crystal structures in the CSD to recognize and characterize new types of noncovalent interactionsand to study already known noncovalent interactions. Based on the data from the CSD we can determine existence of the interactions,frequency of the interactions, and preferred geometries of the interactions in the crystal structures. In addition, we perform quantumchemical calculations to evaluate the energies of the interactions. Based on the calculated potential energy surfaces for theinteractions, we can determine the most stable geometries, as well as stability of various geometries. We also can determine theinteraction energies for the preferred geometries in the crystal structures. In the cases where the most preferred geometries in thecrystal structures are not the most stable geometries at the potential energy surface, one can find significant influence of thesupramolecular structures in the crystals.Using this methodology our group recognized stacking interactions of planar metal-chelate rings; stacking interactions with organicaromatic rings and stacking interactions between two chelate rings. The calculated energies indicate strong stacking interactions ofmetal-chelate rings; the stacking of metal-chelate rings is stronger than stacking between two benzene molecules [2]. The data indicateinfluence of the metal and ligand type in the metal chelate ring on the strength of the interactions. Our results also indicate strongstacking interactions of coordinated aromatic rings [3]. Studies of interactions of coordinated water indicate stronger hydrogen bondsand stronger OH/π interactions of coordinated in comparison to noncoordianted water molecule [4,5]. The calculations on OH/Minteractions between metal ion in square-planar complexes and water molecule indicate that these interactions are among the strongesthydrogen bonds in any molecular system [6].The studies on stacking interactions of benzene molecules in the crystal structures in the CSD show preference for interactions at largehorizontal displacements, while high level quantum chemical calculations indicate significantly strong interactions at large offsets; theenergy is 70% of the strongest stacking geometry [7].
PB  - The International Union of Crystallography (IUCr)
C3  - Acta Crystallographica, section A
T1  - Study of noncovalent interactions using crystal structure data in the Cambridge Structural Database
VL  - A77
SP  - C192
DO  - 10.1107/S0108767321094903
ER  - 
@conference{
author = "Milovanović, Milan R. and Živković, Jelena M. and Ninković, Dragan B. and Blagojević Filipović, Jelena P. and Vojislavljević-Vasilev, Dubravka Z. and Veljković, Ivana S. and Stanković, Ivana M. and Malenov, Dušan P. and Medaković, Vesna and Veljković, Dušan Ž. and Zarić, Snežana D.",
year = "2021",
abstract = "In the recent review it was point out that the crystal structures in the Cambridge Structural Database (CSD), collected, have contributeto various fields of chemical research such as geometries of molecules, noncovalent interactions of molecules, and large assemblies ofmolecules. The CSD also contributed to the study and the design of biologically active molecules and the study of gas storage anddelivery [1].In our group we use analysis of the crystal structures in the CSD to recognize and characterize new types of noncovalent interactionsand to study already known noncovalent interactions. Based on the data from the CSD we can determine existence of the interactions,frequency of the interactions, and preferred geometries of the interactions in the crystal structures. In addition, we perform quantumchemical calculations to evaluate the energies of the interactions. Based on the calculated potential energy surfaces for theinteractions, we can determine the most stable geometries, as well as stability of various geometries. We also can determine theinteraction energies for the preferred geometries in the crystal structures. In the cases where the most preferred geometries in thecrystal structures are not the most stable geometries at the potential energy surface, one can find significant influence of thesupramolecular structures in the crystals.Using this methodology our group recognized stacking interactions of planar metal-chelate rings; stacking interactions with organicaromatic rings and stacking interactions between two chelate rings. The calculated energies indicate strong stacking interactions ofmetal-chelate rings; the stacking of metal-chelate rings is stronger than stacking between two benzene molecules [2]. The data indicateinfluence of the metal and ligand type in the metal chelate ring on the strength of the interactions. Our results also indicate strongstacking interactions of coordinated aromatic rings [3]. Studies of interactions of coordinated water indicate stronger hydrogen bondsand stronger OH/π interactions of coordinated in comparison to noncoordianted water molecule [4,5]. The calculations on OH/Minteractions between metal ion in square-planar complexes and water molecule indicate that these interactions are among the strongesthydrogen bonds in any molecular system [6].The studies on stacking interactions of benzene molecules in the crystal structures in the CSD show preference for interactions at largehorizontal displacements, while high level quantum chemical calculations indicate significantly strong interactions at large offsets; theenergy is 70% of the strongest stacking geometry [7].",
publisher = "The International Union of Crystallography (IUCr)",
journal = "Acta Crystallographica, section A",
title = "Study of noncovalent interactions using crystal structure data in the Cambridge Structural Database",
volume = "A77",
pages = "C192",
doi = "10.1107/S0108767321094903"
}
Milovanović, M. R., Živković, J. M., Ninković, D. B., Blagojević Filipović, J. P., Vojislavljević-Vasilev, D. Z., Veljković, I. S., Stanković, I. M., Malenov, D. P., Medaković, V., Veljković, D. Ž.,& Zarić, S. D.. (2021). Study of noncovalent interactions using crystal structure data in the Cambridge Structural Database. in Acta Crystallographica, section A
The International Union of Crystallography (IUCr)., A77, C192.
https://doi.org/10.1107/S0108767321094903
Milovanović MR, Živković JM, Ninković DB, Blagojević Filipović JP, Vojislavljević-Vasilev DZ, Veljković IS, Stanković IM, Malenov DP, Medaković V, Veljković DŽ, Zarić SD. Study of noncovalent interactions using crystal structure data in the Cambridge Structural Database. in Acta Crystallographica, section A. 2021;A77:C192.
doi:10.1107/S0108767321094903 .
Milovanović, Milan R., Živković, Jelena M., Ninković, Dragan B., Blagojević Filipović, Jelena P., Vojislavljević-Vasilev, Dubravka Z., Veljković, Ivana S., Stanković, Ivana M., Malenov, Dušan P., Medaković, Vesna, Veljković, Dušan Ž., Zarić, Snežana D., "Study of noncovalent interactions using crystal structure data in the Cambridge Structural Database" in Acta Crystallographica, section A, A77 (2021):C192,
https://doi.org/10.1107/S0108767321094903 . .

Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures

Živković, Jelena M.; Stanković, Ivana M.; Ninković, Dragan B.; Zarić, Snežana D.

(USA : American Chemical Society, 2021)

TY  - JOUR
AU  - Živković, Jelena M.
AU  - Stanković, Ivana M.
AU  - Ninković, Dragan B.
AU  - Zarić, Snežana D.
PY  - 2021
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/4562
AB  - Geometries of aromatic/aromatic interactions in crystal structures of small molecules from the Cambridge Structural
Database (CSD) (benzene/benzene, toluene/toluene, and p-phenol/p-phenol interactions) and in protein structures from the
Protein Data Bank (PDB) (Phe/Phe and Tyr/Tyr interactions) were studied and compared. The data show a larger influence of
crystal packing/surrounding, more than the influence of substituents, on geometries of aromatic/aromatic interactions. While the
interactions in crystal structures from the CSD show preference for parallel stacking interactions at the large offsets, in proteins from
the PDB, they show preference for T-shaped geometries with small offsets.
PB  - USA : American Chemical Society
T2  - Crystal Growth & Design
T1  - Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures
VL  - 21
IS  - 4
SP  - 1898
EP  - 1904
DO  - 10.1021/acs.cgd.0c01514
ER  - 
@article{
author = "Živković, Jelena M. and Stanković, Ivana M. and Ninković, Dragan B. and Zarić, Snežana D.",
year = "2021",
abstract = "Geometries of aromatic/aromatic interactions in crystal structures of small molecules from the Cambridge Structural
Database (CSD) (benzene/benzene, toluene/toluene, and p-phenol/p-phenol interactions) and in protein structures from the
Protein Data Bank (PDB) (Phe/Phe and Tyr/Tyr interactions) were studied and compared. The data show a larger influence of
crystal packing/surrounding, more than the influence of substituents, on geometries of aromatic/aromatic interactions. While the
interactions in crystal structures from the CSD show preference for parallel stacking interactions at the large offsets, in proteins from
the PDB, they show preference for T-shaped geometries with small offsets.",
publisher = "USA : American Chemical Society",
journal = "Crystal Growth & Design",
title = "Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures",
volume = "21",
number = "4",
pages = "1898-1904",
doi = "10.1021/acs.cgd.0c01514"
}
Živković, J. M., Stanković, I. M., Ninković, D. B.,& Zarić, S. D.. (2021). Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures. in Crystal Growth & Design
USA : American Chemical Society., 21(4), 1898-1904.
https://doi.org/10.1021/acs.cgd.0c01514
Živković JM, Stanković IM, Ninković DB, Zarić SD. Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures. in Crystal Growth & Design. 2021;21(4):1898-1904.
doi:10.1021/acs.cgd.0c01514 .
Živković, Jelena M., Stanković, Ivana M., Ninković, Dragan B., Zarić, Snežana D., "Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures" in Crystal Growth & Design, 21, no. 4 (2021):1898-1904,
https://doi.org/10.1021/acs.cgd.0c01514 . .
10
3

Supplementary information for: "Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures"

Živković, Jelena M.; Stanković, Ivana M.; Ninković, Dragan B.; Zarić, Snežana D.

(USA : American Chemical Society, 2021)

TY  - DATA
AU  - Živković, Jelena M.
AU  - Stanković, Ivana M.
AU  - Ninković, Dragan B.
AU  - Zarić, Snežana D.
PY  - 2021
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/4562
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/4563
AB  - Additional graphics and tables; methodology, CSD and PDB searches; results from CSD search; calculations; results from PDB search.
PB  - USA : American Chemical Society
T2  - Crystal Growth & Design
T1  - Supplementary information for: "Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures"
DO  - 10.1021/acs.cgd.0c01514.s001
ER  - 
@misc{
author = "Živković, Jelena M. and Stanković, Ivana M. and Ninković, Dragan B. and Zarić, Snežana D.",
year = "2021",
abstract = "Additional graphics and tables; methodology, CSD and PDB searches; results from CSD search; calculations; results from PDB search.",
publisher = "USA : American Chemical Society",
journal = "Crystal Growth & Design",
title = "Supplementary information for: "Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures"",
doi = "10.1021/acs.cgd.0c01514.s001"
}
Živković, J. M., Stanković, I. M., Ninković, D. B.,& Zarić, S. D.. (2021). Supplementary information for: "Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures". in Crystal Growth & Design
USA : American Chemical Society..
https://doi.org/10.1021/acs.cgd.0c01514.s001
Živković JM, Stanković IM, Ninković DB, Zarić SD. Supplementary information for: "Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures". in Crystal Growth & Design. 2021;.
doi:10.1021/acs.cgd.0c01514.s001 .
Živković, Jelena M., Stanković, Ivana M., Ninković, Dragan B., Zarić, Snežana D., "Supplementary information for: "Decisive Influence of Environment on Aromatic/Aromatic Interaction Geometries. Comparison of Aromatic/Aromatic Interactions in Crystal Structures of Small Molecules and in Protein Structures"" in Crystal Growth & Design (2021),
https://doi.org/10.1021/acs.cgd.0c01514.s001 . .

Phenol and Toluene Stacking Interactions, including Interactions at Large Horizontal Displacements. Study of Crystal Structures and Calculation of Potential Energy Surfaces

Živković, Jelena M.; Stanković, Ivana; Ninković, Dragan B.; Zarić, Snežana D.

(American Chemical Society (ACS), 2020)

TY  - JOUR
AU  - Živković, Jelena M.
AU  - Stanković, Ivana
AU  - Ninković, Dragan B.
AU  - Zarić, Snežana D.
PY  - 2020
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/3395
AB  - The study of crystal structures from the Cambridge Structural Database (CSD) shows that most of p-phenol/p-phenol and toluene/toluene stacking interactions are at large horizontal displacements (offsets) as well as benzene/benzene interactions. The interactions at large horizontal displacements are stabilized by the addition of simultaneous interactions in supramolecular structures in crystals. The stacking p-phenol/p-phenol tends to be orientated in a parallel and antiparallel fashion, while stacking toluene/toluene is almost all in an antiparallel orientation. It is in accordance with calculated interaction energies. Namely, the strongest interaction energies for parallel and antiparallel phenol/phenol dimers are -5.12 and -4.40 kcal/mol, at offsets of 1.5 and 3.0 Å, respectively, while for parallel and antiparallel toluene/toluene dimers, energies are -3.98 and -5.39 kcal/mol, at offsets of 3.0 Å. These interactions are stronger than benzene/benzene stacking (-2.85 kcal/mol), as a consequence of the presence of the substituents. Similar to benzene/benzene stacking, interactions for phenol/phenol and toluene/toluene stacking at large offsets (4.0 Å) can be strong, stronger than -2.0 kcal/mol.
PB  - American Chemical Society (ACS)
T2  - Crystal Growth and Design
T1  - Phenol and Toluene Stacking Interactions, including Interactions at Large Horizontal Displacements. Study of Crystal Structures and Calculation of Potential Energy Surfaces
VL  - 20
SP  - 1025
EP  - 1034
DO  - 10.1021/acs.cgd.9b01353
ER  - 
@article{
author = "Živković, Jelena M. and Stanković, Ivana and Ninković, Dragan B. and Zarić, Snežana D.",
year = "2020",
abstract = "The study of crystal structures from the Cambridge Structural Database (CSD) shows that most of p-phenol/p-phenol and toluene/toluene stacking interactions are at large horizontal displacements (offsets) as well as benzene/benzene interactions. The interactions at large horizontal displacements are stabilized by the addition of simultaneous interactions in supramolecular structures in crystals. The stacking p-phenol/p-phenol tends to be orientated in a parallel and antiparallel fashion, while stacking toluene/toluene is almost all in an antiparallel orientation. It is in accordance with calculated interaction energies. Namely, the strongest interaction energies for parallel and antiparallel phenol/phenol dimers are -5.12 and -4.40 kcal/mol, at offsets of 1.5 and 3.0 Å, respectively, while for parallel and antiparallel toluene/toluene dimers, energies are -3.98 and -5.39 kcal/mol, at offsets of 3.0 Å. These interactions are stronger than benzene/benzene stacking (-2.85 kcal/mol), as a consequence of the presence of the substituents. Similar to benzene/benzene stacking, interactions for phenol/phenol and toluene/toluene stacking at large offsets (4.0 Å) can be strong, stronger than -2.0 kcal/mol.",
publisher = "American Chemical Society (ACS)",
journal = "Crystal Growth and Design",
title = "Phenol and Toluene Stacking Interactions, including Interactions at Large Horizontal Displacements. Study of Crystal Structures and Calculation of Potential Energy Surfaces",
volume = "20",
pages = "1025-1034",
doi = "10.1021/acs.cgd.9b01353"
}
Živković, J. M., Stanković, I., Ninković, D. B.,& Zarić, S. D.. (2020). Phenol and Toluene Stacking Interactions, including Interactions at Large Horizontal Displacements. Study of Crystal Structures and Calculation of Potential Energy Surfaces. in Crystal Growth and Design
American Chemical Society (ACS)., 20, 1025-1034.
https://doi.org/10.1021/acs.cgd.9b01353
Živković JM, Stanković I, Ninković DB, Zarić SD. Phenol and Toluene Stacking Interactions, including Interactions at Large Horizontal Displacements. Study of Crystal Structures and Calculation of Potential Energy Surfaces. in Crystal Growth and Design. 2020;20:1025-1034.
doi:10.1021/acs.cgd.9b01353 .
Živković, Jelena M., Stanković, Ivana, Ninković, Dragan B., Zarić, Snežana D., "Phenol and Toluene Stacking Interactions, including Interactions at Large Horizontal Displacements. Study of Crystal Structures and Calculation of Potential Energy Surfaces" in Crystal Growth and Design, 20 (2020):1025-1034,
https://doi.org/10.1021/acs.cgd.9b01353 . .
15
7
14

How flexible is the water molecule structure? Analysis of crystal structures and the potential energy surface

Milovanović, Milan R.; Živković, Jelena M.; Ninković, Dragan; Stanković, Ivana; Zarić, Snežana D.

(Royal Society of Chemistry, 2020)

TY  - JOUR
AU  - Milovanović, Milan R.
AU  - Živković, Jelena M.
AU  - Ninković, Dragan
AU  - Stanković, Ivana
AU  - Zarić, Snežana D.
PY  - 2020
UR  - http://cherry.chem.bg.ac.rs/handle/123456789/3977
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/3586
AB  - Water molecules from crystal structures archived in the CSD show a relatively large range both in the bond angle and bond lengths. High level ab initio calculations at the CCSD(T)/CBS level predicted a possibility for energetically low-cost (±1 kcal mol−1) changes of the bond angle and bond lengths in a wide range, from 96.4° to 112.8° and from 0.930 Å to 0.989 Å, respectively.
PB  - Royal Society of Chemistry
T2  - Physical Chemistry Chemical Physics
T1  - How flexible is the water molecule structure? Analysis of crystal structures and the potential energy surface
VL  - 22
IS  - 7
SP  - 4138
EP  - 4143
DO  - 10.1039/C9CP07042G
ER  - 
@article{
author = "Milovanović, Milan R. and Živković, Jelena M. and Ninković, Dragan and Stanković, Ivana and Zarić, Snežana D.",
year = "2020",
abstract = "Water molecules from crystal structures archived in the CSD show a relatively large range both in the bond angle and bond lengths. High level ab initio calculations at the CCSD(T)/CBS level predicted a possibility for energetically low-cost (±1 kcal mol−1) changes of the bond angle and bond lengths in a wide range, from 96.4° to 112.8° and from 0.930 Å to 0.989 Å, respectively.",
publisher = "Royal Society of Chemistry",
journal = "Physical Chemistry Chemical Physics",
title = "How flexible is the water molecule structure? Analysis of crystal structures and the potential energy surface",
volume = "22",
number = "7",
pages = "4138-4143",
doi = "10.1039/C9CP07042G"
}
Milovanović, M. R., Živković, J. M., Ninković, D., Stanković, I.,& Zarić, S. D.. (2020). How flexible is the water molecule structure? Analysis of crystal structures and the potential energy surface. in Physical Chemistry Chemical Physics
Royal Society of Chemistry., 22(7), 4138-4143.
https://doi.org/10.1039/C9CP07042G
Milovanović MR, Živković JM, Ninković D, Stanković I, Zarić SD. How flexible is the water molecule structure? Analysis of crystal structures and the potential energy surface. in Physical Chemistry Chemical Physics. 2020;22(7):4138-4143.
doi:10.1039/C9CP07042G .
Milovanović, Milan R., Živković, Jelena M., Ninković, Dragan, Stanković, Ivana, Zarić, Snežana D., "How flexible is the water molecule structure? Analysis of crystal structures and the potential energy surface" in Physical Chemistry Chemical Physics, 22, no. 7 (2020):4138-4143,
https://doi.org/10.1039/C9CP07042G . .
6
18
8
15

Noncovalent interactions of metal complexes

Ninković, Dragan; Malenov, Dušan; Veljković, Dušan; Andrić, Jelena M.; Vojislavljević-Vasilev, Dubravka; Veljković, Ivana; Zarić, Snežana

(2019)

TY  - CONF
AU  - Ninković, Dragan
AU  - Malenov, Dušan
AU  - Veljković, Dušan
AU  - Andrić, Jelena M.
AU  - Vojislavljević-Vasilev, Dubravka
AU  - Veljković, Ivana
AU  - Zarić, Snežana
PY  - 2019
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/7502
AB  - We studied noncovalent interactions of metal complexes and described several new types of these interactions. Our studies are based on analyzing data in crystal structures from the Cambridge Structural Database (CSD) and on quantum chemical calculations. The analysis of the data from the CSD enable to recognize interactions in crystal structures and to describe the geometries of these interactions, while by quantum chemical calculations we can evaluate interaction energies and find the most stable interaction geometries.Our study of planar metal-chelate rings interactions, based on data in the CSD, showed possibility of chelate ring stacking interactions with organic aromatic rings, and stacking interactions between two chelate rings in crystal structures. The quantum chemical calculations indicate strong stacking interactions of metal-chelate rings; the stacking of metal- chelate rings is stronger than stacking between two benzene molecules.Studies of interactions of coordinated water and ammonia indicate stronger hydrogen bonds and stronger OH/π and NH/π interactions of coordinated in comparison to noncoordianted water and ammonia. Namely in the crystal structures the interaction distances are shorter, while the calculations show larger interactions energies.The calculations on OH/M interactions between metal ion in square-planar complexes and water molecule indicate that these interactions are among the strongest hydrogen bonds in any molecular system.
C3  - XVII International Conference on Coordination and Bioinorganic Chemistry, Progressive Trends in Coordination, Bioinorganic, and Applied Inorganic Chemistry, Smolenice, Slovakia, June 2-7, 2019
T1  - Noncovalent interactions of metal complexes
SP  - 122
EP  - 122
UR  - https://hdl.handle.net/21.15107/rcub_cer_7502
ER  - 
@conference{
author = "Ninković, Dragan and Malenov, Dušan and Veljković, Dušan and Andrić, Jelena M. and Vojislavljević-Vasilev, Dubravka and Veljković, Ivana and Zarić, Snežana",
year = "2019",
abstract = "We studied noncovalent interactions of metal complexes and described several new types of these interactions. Our studies are based on analyzing data in crystal structures from the Cambridge Structural Database (CSD) and on quantum chemical calculations. The analysis of the data from the CSD enable to recognize interactions in crystal structures and to describe the geometries of these interactions, while by quantum chemical calculations we can evaluate interaction energies and find the most stable interaction geometries.Our study of planar metal-chelate rings interactions, based on data in the CSD, showed possibility of chelate ring stacking interactions with organic aromatic rings, and stacking interactions between two chelate rings in crystal structures. The quantum chemical calculations indicate strong stacking interactions of metal-chelate rings; the stacking of metal- chelate rings is stronger than stacking between two benzene molecules.Studies of interactions of coordinated water and ammonia indicate stronger hydrogen bonds and stronger OH/π and NH/π interactions of coordinated in comparison to noncoordianted water and ammonia. Namely in the crystal structures the interaction distances are shorter, while the calculations show larger interactions energies.The calculations on OH/M interactions between metal ion in square-planar complexes and water molecule indicate that these interactions are among the strongest hydrogen bonds in any molecular system.",
journal = "XVII International Conference on Coordination and Bioinorganic Chemistry, Progressive Trends in Coordination, Bioinorganic, and Applied Inorganic Chemistry, Smolenice, Slovakia, June 2-7, 2019",
title = "Noncovalent interactions of metal complexes",
pages = "122-122",
url = "https://hdl.handle.net/21.15107/rcub_cer_7502"
}
Ninković, D., Malenov, D., Veljković, D., Andrić, J. M., Vojislavljević-Vasilev, D., Veljković, I.,& Zarić, S.. (2019). Noncovalent interactions of metal complexes. in XVII International Conference on Coordination and Bioinorganic Chemistry, Progressive Trends in Coordination, Bioinorganic, and Applied Inorganic Chemistry, Smolenice, Slovakia, June 2-7, 2019, 122-122.
https://hdl.handle.net/21.15107/rcub_cer_7502
Ninković D, Malenov D, Veljković D, Andrić JM, Vojislavljević-Vasilev D, Veljković I, Zarić S. Noncovalent interactions of metal complexes. in XVII International Conference on Coordination and Bioinorganic Chemistry, Progressive Trends in Coordination, Bioinorganic, and Applied Inorganic Chemistry, Smolenice, Slovakia, June 2-7, 2019. 2019;:122-122.
https://hdl.handle.net/21.15107/rcub_cer_7502 .
Ninković, Dragan, Malenov, Dušan, Veljković, Dušan, Andrić, Jelena M., Vojislavljević-Vasilev, Dubravka, Veljković, Ivana, Zarić, Snežana, "Noncovalent interactions of metal complexes" in XVII International Conference on Coordination and Bioinorganic Chemistry, Progressive Trends in Coordination, Bioinorganic, and Applied Inorganic Chemistry, Smolenice, Slovakia, June 2-7, 2019 (2019):122-122,
https://hdl.handle.net/21.15107/rcub_cer_7502 .

Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds

Andrić, Jelena M.; Stanković, Ivana; Zarić, Snežana D.

(International Union of Crystallography, 2019)

TY  - JOUR
AU  - Andrić, Jelena M.
AU  - Stanković, Ivana
AU  - Zarić, Snežana D.
PY  - 2019
UR  - http://cherry.chem.bg.ac.rs/handle/123456789/3675
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/3521
AB  - The interactions of nucleic acid bases with non-coordinated and coordinated water molecules were studied by analyzing data in the Protein Data Bank (PDB) and by quantum chemical calculations. The analysis of the data in the crystal structures from the PDB indicates that hydrogen bonds involving oxygen or nitrogen atoms of nucleic acid bases and water molecules are shorter when water is bonded to a metal ion. These results are in agreement with the quantum chemical calculations on geometries and interaction energies of hydrogen bonds; the calculations on model systems show that hydrogen bonds of nucleic acid bases with water bonded to a metal ion are stronger than hydrogen bonds with non-coordinated water. These calculated values are similar to the strength of hydrogen bonds between nucleic acid bases. The results presented in this paper may be relevant to understand the role of water molecules and metal ions in the process of replication and stabilization of nucleic acids and also to understand the possible toxicity of metal ion interactions with nucleic acids.
PB  - International Union of Crystallography
T2  - Acta Crystallographica Section B: Structural Science, Crystal Engineering and Materials
T1  - Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds
VL  - 75
SP  - 301
EP  - 309
DO  - 10.1107/S2052520619001999
ER  - 
@article{
author = "Andrić, Jelena M. and Stanković, Ivana and Zarić, Snežana D.",
year = "2019",
abstract = "The interactions of nucleic acid bases with non-coordinated and coordinated water molecules were studied by analyzing data in the Protein Data Bank (PDB) and by quantum chemical calculations. The analysis of the data in the crystal structures from the PDB indicates that hydrogen bonds involving oxygen or nitrogen atoms of nucleic acid bases and water molecules are shorter when water is bonded to a metal ion. These results are in agreement with the quantum chemical calculations on geometries and interaction energies of hydrogen bonds; the calculations on model systems show that hydrogen bonds of nucleic acid bases with water bonded to a metal ion are stronger than hydrogen bonds with non-coordinated water. These calculated values are similar to the strength of hydrogen bonds between nucleic acid bases. The results presented in this paper may be relevant to understand the role of water molecules and metal ions in the process of replication and stabilization of nucleic acids and also to understand the possible toxicity of metal ion interactions with nucleic acids.",
publisher = "International Union of Crystallography",
journal = "Acta Crystallographica Section B: Structural Science, Crystal Engineering and Materials",
title = "Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds",
volume = "75",
pages = "301-309",
doi = "10.1107/S2052520619001999"
}
Andrić, J. M., Stanković, I.,& Zarić, S. D.. (2019). Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds. in Acta Crystallographica Section B: Structural Science, Crystal Engineering and Materials
International Union of Crystallography., 75, 301-309.
https://doi.org/10.1107/S2052520619001999
Andrić JM, Stanković I, Zarić SD. Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds. in Acta Crystallographica Section B: Structural Science, Crystal Engineering and Materials. 2019;75:301-309.
doi:10.1107/S2052520619001999 .
Andrić, Jelena M., Stanković, Ivana, Zarić, Snežana D., "Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds" in Acta Crystallographica Section B: Structural Science, Crystal Engineering and Materials, 75 (2019):301-309,
https://doi.org/10.1107/S2052520619001999 . .
1
1
2

Supplementary information for: "Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds"

Andrić, Jelena M.; Stanković, Ivana; Zarić, Snežana

(International Union of Crystallography, 2019)

TY  - DATA
AU  - Andrić, Jelena M.
AU  - Stanković, Ivana
AU  - Zarić, Snežana
PY  - 2019
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/4863
AB  - Figure S1. Distance distribution for hydrogen bonds with coordinated and noncoordinated water, separately for different nucleic bases and positions; Table S1. The calculated interaction energies and distances between five nucleic bases and noncoordinated water molecules, at the B3LYP-D3/def2-TZVP (kcal/mol) and corrected for BSSE), MP2/def2-QZVP (kcal/mol) and noncorrected for BSSE) and CCSD(kcal/mol) and T)/CBS level; Table S2. The calculated interaction energies and distances at the B3LYP-D3/def2-TZVP
level between five nucleic bases and water molecules coordinated to Zn2+ ion; Table S3. A number of hydrogen bonds between nucleic bases and coordinated water, and percentage of [M(H2O)n]x+ complexes, with different kinds of metals. Figure S2. Electrostatic potential maps for the nucleic bases. Figure S3. Distribution of the distance between water oxygen and nucleic base oxygen/nitrogen found in
PDB structures for noncoordinated and coordinated water;
PB  - International Union of Crystallography
T2  - Acta Crystallographica Section B: Structural Science, Crystal Engineering and Materials
T1  - Supplementary information for: "Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds"
DO  - 10.1107/S2052520619001999/px5010sup1.pdf
ER  - 
@misc{
author = "Andrić, Jelena M. and Stanković, Ivana and Zarić, Snežana",
year = "2019",
abstract = "Figure S1. Distance distribution for hydrogen bonds with coordinated and noncoordinated water, separately for different nucleic bases and positions; Table S1. The calculated interaction energies and distances between five nucleic bases and noncoordinated water molecules, at the B3LYP-D3/def2-TZVP (kcal/mol) and corrected for BSSE), MP2/def2-QZVP (kcal/mol) and noncorrected for BSSE) and CCSD(kcal/mol) and T)/CBS level; Table S2. The calculated interaction energies and distances at the B3LYP-D3/def2-TZVP
level between five nucleic bases and water molecules coordinated to Zn2+ ion; Table S3. A number of hydrogen bonds between nucleic bases and coordinated water, and percentage of [M(H2O)n]x+ complexes, with different kinds of metals. Figure S2. Electrostatic potential maps for the nucleic bases. Figure S3. Distribution of the distance between water oxygen and nucleic base oxygen/nitrogen found in
PDB structures for noncoordinated and coordinated water;",
publisher = "International Union of Crystallography",
journal = "Acta Crystallographica Section B: Structural Science, Crystal Engineering and Materials",
title = "Supplementary information for: "Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds"",
doi = "10.1107/S2052520619001999/px5010sup1.pdf"
}
Andrić, J. M., Stanković, I.,& Zarić, S.. (2019). Supplementary information for: "Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds". in Acta Crystallographica Section B: Structural Science, Crystal Engineering and Materials
International Union of Crystallography..
https://doi.org/10.1107/S2052520619001999/px5010sup1.pdf
Andrić JM, Stanković I, Zarić S. Supplementary information for: "Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds". in Acta Crystallographica Section B: Structural Science, Crystal Engineering and Materials. 2019;.
doi:10.1107/S2052520619001999/px5010sup1.pdf .
Andrić, Jelena M., Stanković, Ivana, Zarić, Snežana, "Supplementary information for: "Binding of metal ions and water molecules to nucleic acid bases: The influence of water molecule coordination to a metal ion on water–nucleic acid base hydrogen bonds"" in Acta Crystallographica Section B: Structural Science, Crystal Engineering and Materials (2019),
https://doi.org/10.1107/S2052520619001999/px5010sup1.pdf . .

Structure of water molecule and water hydrogen bonding: joint Cambridge Structural Database and ab-initio calculations study

Milovanović, Milan R.; Živković, Jelena M.; Ninković, Dragan B.; Stanković, Ivana; Zarić, Snežana

(Sociedade Portuguesa de Química, 2019)

TY  - CONF
AU  - Milovanović, Milan R.
AU  - Živković, Jelena M.
AU  - Ninković, Dragan B.
AU  - Stanković, Ivana
AU  - Zarić, Snežana
PY  - 2019
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/6149
AB  - In this study we performed analysis of non-coordinated water containing structures archived in Cambridge Structural Database (CSD), as well as ab-initio calculations on a range of bond lengths and bond angles of water molecule and water dimers.
PB  - Sociedade Portuguesa de Química
C3  - Book of abstracts - 1st Interantional Conference on Noncovalent Interactions (ICNI 2019),2-6 September, Lisbon, Portugal
T1  - Structure of water molecule and water hydrogen bonding: joint Cambridge Structural Database and ab-initio calculations study
SP  - P101
UR  - https://hdl.handle.net/21.15107/rcub_cer_6149
ER  - 
@conference{
author = "Milovanović, Milan R. and Živković, Jelena M. and Ninković, Dragan B. and Stanković, Ivana and Zarić, Snežana",
year = "2019",
abstract = "In this study we performed analysis of non-coordinated water containing structures archived in Cambridge Structural Database (CSD), as well as ab-initio calculations on a range of bond lengths and bond angles of water molecule and water dimers.",
publisher = "Sociedade Portuguesa de Química",
journal = "Book of abstracts - 1st Interantional Conference on Noncovalent Interactions (ICNI 2019),2-6 September, Lisbon, Portugal",
title = "Structure of water molecule and water hydrogen bonding: joint Cambridge Structural Database and ab-initio calculations study",
pages = "P101",
url = "https://hdl.handle.net/21.15107/rcub_cer_6149"
}
Milovanović, M. R., Živković, J. M., Ninković, D. B., Stanković, I.,& Zarić, S.. (2019). Structure of water molecule and water hydrogen bonding: joint Cambridge Structural Database and ab-initio calculations study. in Book of abstracts - 1st Interantional Conference on Noncovalent Interactions (ICNI 2019),2-6 September, Lisbon, Portugal
Sociedade Portuguesa de Química., P101.
https://hdl.handle.net/21.15107/rcub_cer_6149
Milovanović MR, Živković JM, Ninković DB, Stanković I, Zarić S. Structure of water molecule and water hydrogen bonding: joint Cambridge Structural Database and ab-initio calculations study. in Book of abstracts - 1st Interantional Conference on Noncovalent Interactions (ICNI 2019),2-6 September, Lisbon, Portugal. 2019;:P101.
https://hdl.handle.net/21.15107/rcub_cer_6149 .
Milovanović, Milan R., Živković, Jelena M., Ninković, Dragan B., Stanković, Ivana, Zarić, Snežana, "Structure of water molecule and water hydrogen bonding: joint Cambridge Structural Database and ab-initio calculations study" in Book of abstracts - 1st Interantional Conference on Noncovalent Interactions (ICNI 2019),2-6 September, Lisbon, Portugal (2019):P101,
https://hdl.handle.net/21.15107/rcub_cer_6149 .

Study of phenol and toluene stacking interactions, including interactions at large horizontal displacements, in crystal structures and calculated potential energy surfaces

Živković, Jelena M.; Stanković, Ivana M.; Ninković, Dragan B.; Zarić, Snežana D.

(Serbian Chemical Society, 2019)

TY  - CONF
AU  - Živković, Jelena M.
AU  - Stanković, Ivana M.
AU  - Ninković, Dragan B.
AU  - Zarić, Snežana D.
PY  - 2019
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/6261
AB  - Here, we searched the Cambridge Structural Database to find interactions of stacking benzene, p-phenol and toluene dimers. Beside this, we calculated interaction energies of phenol and toluene dimers and compared with benzene dimers previously calculated.
PB  - Serbian Chemical Society
C3  - Book of Abstracts - 7th Conference of the Young Chemists of Serbia, 2.11.2019, Belgrade
T1  - Study of phenol and toluene stacking interactions, including interactions at large horizontal displacements, in crystal structures and calculated potential energy surfaces
SP  - 154
EP  - 154
UR  - https://hdl.handle.net/21.15107/rcub_cer_6261
ER  - 
@conference{
author = "Živković, Jelena M. and Stanković, Ivana M. and Ninković, Dragan B. and Zarić, Snežana D.",
year = "2019",
abstract = "Here, we searched the Cambridge Structural Database to find interactions of stacking benzene, p-phenol and toluene dimers. Beside this, we calculated interaction energies of phenol and toluene dimers and compared with benzene dimers previously calculated.",
publisher = "Serbian Chemical Society",
journal = "Book of Abstracts - 7th Conference of the Young Chemists of Serbia, 2.11.2019, Belgrade",
title = "Study of phenol and toluene stacking interactions, including interactions at large horizontal displacements, in crystal structures and calculated potential energy surfaces",
pages = "154-154",
url = "https://hdl.handle.net/21.15107/rcub_cer_6261"
}
Živković, J. M., Stanković, I. M., Ninković, D. B.,& Zarić, S. D.. (2019). Study of phenol and toluene stacking interactions, including interactions at large horizontal displacements, in crystal structures and calculated potential energy surfaces. in Book of Abstracts - 7th Conference of the Young Chemists of Serbia, 2.11.2019, Belgrade
Serbian Chemical Society., 154-154.
https://hdl.handle.net/21.15107/rcub_cer_6261
Živković JM, Stanković IM, Ninković DB, Zarić SD. Study of phenol and toluene stacking interactions, including interactions at large horizontal displacements, in crystal structures and calculated potential energy surfaces. in Book of Abstracts - 7th Conference of the Young Chemists of Serbia, 2.11.2019, Belgrade. 2019;:154-154.
https://hdl.handle.net/21.15107/rcub_cer_6261 .
Živković, Jelena M., Stanković, Ivana M., Ninković, Dragan B., Zarić, Snežana D., "Study of phenol and toluene stacking interactions, including interactions at large horizontal displacements, in crystal structures and calculated potential energy surfaces" in Book of Abstracts - 7th Conference of the Young Chemists of Serbia, 2.11.2019, Belgrade (2019):154-154,
https://hdl.handle.net/21.15107/rcub_cer_6261 .

Influence of hydrogen bonds on edge-to-face interactions between pyridine molecules

Andrić, Jelena M.; Antonijević, Ivana; Janjić, Goran; Zarić, Snežana D.

(Springer, New York, 2018)

TY  - JOUR
AU  - Andrić, Jelena M.
AU  - Antonijević, Ivana
AU  - Janjić, Goran
AU  - Zarić, Snežana D.
PY  - 2018
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/2333
AB  - Edge-to-face interactions between two pyridine molecules and the influence of simultaneous hydrogen bonding of one or both of the pyridines to water on those interactions were studied by analyzing data from ab initio calculations. The results show that the edge-to-face interactions of pyridine dimers that are hydrogen bonded to water are generally stronger than those of non-H-bonded pyridine dimers, especially when the donor pyridine forms a hydrogen bond. The binding energy of the most stable edge-to-face interacting H-bonded pyridine dimer is -5.05 kcal/mol, while that for the most stable edge-to-face interacting non-H-bonded pyridine dimer is -3.64 kcal/mol. The interaction energy data obtained in this study cannot be explained solely by the differences in electrostatic potential between pyridine and the pyridine-water dimer. However, the calculated cooperative effect can be predicted using electrostatic potential maps.
PB  - Springer, New York
T2  - Journal of Molecular Modeling
T1  - Influence of hydrogen bonds on edge-to-face interactions between pyridine molecules
VL  - 24
IS  - 3
SP  - 60
DO  - 10.1007/s00894-017-3570-y
ER  - 
@article{
author = "Andrić, Jelena M. and Antonijević, Ivana and Janjić, Goran and Zarić, Snežana D.",
year = "2018",
abstract = "Edge-to-face interactions between two pyridine molecules and the influence of simultaneous hydrogen bonding of one or both of the pyridines to water on those interactions were studied by analyzing data from ab initio calculations. The results show that the edge-to-face interactions of pyridine dimers that are hydrogen bonded to water are generally stronger than those of non-H-bonded pyridine dimers, especially when the donor pyridine forms a hydrogen bond. The binding energy of the most stable edge-to-face interacting H-bonded pyridine dimer is -5.05 kcal/mol, while that for the most stable edge-to-face interacting non-H-bonded pyridine dimer is -3.64 kcal/mol. The interaction energy data obtained in this study cannot be explained solely by the differences in electrostatic potential between pyridine and the pyridine-water dimer. However, the calculated cooperative effect can be predicted using electrostatic potential maps.",
publisher = "Springer, New York",
journal = "Journal of Molecular Modeling",
title = "Influence of hydrogen bonds on edge-to-face interactions between pyridine molecules",
volume = "24",
number = "3",
pages = "60",
doi = "10.1007/s00894-017-3570-y"
}
Andrić, J. M., Antonijević, I., Janjić, G.,& Zarić, S. D.. (2018). Influence of hydrogen bonds on edge-to-face interactions between pyridine molecules. in Journal of Molecular Modeling
Springer, New York., 24(3), 60.
https://doi.org/10.1007/s00894-017-3570-y
Andrić JM, Antonijević I, Janjić G, Zarić SD. Influence of hydrogen bonds on edge-to-face interactions between pyridine molecules. in Journal of Molecular Modeling. 2018;24(3):60.
doi:10.1007/s00894-017-3570-y .
Andrić, Jelena M., Antonijević, Ivana, Janjić, Goran, Zarić, Snežana D., "Influence of hydrogen bonds on edge-to-face interactions between pyridine molecules" in Journal of Molecular Modeling, 24, no. 3 (2018):60,
https://doi.org/10.1007/s00894-017-3570-y . .
7
2
5

Binding of metal ions and water molecules to nucleic bases

Andrić, Jelena M.; Stanković, Ivana; Zarić, Snežana

(Novi sad : Faculty of Sciences. Department of Biology and Ecology, 2018)

TY  - CONF
AU  - Andrić, Jelena M.
AU  - Stanković, Ivana
AU  - Zarić, Snežana
PY  - 2018
UR  - https://ojs.pmf.uns.ac.rs/index.php/dbe_serbica/issue/view/25/showToc
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/4861
AB  - Hydrogen bond interactions between nucleic bases and water have been analyzed by surveying Protein Data Bank (PDB) and quantum chemical calculations, for the noncoordinated and coordinated water molecule. Python homemade script was used for the PDB search and Gaussian09 program was used for the calculations of interaction energy at MP2/def2-QZVP level on model systems. The results from PDB survey and from the calculations are in agreement:
hydrogen bonds are shorter and stronger when water is bonded to a metal ion.
PB  - Novi sad : Faculty of Sciences. Department of Biology and Ecology
C3  - Biologia Serbica
T1  - Binding of metal ions and water molecules to nucleic bases
VL  - 40
IS  - 1
SP  - 98
EP  - 98
UR  - https://hdl.handle.net/21.15107/rcub_cer_4861
ER  - 
@conference{
author = "Andrić, Jelena M. and Stanković, Ivana and Zarić, Snežana",
year = "2018",
abstract = "Hydrogen bond interactions between nucleic bases and water have been analyzed by surveying Protein Data Bank (PDB) and quantum chemical calculations, for the noncoordinated and coordinated water molecule. Python homemade script was used for the PDB search and Gaussian09 program was used for the calculations of interaction energy at MP2/def2-QZVP level on model systems. The results from PDB survey and from the calculations are in agreement:
hydrogen bonds are shorter and stronger when water is bonded to a metal ion.",
publisher = "Novi sad : Faculty of Sciences. Department of Biology and Ecology",
journal = "Biologia Serbica",
title = "Binding of metal ions and water molecules to nucleic bases",
volume = "40",
number = "1",
pages = "98-98",
url = "https://hdl.handle.net/21.15107/rcub_cer_4861"
}
Andrić, J. M., Stanković, I.,& Zarić, S.. (2018). Binding of metal ions and water molecules to nucleic bases. in Biologia Serbica
Novi sad : Faculty of Sciences. Department of Biology and Ecology., 40(1), 98-98.
https://hdl.handle.net/21.15107/rcub_cer_4861
Andrić JM, Stanković I, Zarić S. Binding of metal ions and water molecules to nucleic bases. in Biologia Serbica. 2018;40(1):98-98.
https://hdl.handle.net/21.15107/rcub_cer_4861 .
Andrić, Jelena M., Stanković, Ivana, Zarić, Snežana, "Binding of metal ions and water molecules to nucleic bases" in Biologia Serbica, 40, no. 1 (2018):98-98,
https://hdl.handle.net/21.15107/rcub_cer_4861 .

Binding of metal ions and water molecules to nucleic bases

Andrić, Jelena M.; Stanković, Ivana; Zarić, Snežana

(2018)

TY  - CONF
AU  - Andrić, Jelena M.
AU  - Stanković, Ivana
AU  - Zarić, Snežana
PY  - 2018
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/4862
AB  - Poster presented at Belgrade BioInformatics Conference 2018 - BelBi 2018, Belgrade, Serbia, June 18-22, 2018
T1  - Binding of metal ions and water molecules to nucleic bases
UR  - https://hdl.handle.net/21.15107/rcub_cer_4862
ER  - 
@conference{
author = "Andrić, Jelena M. and Stanković, Ivana and Zarić, Snežana",
year = "2018",
abstract = "Poster presented at Belgrade BioInformatics Conference 2018 - BelBi 2018, Belgrade, Serbia, June 18-22, 2018",
title = "Binding of metal ions and water molecules to nucleic bases",
url = "https://hdl.handle.net/21.15107/rcub_cer_4862"
}
Andrić, J. M., Stanković, I.,& Zarić, S.. (2018). Binding of metal ions and water molecules to nucleic bases. .
https://hdl.handle.net/21.15107/rcub_cer_4862
Andrić JM, Stanković I, Zarić S. Binding of metal ions and water molecules to nucleic bases. 2018;.
https://hdl.handle.net/21.15107/rcub_cer_4862 .
Andrić, Jelena M., Stanković, Ivana, Zarić, Snežana, "Binding of metal ions and water molecules to nucleic bases" (2018),
https://hdl.handle.net/21.15107/rcub_cer_4862 .

The influence of water molecule coordination to a metal ion on water hydrogen bonds

Andrić, Jelena M.; Janjić, Goran; Ninković, Dragan B.; Zarić, Snežana D.

(Royal Soc Chemistry, Cambridge, 2012)

TY  - JOUR
AU  - Andrić, Jelena M.
AU  - Janjić, Goran
AU  - Ninković, Dragan B.
AU  - Zarić, Snežana D.
PY  - 2012
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/982
AB  - The geometry of hydrogen bonds in the crystal structures from the Cambridge Structural Database and calculated data show that water coordination to a metal ion has a remarkable influence on hydrogen bonds. The calculated energies of hydrogen bonds of coordinated water are much stronger, even if the aqua complex is neutral.
PB  - Royal Soc Chemistry, Cambridge
T2  - Physical Chemistry Chemical Physics
T1  - The influence of water molecule coordination to a metal ion on water hydrogen bonds
VL  - 14
IS  - 31
SP  - 10896
EP  - 10898
DO  - 10.1039/c2cp41125c
ER  - 
@article{
author = "Andrić, Jelena M. and Janjić, Goran and Ninković, Dragan B. and Zarić, Snežana D.",
year = "2012",
abstract = "The geometry of hydrogen bonds in the crystal structures from the Cambridge Structural Database and calculated data show that water coordination to a metal ion has a remarkable influence on hydrogen bonds. The calculated energies of hydrogen bonds of coordinated water are much stronger, even if the aqua complex is neutral.",
publisher = "Royal Soc Chemistry, Cambridge",
journal = "Physical Chemistry Chemical Physics",
title = "The influence of water molecule coordination to a metal ion on water hydrogen bonds",
volume = "14",
number = "31",
pages = "10896-10898",
doi = "10.1039/c2cp41125c"
}
Andrić, J. M., Janjić, G., Ninković, D. B.,& Zarić, S. D.. (2012). The influence of water molecule coordination to a metal ion on water hydrogen bonds. in Physical Chemistry Chemical Physics
Royal Soc Chemistry, Cambridge., 14(31), 10896-10898.
https://doi.org/10.1039/c2cp41125c
Andrić JM, Janjić G, Ninković DB, Zarić SD. The influence of water molecule coordination to a metal ion on water hydrogen bonds. in Physical Chemistry Chemical Physics. 2012;14(31):10896-10898.
doi:10.1039/c2cp41125c .
Andrić, Jelena M., Janjić, Goran, Ninković, Dragan B., Zarić, Snežana D., "The influence of water molecule coordination to a metal ion on water hydrogen bonds" in Physical Chemistry Chemical Physics, 14, no. 31 (2012):10896-10898,
https://doi.org/10.1039/c2cp41125c . .
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Classification of stacking interaction geometries of terpyridyl square-planar complexes in crystal structures

Janjić, Goran; Andrić, Jelena M.; Kapor, Agnes; Bugarcic, Zivadin D.; Zarić, Snežana D.

(Royal Soc Chemistry, Cambridge, 2010)

TY  - JOUR
AU  - Janjić, Goran
AU  - Andrić, Jelena M.
AU  - Kapor, Agnes
AU  - Bugarcic, Zivadin D.
AU  - Zarić, Snežana D.
PY  - 2010
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/672
AB  - Stacking interactions of terpyridyl square-planar complexes in crystal structures were studied analyzing data from the Cambridge Structural Database. In most of the crystal structures, two terpyridyl complexes were oriented "head-to-tail" or "head-to-head", with "head-to-tail orientation" being most prevalent. The number of structures with other orientations was very small. Based on the analysis of interacting geometries, we classified overlaps of terpyridyl complexes into six types. The types were defined by values of several geometrical parameters and all interactions of the same type had very similar overlap patterns.
PB  - Royal Soc Chemistry, Cambridge
T2  - Crystengcomm
T1  - Classification of stacking interaction geometries of terpyridyl square-planar complexes in crystal structures
VL  - 12
IS  - 11
SP  - 3773
EP  - 3779
DO  - 10.1039/b917268h
ER  - 
@article{
author = "Janjić, Goran and Andrić, Jelena M. and Kapor, Agnes and Bugarcic, Zivadin D. and Zarić, Snežana D.",
year = "2010",
abstract = "Stacking interactions of terpyridyl square-planar complexes in crystal structures were studied analyzing data from the Cambridge Structural Database. In most of the crystal structures, two terpyridyl complexes were oriented "head-to-tail" or "head-to-head", with "head-to-tail orientation" being most prevalent. The number of structures with other orientations was very small. Based on the analysis of interacting geometries, we classified overlaps of terpyridyl complexes into six types. The types were defined by values of several geometrical parameters and all interactions of the same type had very similar overlap patterns.",
publisher = "Royal Soc Chemistry, Cambridge",
journal = "Crystengcomm",
title = "Classification of stacking interaction geometries of terpyridyl square-planar complexes in crystal structures",
volume = "12",
number = "11",
pages = "3773-3779",
doi = "10.1039/b917268h"
}
Janjić, G., Andrić, J. M., Kapor, A., Bugarcic, Z. D.,& Zarić, S. D.. (2010). Classification of stacking interaction geometries of terpyridyl square-planar complexes in crystal structures. in Crystengcomm
Royal Soc Chemistry, Cambridge., 12(11), 3773-3779.
https://doi.org/10.1039/b917268h
Janjić G, Andrić JM, Kapor A, Bugarcic ZD, Zarić SD. Classification of stacking interaction geometries of terpyridyl square-planar complexes in crystal structures. in Crystengcomm. 2010;12(11):3773-3779.
doi:10.1039/b917268h .
Janjić, Goran, Andrić, Jelena M., Kapor, Agnes, Bugarcic, Zivadin D., Zarić, Snežana D., "Classification of stacking interaction geometries of terpyridyl square-planar complexes in crystal structures" in Crystengcomm, 12, no. 11 (2010):3773-3779,
https://doi.org/10.1039/b917268h . .
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