Andre Juffer: search on Z-Library

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1

A flexible triangulation method to describe the solvent-accessible surface of biopolymers

André H. Juffer, Hans J. Vogel

Journal:

Journal of Computer-Aided Molecular Design

Year:

1998

Language:

english

File:

PDF, 1.73 MB

english, 1998

2

Comparative modeling studies of the calmodulin-like domain of calcium-dependent protein kinase from soybean

Aalim M. Weljie, Teresa E. Clarke, André H. Juffer, Alice C. Harmon, Hans J. Vogel

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2000

Language:

english

File:

PDF, 479 KB

english, 2000

3

pKa calculations of calbindin D9k: Effects of Ca2+ binding, protein dielectric constant, and ionic strength

André H. Juffer, Hans J. Vogel

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2000

Language:

english

File:

PDF, 217 KB

english, 2000

4

Conformational changes upon calcium binding and phosphorylation in a synthetic fragment of calmodulin

Luca Settimo, Serena Donnini, André H. Juffer, Robert W. Woody, Oriano Marin

Journal:

Year:

2007

Language:

english

File:

PDF, 550 KB

english, 2007

5

Calculation of affinities of peptides for proteins

Serena Donnini, André H. Juffer

Journal:

Journal of Computational Chemistry

Year:

2004

Language:

english

File:

PDF, 437 KB

english, 2004

6

Incorporating the effect of ionic strength in free energy calculations using explicit ions

Serena Donnini, Alan E. Mark, André H. Juffer, Alessandra Villa

Journal:

Journal of Computational Chemistry

Year:

2005

Language:

english

File:

PDF, 265 KB

english, 2005

7

Expanding the lysyl hydroxylase toolbox: New insights into the localization and activities of lysyl hydroxylase 3 (LH3)

Raili Myllylä, Chunguang Wang, Jari Heikkinen, Andre Juffer, Outi Lampela, Maija Risteli, Heli Ruotsalainen, Antti Salo, Laura Sipilä

Journal:

Journal of Cellular Physiology

Year:

2007

Language:

english

File:

PDF, 346 KB

english, 2007

8

A flexible loop controlling the enzymatic activity and specificity in a glycosyl hydrolase family 19 endochitinase from barley seeds (Hordeum vulgare L.)

Tamo Fukamizo, Ryoh Miyake, Atsushi Tamura, Takayuki Ohnuma, Karen Skriver, Niko V. Pursiainen, André H. Juffer

Journal:

Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics

Year:

2009

Language:

english

File:

PDF, 790 KB

english, 2009

9

A boundary element formulation of protein electrostatics with explicit ions

Weidong Xin, André H. Juffer

Journal:

Journal of Computational Physics

Year:

2007

Language:

english

File:

PDF, 373 KB

english, 2007

10

A previously unobserved conformation for the human Pex5p receptor suggests roles for intrinsic flexibility and rigid domain motions in ligand binding

Will A Stanley, Niko V Pursiainen, Elspeth F Garman, André H Juffer, Matthias Wilmanns, Petri Kursula

Journal:

BMC Structural Biology

Year:

2007

Language:

english

File:

PDF, 2.29 MB

english, 2007

11

Modeling of substrates sorption into acetylcholinesterase and butyrylcholinesterase active sites using molecular docking method

Daria Belinskaya, Natalia Shestakova, Juffer André

Journal:

Chemistry Central Journal

Year:

2008

Language:

english

File:

PDF, 76 KB

english, 2008

12

Comparison of atomic solvation parametric sets: Applicability and limitations in protein folding and binding

André H. Juffer, Frank Eisenhaber, Simon J. Hubbard, Dirk Walther, Patrick Argos

Journal:

Protein Science

Year:

1995

Language:

english

File:

PDF, 4.32 MB

english, 1995

13

Comparison of atomic solvation parameter sets: Applicability and limitations in protein folding and binding

Andre H. Juffer, Frank Eisenhaber, Simon J. Hubbard, Dirk Walther, Patrick Argos

Journal:

Protein Science

Year:

1996

Language:

english

File:

PDF, 79 KB

english, 1996

14

Theoretical investigations of prostatic acid phosphatase

Satyan Sharma, Päivi Pirilä, Helena Kaija, Katja Porvari, Pirkko Vihko, André H. Juffer

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 552 KB

english, 2005

15

The planar conformation of a strained proline ring: A QM/MM study

Serena Donnini, Gerrit Groenhof, Rik K. Wierenga, André H. Juffer

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2006

Language:

english

File:

PDF, 284 KB

english, 2006

16

Inclusion of ionization states of ligands in affinity calculations

Serena Donnini, Alessandra Villa, Gerrit Groenhof, Alan E. Mark, Rik K. Wierenga, André H. Juffer

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2009

Language:

english

File:

PDF, 294 KB

english, 2009

17

Success and pitfalls of the dielectric continuum model in quantum chemical calculations

Alex H. De Vries, Piet Th. Van Duijnen, André H. Juffer

Journal:

International Journal of Quantum Chemistry

Year:

1993

Language:

english

File:

PDF, 918 KB

english, 1993

18

A novel mutation of the fumarase gene in a family with autosomal recessive fumarase deficiency

Anne M. Remes, Sirpa A. Filppula, Heikki Rantala, Jaakko Leisti, Aimo Ruokonen, Satyan Sharma, André H. Juffer, J. Kalervo Hiltunen

Journal:

Journal of Molecular Medicine

Year:

2004

Language:

english

File:

PDF, 486 KB

english, 2004

19

Theoretical pKa calculations of proteins; the tyrosine and lysine residues of b-elicitin

Hans J. Vogel, André H. Juffer

Journal:

Theoretical Chemistry Accounts: Theory, Computation, and Modeling (Theoretica Chimica Acta)

Year:

1999

Language:

english

File:

PDF, 197 KB

english, 1999

20

A class V chitinase fromArabidopsis thaliana: gene responses, enzymatic properties, and crystallographic analysis

Takayuki Ohnuma, Tomoyuki Numata, Takuo Osawa, Mamiko Mizuhara, Outi Lampela, André H. Juffer, Karen Skriver, Tamo Fukamizo

Journal:

Year:

2011

Language:

english

File:

PDF, 874 KB

english, 2011

21

The electric potential of a macromolecule in a solvent: A fundamental approach

Andre H Juffer, Herman J.C Berendsen

Journal:

Journal of Computational Physics

Year:

1991

Language:

english

File:

PDF, 104 KB

english, 1991

22

Quantum chemistry in the condensed phase: an extended direct reaction field approach

Piet Th. van Duijnen, André H. Juffer, Hans P. Dijkman

Journal:

Journal of Molecular Structure: THEOCHEM

Year:

1992

Language:

english

File:

PDF, 706 KB

english, 1992

23

Crystal Structure of Yeast Peroxisomal Multifunctional Enzyme: Structural Basis for Substrate Specificity of (3R)-hydroxyacyl-CoA Dehydrogenase Units

Mari S. Ylianttila, Niko V. Pursiainen, Antti M. Haapalainen, André H. Juffer, Yves Poirier, J. Kalervo Hiltunen, Tuomo Glumoff

Journal:

Journal of Molecular Biology

Year:

2006

Language:

english

File:

PDF, 736 KB

english, 2006

24

Structural Enzymological Studies of 2-Enoyl Thioester Reductase of the Human Mitochondrial FAS II Pathway: New Insights into Its Substrate Recognition Properties

Zhi-Jun Chen, Regina Pudas, Satyan Sharma, Oliver S. Smart, André H. Juffer, J. Kalervo Hiltunen, Rik K. Wierenga, Antti M. Haapalainen

Journal:

Journal of Molecular Biology

Year:

2008

Language:

english

File:

PDF, 2.53 MB

english, 2008

25

Dimerization of human lysyl hydroxylase 3 (LH3) is mediated by the amino acids 541–547

Jari Heikkinen, Maija Risteli, Outi Lampela, Paula Alavesa, Marjo Karppinen, André H. Juffer, Raili Myllylä

Journal:

Year:

2011

Language:

english

File:

PDF, 548 KB

english, 2011

26

Modelling of translation of human protein disulfide isomerase in Escherichia coli—A case study of gene optimisation

Olli Niemitalo, Antje Neubauer, Ulf Liebal, Johanna Myllyharju, André H. Juffer, Peter Neubauer

Journal:

Journal of Biotechnology

Year:

2005

Language:

english

File:

PDF, 364 KB

english, 2005

27

High-temperature cultivation and 5′ mRNA optimization are key factors for the efficient overexpression of thermostable Deinococcus geothermalis purine nucleoside phosphorylase in Escherichia coli

Kathleen Szeker, Olli Niemitalo, Marco G. Casteleijn, André H. Juffer, Peter Neubauer

Journal:

Journal of Biotechnology

Year:

2011

Language:

english

File:

PDF, 621 KB

english, 2011

28

Molecular Dynamics Study of Peptide-Bilayer Adsorption

Shepherd, Craig M., Schaus, Kristine A., Vogel, Hans J., Juffer, André H.

Journal:

Biophysical Journal

Year:

2001

Language:

english

File:

PDF, 734 KB

english, 2001

29

The Enolization Chemistry of a Thioester-Dependent Racemase: The 1.4 Å Crystal Structure of a Reaction Intermediate Complex Characterized by Detailed QM/MM Calculations

Sharma, Satyan, Bhaumik, Prasenjit, Schmitz, Werner, Venkatesan, Rajaram, Hiltunen, J. Kalervo, Conzelmann, Ernst, Juffer, André H., Wierenga, Rik K.

Journal:

Journal of Physical Chemistry B

Year:

2012

Language:

english

File:

PDF, 3.25 MB

english, 2012

30

Theoretical calculations of acid-dissociation constants of proteins

Juffer, André H

Journal:

Biochemistry and Cell Biology

Year:

1998

File:

PDF, 222 KB

1998

31

Increasing the quality of recombinant products – Higher attraction of ribosomes leads to suppression of secondary ribosome binding sites

Ulf Liebal, Olli Niemitalo, Anu Mursula, André Juffer…

Journal:

Microbial Cell Factories

Year:

2006

Language:

english

File:

PDF, 190 KB

english, 2006

32

Conformational Analysis of Glutathione in Aqueous Solution with Molecular Dynamics

Lampela, Outi, Juffer, André H., Rauk, Arvi

Journal:

Journal of Physical Chemistry A

Year:

2003

Language:

english

File:

PDF, 498 KB

english, 2003

33

Protein–membrane electrostatic interactions: Application of the Lekner summation technique

Juffer, André H., Shepherd, Craig M., Vogel, Hans J.

Journal:

The Journal of Chemical Physics

Year:

2001

Language:

english

File:

PDF, 523 KB

english, 2001

34

An Atomistic Model for Assembly of Transmembrane Domain of T cell Receptor Complex

Sharma, Satyan, Juffer, André H.

Journal:

Journal of the American Chemical Society

Year:

2013

Language:

english

File:

PDF, 3.14 MB

english, 2013

35

Physical Properties of Model Phosphatidylcholine Bilayers containing Diacylglycerol (DAG): A Molecular Dynamics Simulations Study

Beis, Ioannis, Juffer, André, Weckström, Matti, Hyvönen, Marja

Journal:

Biophysical Journal

Year:

2013

Language:

english

File:

PDF, 75 KB

english, 2013

36

The structure of the CD3ζζ transmembrane dimer in lipid bilayers

Sharma, Satyan, Lensink, Marc F., Juffer, André H.

Journal:

Biochimica et Biophysica Acta (BBA) - Biomembranes

Year:

2014

Language:

english

File:

PDF, 1.65 MB

english, 2014

37

Phylogenetic relationships and classification of thiolases and thiolase-like proteins of Mycobacterium tuberculosis and Mycobacterium smegmatis

Anbazhagan, Padmanabhan, Harijan, Rajesh K., Kiema, Tiila R., Janardan, Neelanjana, Murthy, M.R.N., Michels, Paul A.M., Juffer, André H., Wierenga, Rik K.

Journal:

Year:

2014

Language:

english

File:

PDF, 1.11 MB

english, 2014

38

Effects of Diacylglycerols (DAGS) and Arachidonic Acid (AA) on the Physical Properties of Model Lipid Bilayers: A Molecular Dynamics Simulations Study

Beis, Ioannis, Weckström, Matti, Juffer, André, Hyvönen, Marja

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 39 KB

english, 2014

39

A DFT Study on the Formation of a Phosphohistidine Intermediate in Prostatic Acid Phosphatase

Sharma, Satyan, Rauk, Arvi, Juffer, André H.

Journal:

Journal of the American Chemical Society

Year:

2008

Language:

english

File:

PDF, 1.64 MB

english, 2008

40

Calculating Acid-Dissociation Constants of Proteins Using the Boundary Element Method

Juffer, André H., Argos, Patrick, Vogel, Hans J.

Journal:

Journal of Physical Chemistry B

Year:

1997

Language:

english

File:

PDF, 182 KB

english, 1997

41

Hydrolysis of phosphohistidine in water and in prostatic acid phosphatase

Sharma, Satyan, Juffer, André H.

Journal:

Chemical Communications

Year:

2009

Language:

english

File:

PDF, 1.04 MB

english, 2009

42

Computer Modeling of Brain Tumor Growth

Juffer, Andre, Marin, U., Niemitalo, O., Koivukangas, J.

Journal:

Mini Reviews in Medicinal Chemistry

Year:

2008

Language:

english

File:

PDF, 541 KB

english, 2008

43

Comparison of non-sequential sets of protein residues

Garma, Leonardo D., Juffer, André H.

Journal:

Computational Biology and Chemistry

Year:

2016

Language:

english

File:

PDF, 4.38 MB

english, 2016

44

Structure-Based Classification of Fad Binding Sites: A Comparative Study of Structural Alignment Tools

Garma, Leonardo D., Medina, Milagros, Juffer, André H.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2016

Language:

english

File:

PDF, 2.02 MB

english, 2016

45

Retrieval-independent localization of lysyl hydroxylase in the endoplasmic reticulum via a peptide fold in its iron-binding domain

SUOKAS, Marko, LAMPELA, Outi, JUFFER, André H., MYLLYLÄ, Raili, KELLOKUMPU, Sakari

Journal:

Biochemical Journal

Year:

2003

Language:

english

File:

PDF, 276 KB

english, 2003

46

Atomic resolution view into the structure–function relationships of the human myelin peripheral membrane protein P2

Ruskamo, Salla, Yadav, Ravi P., Sharma, Satyan, Lehtimäki, Mari, Laulumaa, Saara, Aggarwal, Shweta, Simons, Mikael, Bürck, Jochen, Ulrich, Anne S., Juffer, André H., Kursula, Inari, Kursula, Petri

Journal:

Acta Crystallographica Section D Biological Crystallography

Year:

2014

File:

PDF, 312 KB

2014

47

GSK3β-Dependent Phosphorylation Alters DNA Binding, Transactivity and Half-Life of the Transcription Factor USF2

Horbach, Tina, Chi, Tabughang Franklin, Götz, Claudia, Sharma, Satyan, Juffer, André H., Dimova, Elitsa Y., Kietzmann, Thomas, Tsuji, Yoshiaki

Journal:

Year:

2014

Language:

english

File:

PDF, 1.55 MB

english, 2014

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