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1

Structure of Mycobacterial β-Oxidation Trifunctional Enzyme Reveals Its Altered Assembly and Putative Substrate Channeling Pathway

Venkatesan, Rajaram, Wierenga, Rik K.

Journal:

ACS Chemical Biology

Year:

2013

Language:

english

File:

PDF, 2.36 MB

english, 2013

2

Crystallographic and Kinetic Studies of Human Mitochondrial Acetoacetyl-CoA Thiolase: The Importance of Potassium and Chloride Ions for Its Structure and Function †,‡

Haapalainen, Antti M., Meriläinen, Gitte, Pirilä, Päivi L., Kondo, Naomi, Fukao, Toshiyuki, Wierenga, Rik K.

Journal:

Year:

2007

Language:

english

File:

PDF, 1.70 MB

english, 2007

3

The crystal structure of triosephosphate isomerase (TIM) from Thermotoga maritima: A comparative thermostability structural analysis of ten different TIM structures

Dominique Maes, Johan P. Zeelen, Narmada Thanki, Nicola Beaucamp, Marco Alvarez, Minh Hoa Dao Thi, Jan Backmann, Joseph A. Martial, Lode Wyns, Rainer Jaenicke, Rik K. Wierenga

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1999

Language:

english

File:

PDF, 538 KB

english, 1999

4

Modeling, mutagenesis, and structural studies on the fully conserved phosphate-binding loop (Loop 8) of triosephosphate isomerase: Toward a new substrate specificity

Brian V. Norledge, Anne M. Lambeir, Ruben A. Abagyan, Antje Rottmann, Anna M. Fernandez, Vladimir V. Filimonov, Martin G. Peter, Rik K. Wierenga

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2001

Language:

english

File:

PDF, 257 KB

english, 2001

5

Selektive Inhibierung der trypanosomalen Triosephosphat-Isomerase durch ein Thiopeptid

Prof. Dr. Horst Kessler, Hans Matter, Armin Geyer, Hans-Jürgen Diehl, Matthias Köck, Guido Kurz, Prof. Dr. Fred R. Opperdoes, Dr. Mia Callens, Dr. Rik K. Wierenga

Journal:

Angewandte Chemie

Year:

1992

Language:

german

File:

PDF, 410 KB

german, 1992

6

Stereoelectronic Requirements for Optimal Hydrogen-Bond-Catalyzed Enolization

Dr. Imre Pápai, Dr. Andrea Hamza, Prof. Petri M. Pihko, Prof. Rik K. Wierenga

Journal:

Chemistry - A European Journal

Year:

2011

Language:

english

File:

PDF, 687 KB

english, 2011

7

ChemInform Abstract: Oxyanion Holes and Their Mimics

Petri Pihko, Sanna Rapakko, Rik K. Wierenga

Journal:

Year:

2010

File:

PDF, 15 KB

2010

8

The biochemistry of peroxisomal β-oxidation in the yeast Saccharomyces cerevisiae

J.Kalervo Hiltunen, Anu M. Mursula, Hanspeter Rottensteiner, Rik K. Wierenga, Alexander J. Kastaniotis, Aner Gurvitz

Journal:

FEMS Microbiology Reviews

Year:

2003

Language:

english

File:

PDF, 995 KB

english, 2003

9

Structural determinants for ligand binding and catalysis of triosephosphate isomerase

Inari Kursula, Sanna Partanen, Anne-Marie Lambeir, Dmitry M. Antonov, Koen Augustyns, Rik K. Wierenga

Journal:

Year:

2001

Language:

english

File:

PDF, 584 KB

english, 2001

10

The ionization of a buried glutamic acid is thermodynamically linked to the stability of Leishmania mexicana triose phosphate isomerase

Anne-Marie Lambeir, Jan Backmann, Javier Ruiz-Sanz, Vladimir Filimonov, Jens Erik Nielsen, Inari Kursula, Brian V. Norledge, Rik K. Wierenga

Journal:

Year:

2000

Language:

english

File:

PDF, 690 KB

english, 2000

11

Comparison of the structures and the crystal contacts of trypanosomal triosephosphate isomerase in four different crystal forms

K.V. Radhakishan, Johan P.H. Zeelen, Martin E.M. Noble, Torben V. Borchert, Rik K. Wierenga

Journal:

Protein Science

Year:

1994

Language:

english

File:

PDF, 738 KB

english, 1994

12

Active site properties of monomeric triosephosphate isomerase (monoTIM) as deduced from mutational and structural studies

Wolfgang Schliebs, Narmada Thanki, Ramon Eritja, Rik Wierenga

Journal:

Protein Science

Year:

1996

Language:

english

File:

PDF, 4.76 MB

english, 1996

13

High resolution crystal structures of triosephosphate isomerase complexed with its suicide inhibitors: The conformational flexibility of the catalytic glutamate in its closed, liganded active site

Rajaram Venkatesan, Markus Alahuhta, Petri M. Pihko, Rik K. Wierenga

Journal:

Protein Science

Year:

2011

Language:

english

File:

PDF, 720 KB

english, 2011

14

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

15

High resolution crystal structures of unliganded and liganded human liver ACBP reveal a new mode of binding for the acyl-CoA ligand

Jukka P. Taskinen, Daan M. van Aalten, Jens Knudsen, Rik K. Wierenga

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2007

Language:

english

File:

PDF, 519 KB

english, 2007

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

Atomic resolution crystallography of a complex of triosephosphate isomerase with a reaction-intermediate analog: New insight in the proton transfer reaction mechanism

Markus Alahuhta, Rik K. Wierenga

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2010

Language:

english

File:

PDF, 431 KB

english, 2010

18

The crystal structure of the “open” and the “closed” conformation of the flexible loop of trypanosomal triosephosphate isomerase

Rik K. Wierenga, Martin E. M. Noble, Johan P. M. Postma, Hillie Groendijk, Kor H. Kalk, Wim G. J. Hol, Fred R. Opperdoes

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1991

Language:

english

File:

PDF, 1.69 MB

english, 1991

19

The adaptability of the active site of trypanosomal triosephosphate isomerase as observed in the crystal structures of three different complexes

Martin E. M. Noble, Rik K. Wierenga, Anne-Marie Lambeir, Fred R. Opperdoes, Andy-Mark W. H. Thunnissen, Kor H. Kalk, Hillie Groendijk, Wim G. J. Hol

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1991

Language:

english

File:

PDF, 1.63 MB

english, 1991

20

Structures of the “open” and “closed” state of trypanosomal triosephosphate isomerase, as observed in a new crystal form: Implications for the reaction mechanism

Martin E. M. Noble, Johan Ph. Zeelen, Dr. Rik K. Wierenga

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1993

Language:

english

File:

PDF, 1.33 MB

english, 1993

21

The sulfur atoms of the substrate CoA and the catalytic cysteine are required for a productive mode of substrate binding in bacterial biosynthetic thiolase, a thioester-dependent enzyme

Gitte Meriläinen, Werner Schmitz, Rik K. Wierenga, Petri Kursula

Journal:

Year:

2008

Language:

english

File:

PDF, 595 KB

english, 2008

22

Predicted nucleotide-binding properties of p21 protein and its cancer-associated variant

Wierenga, Rik K., Hol, Wim G. J.

Journal:

Year:

1983

File:

PDF, 301 KB

1983

23

Crystal structure of a Src-homology 3 (SH3) domain

Musacchio, Andrea, Noble, Martin, Pauptit, Richard, Wierenga, Rik, Saraste, Matti

Journal:

Year:

1992

File:

PDF, 700 KB

1992

24

Replacing the (Î²Î±)-unit 8 of E.coli TIM with its chicken homologue leads to a stable and active hybrid enzyme

Mainfroid, Véronique, Goraj, Karine, Rentier-Delrue, Francoise, Houbrechts, Annick, Noble, Martin E.M., Borchert, Torben V., Wierenga, Rik K., Martial, Joseph A.

Journal:

Protein Engineering Design and Selection

Year:

1993

Language:

english

File:

PDF, 2.13 MB

english, 1993

25

Characterization of the genes for fructose-bisphosphate aldolase in Trypanosoma brucei

Martine Marchand, Annick Poliszczak, Wendy C. Gibson, Rik.K. Wierenga, Fred R. Opperdoes, Paul A.M. Michels

Journal:

Molecular and Biochemical Parasitology

Year:

1988

Language:

english

File:

PDF, 748 KB

english, 1988

26

The characterization and evolutionary relationships of a trypanosomal thiolase

Muriel Mazet, Rajesh K. Harijan, Tiila-Riika Kiema, Antti M. Haapalainen, Pauline Morand, Jorge Morales, Frédéric Bringaud, Rik K. Wierenga, Paul A.M. Michels

Journal:

International Journal for Parasitology

Year:

2011

Language:

english

File:

PDF, 1.34 MB

english, 2011

27

Structural biology of the thioester-dependent degradation and synthesis of fatty acids

Prasenjit Bhaumik, M Kristian Koski, Tuomo Glumoff, J Kalervo Hiltunen, Rik K Wierenga

Journal:

Current Opinion in Structural Biology

Year:

2005

Language:

english

File:

PDF, 565 KB

english, 2005

28

The thiolase superfamily: condensing enzymes with diverse reaction specificities

Antti M. Haapalainen, Gitte Meriläinen, Rik K. Wierenga

Journal:

Trends in Biochemical Sciences

Year:

2006

Language:

english

File:

PDF, 371 KB

english, 2006

29

Insights into Src kinase functions: structural comparisons

John C Williams, Rik K Wierenga, Matti Saraste

Journal:

Trends in Biochemical Sciences

Year:

1998

Language:

english

File:

PDF, 2.40 MB

english, 1998

30

A biosynthetic thiolase in complex with a reaction intermediate: the crystal structure provides new insights into the catalytic mechanism

Yorgo Modis, Rik K Wierenga

Journal:

Year:

1999

Language:

english

File:

PDF, 292 KB

english, 1999

31

Three new crystal structures of point mutation variants of mono TIM: conformational flexibility of loop-1, loop-4 and loop-8

Torben V Borchert, KV Radha Kishan, Johan Ph Zeelen, Wolfgang Schliebs, Narmada Thanki, Ruben Abagyan, Rainer Jaenicke, Rik K Wierenga

Journal:

Year:

1995

Language:

english

File:

PDF, 1.16 MB

english, 1995

32

The crystal structure of dienoyl-CoA isomerase at 1.5 å resolution reveals the importance of aspartate and glutamate sidechains for catalysis

Yorgo Modis, Sirpa A Filppula, Dmitri K Novikov, Brian Norledge, J Kalervo Hiltunen, Rik K Wierenga

Journal:

Year:

1998

Language:

english

File:

PDF, 1.11 MB

english, 1998

33

Two crystal structures of N-acetyltransferases reveal a new fold for CoA-dependent enzymes

Yorgo Modis, Rik Wierenga

Journal:

Year:

1998

Language:

english

File:

PDF, 88 KB

english, 1998

34

Primary and Tertiary Structure Studies of p-Hydroxybenzoate Hydroxylase from Pseudomonas fluorescens : Isolation and Alignment of the CNBr Peptides; Interactions of the Protein with Flavin Adenine Dinucleotide

Jan HOFSTEENGE, Johan M. VEREIJKEN, Wicher J. WEIJER, Jaap J. BEINTEMA, Rik K. WIERENGA, Jan DRENTH

Journal:

Year:

1980

Language:

english

File:

PDF, 963 KB

english, 1980

35

p-Hydroxybenzoate Hydroxylase from Pseudomonas fluorescens : 2. Fitting of the Amino-Acid Sequence to the Tertiary Structure

Wicher J. WEIJER, Jan HOFSTEENGE, Jaap J. BEINTEMA, Rik K. WIERENGA, Jan DRENTH

Journal:

Year:

1983

Language:

english

File:

PDF, 1.25 MB

english, 1983

36

Kinetic properties of triose-phosphate isomerase from Trypanosoma brucei brucei : A comparison with the rabbit muscle and yeast enzymes

Anne-Marie LAMBEIR, Fred R. OPPERDOES, Rik K. WIERENGA

Journal:

Year:

1987

Language:

english

File:

PDF, 608 KB

english, 1987

37

Chemical modification of tyrosine-38 in P-Hydroxybenzoate hydroxylase from Pseudomonas fluorescens by 5′-P-fluorosulfonylbenzoyladenosine: A probe for the elucidation of the NADPH binding site? : Involvement in cataysis, assignment in sequence and fitting to the tertiary structure

Willem J. Van BERKEL, Franz MÜLLER, Peter A. JEKEL, Wicher J. WEIJER, Herman A. SCHREUDER, Rik K. WIERENGA

Journal:

Year:

1988

Language:

english

File:

PDF, 999 KB

english, 1988

38

Glucosephosphate isomerase from Trypanosoma brucei : Cloning and characterization of the gene and analysis of the enzyme

Martine MARCHAND, Ulco KOOYSTRA, Rik K. WIERENGA, Anne-Marie LAMBEIR, Jos Van BEEUMEN, Fred R. OPPERDOES, Paul A. M. MICHELS

Journal:

Year:

1989

Language:

english

File:

PDF, 1.23 MB

english, 1989

39

Anion binding at the active site of trypanosomal triosephosphate isomerase : Monohydrogen phosphate does not mimic sulphate

Christophe L. M. J. VERLINDE, Martin E. M. NOBLE, Kor H. KALK, Hillie GROENDIJK, Rik K. WIERENGA, Wim G. J. HOL

Journal:

Year:

1991

Language:

english

File:

PDF, 459 KB

english, 1991

40

The cytosolic and glycosomal isoenzymes of glyceraldehyde-3-phosphate dehydrogenase in Trypanosoma brucei have a distant evolutionary relationship

Paul A. M. MICHELS, Martine MARCHAND, Linda KOHL, Sylvie ALLERT, Rik K. WIERENGA, Fred R. OPPERDOES

Journal:

Year:

1991

Language:

english

File:

PDF, 847 KB

english, 1991

41

Inhibition of triosephosphate isomerase from Trypanosoma brucei with cyclic hexapeptides

Douglas A. KUNTZ, Rudolf OSOWSKI, Manfred SCHUDOK, Rik K. WIERENGA, Klaus MÜLLER, Horst KESSLER, Fred R. OPPERDOES

Journal:

Year:

1992

Language:

english

File:

PDF, 752 KB

english, 1992

42

Overexpression of trypanosomal triosephosphate isomerase in Escherichia coli and characterisation of a dimer-interface mutant

Torben V. BORCHERT, Kathryn PRATT, Johan Ph. ZEELEN, Mia CALLENS, Martin E. M. NOBLE, Fred R. OPPERDOES, Paul A. M. MICHELS, Rik K. WIERENGA

Journal:

Year:

1993

Language:

english

File:

PDF, 968 KB

english, 1993

43

Triose-phosphate isomerase of Leishmania mexicana mexicana Cloning and characterization of the gene, overexpression in Escherichia coli and analysis of the protein

Linda KOHL, Mia CALLENS, Rik K. WIERENGA, Fred R. OPPERDOES, Paul A. M. MICHELS

Journal:

Year:

1994

Language:

english

File:

PDF, 972 KB

english, 1994

44

The Purification and Characterization of the Catalytic Domain of Src Expressed in Schizosaccharomyces Pombe : Comparison of Unphosphorylated and Tyrosine Phosphorylated Species

Albert Weijland, Gitte Neubauer, Sara A. Courtneidge, Matthias Mann, Rik K. Wierenga, Giulio Superti-Furga

Journal:

Year:

1996

Language:

english

File:

PDF, 982 KB

english, 1996

45

Crystallization and Preliminary X-ray Analysis of the Periplasmic Fragment of CyoA-a Subunit of the Escherichia coli Cytochrome o Complex

John van der Oost, Andrea Musacchio, Richard A. Pauptit, Thomas A. Ceska, Rik K. Wierenga, Matti Saraste

Journal:

Journal of Molecular Biology

Year:

1993

File:

PDF, 203 KB

1993

46

The 1.8 Å crystal structure of the dimeric peroxisomal 3-ketoacyl-CoA thiolase of Saccharomyces cerevisiae: implications for substrate binding and reaction mechanism

Magali Mathieu, Yorgo Modis, Johan Ph Zeelen, Christian K Engel, Ruben A Abagyan, Anders Ahlberg, Bjarne Rasmussen, Victor S Lamzin, Wolf H Kunau, Rik K Wierenga

Journal:

Journal of Molecular Biology

Year:

1997

Language:

english

File:

PDF, 807 KB

english, 1997

47

The 2.35 å crystal structure of the inactivated form of chicken src: a dynamic molecule with multiple regulatory interactions

John C Williams, Albert Weijland, Stefania Gonfloni, Andy Thompson, Sara A Courtneidge, Giulio Superti-Furga, Rik K Wierenga

Journal:

Journal of Molecular Biology

Year:

1997

Language:

english

File:

PDF, 2.45 MB

english, 1997

48

The crystal structure of enoyl-CoA hydratase complexed with octanoyl-CoA reveals the structural adaptations required for binding of a long chain fatty acid-CoA molecule

Christian K Engel, Tiila R Kiema, J.Kalervo Hiltunen, Rik K Wierenga

Journal:

Journal of Molecular Biology

Year:

1998

Language:

english

File:

PDF, 616 KB

english, 1998

49

Crystallographic analysis of the reaction pathway of Zoogloea ramigera biosynthetic thiolase

Yorgo Modis, Rik K. Wierenga

Journal:

Journal of Molecular Biology

Year:

2000

Language:

english

File:

PDF, 832 KB

english, 2000

50

The crystal structure of Δ3-Δ2-enoyl-CoA isomerase

Anu M Mursula, Daan M.F van Aalten, J.Kalervo Hiltunen, Rik K Wierenga

Journal:

Journal of Molecular Biology

Year:

2001

Language:

english

File:

PDF, 668 KB

english, 2001