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51

Crystal structure of the liganded SCP-2-like domain of human peroxisomal multifunctional enzyme type 2 at 1.75 Å resolution

Antti M. Haapalainen, Daan M.F. van Aalten, Gitte Meriläinen, Jorma E. Jalonen, Päivi Pirilä, Rik K. Wierenga, J.Kalervo Hiltunen, Tuomo Glumoff

Journal:

Journal of Molecular Biology

Year:

2001

Language:

english

File:

PDF, 602 KB

english, 2001

52

Polypeptide chains with similar amino acid sequences but a distinctly different conformation: Bovine and porcine phospholipase A2

Bauke W. Dijkstra, Wicher J. Weijer, Rik K. Wierenga

Journal:

Year:

1983

Language:

english

File:

PDF, 289 KB

english, 1983

53

The 1.3 Å Crystal Structure of Human Mitochondrial Δ3-Δ2-Enoyl-CoA Isomerase Shows a Novel Mode of Binding for the Fatty Acyl Group

Sanna T. Partanen, Dmitry K. Novikov, Alexander N. Popov, Anu M. Mursula, J. Kalervo Hiltunen, Rik K. Wierenga

Journal:

Journal of Molecular Biology

Year:

2004

Language:

english

File:

PDF, 807 KB

english, 2004

54

High Resolution Crystal Structures of Human Cytosolic Thiolase (CT): A Comparison of the Active Sites of Human CT, Bacterial Thiolase, and Bacterial KAS I

Petri Kursula, Herkko Sikkilä, Toshiyuki Fukao, Naomi Kondo, Rik K. Wierenga

Journal:

Journal of Molecular Biology

Year:

2005

Language:

english

File:

PDF, 734 KB

english, 2005

55

Structural Studies of MFE-1: the 1.9 Å Crystal Structure of the Dehydrogenase Part of Rat Peroxisomal MFE-1

Jukka P. Taskinen, Tiila R. Kiema, J. Kalervo Hiltunen, Rik K. Wierenga

Journal:

Journal of Molecular Biology

Year:

2006

Language:

english

File:

PDF, 1.18 MB

english, 2006

56

The Catalysis of the 1,1-Proton Transfer by α-Methyl-acyl-CoA Racemase Is Coupled to a Movement of the Fatty Acyl Moiety Over a Hydrophobic, Methionine-rich Surface

Prasenjit Bhaumik, Werner Schmitz, Antti Hassinen, J. Kalervo Hiltunen, Ernst Conzelmann, Rik K. Wierenga

Journal:

Journal of Molecular Biology

Year:

2007

Language:

english

File:

PDF, 2.81 MB

english, 2007

57

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

58

Alternative Conformations of the x Region of Human Protein Disulphide-Isomerase Modulate Exposure of the Substrate Binding b’ Domain

Van Dat Nguyen, Katrine Wallis, Mark J. Howard, Antti M. Haapalainen, Kirsi E.H. Salo, Mirva J. Saaranen, Ateesh Sidhu, Rik K. Wierenga, Robert B. Freedman, Lloyd W. Ruddock, Richard A. Williamson

Journal:

Journal of Molecular Biology

Year:

2008

Language:

english

File:

PDF, 1.34 MB

english, 2008

59

Mitochondrial fatty acid synthesis – An adopted set of enzymes making a pathway of major importance for the cellular metabolism

J. Kalervo Hiltunen, Zhijun Chen, Antti M. Haapalainen, Rik K. Wierenga, Alexander J. Kastaniotis

Journal:

Progress in Lipid Research

Year:

2010

Language:

english

File:

PDF, 824 KB

english, 2010

60

The importance of the conserved Arg191–Asp227 salt bridge of triosephosphate isomerase for folding, stability, and catalysis

Inari Kursula, Sanna Partanen, Anne-Marie Lambeir, Rik K. Wierenga

Journal:

Year:

2002

Language:

english

File:

PDF, 392 KB

english, 2002

61

Structural studies on Δ3-Δ2-enoyl-CoA isomerase: the variable mode of assembly of the trimeric disks of the crotonase superfamily

Anu M. Mursula, J.Kalervo Hiltunen, Rik K. Wierenga

Journal:

Year:

2004

Language:

english

File:

PDF, 614 KB

english, 2004

62

Structure–function Analysis of Enoyl Thioester Reductase Involved in Mitochondrial Maintenance

Tomi T. Airenne, Juha M. Torkko, Sam Van den plas, Raija T. Sormunen, Alexander J. Kastaniotis, Rik K. Wierenga, J. Kalervo Hiltunen

Journal:

Journal of Molecular Biology

Year:

2003

Language:

english

File:

PDF, 4.55 MB

english, 2003

63

The diverse world of coenzyme A binding proteins

Christian Engel, Rik Wierenga

Journal:

Current Opinion in Structural Biology

Year:

1996

Language:

english

File:

PDF, 525 KB

english, 1996

64

Interaction of pyrophosphate moieties with .alpha.-helixes in dinucleotide-binding proteins

Wierenga, Rik K., De Maeyer, Marc C. H., Hol, Wim G. J.

Journal:

Year:

1985

Language:

english

File:

PDF, 1.08 MB

english, 1985

65

Creating new enzymes—From triosephosphate isomerase to kealases

Marco Casteleijn, Markus Alahuhta, Matti Vaismaa, Sampo Mattila, Marja Lajunen, Jouni Pursiainen, Rik K. Wierenga, Peter Neubauer

Journal:

Journal of Biotechnology

Year:

2007

Language:

english

File:

PDF, 71 KB

english, 2007

66

Protein engineering of non-natural enzymes

Mari Ylianttila, Mikko Salin, Marco Casteleijn, Mirja Krause, Sampo Mattila, Marja Lajunen, Rik K. Wierenga, Peter Neubauer

Journal:

Journal of Biotechnology

Year:

2007

Language:

english

File:

PDF, 61 KB

english, 2007

67

Prediction of the occurrence of the ADP-binding βαβ-fold in proteins, using an amino acid sequence fingerprint

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

Journal:

Journal of Molecular Biology

Year:

1986

Language:

english

File:

PDF, 728 KB

english, 1986

68

Crystal structure of the p-hydroxybenzoate hydroxylase-substrate complex refined at 1.9 Å resolution: Analysis of the enzyme-substrate and enzyme-product complexes

Herman A. Schreuder, Peter A.J. Prick, Rik K. Wierenga, Gerrit Vriend, Keith S. Wilson, Wim G.J. Hol, Jan Drenth

Journal:

Journal of Molecular Biology

Year:

1989

Language:

english

File:

PDF, 1.82 MB

english, 1989

69

Comparison of the three-dimensional protein and nucleotide structure of the FAD-binding domain of p-hydroxybenzoate hydroxylase with the FAD- as well as NADPH-binding domains of glutathione reductase

Rik K. Wierenga, Jan Drenth, Georg E. Schulz, R. Huber

Journal:

Journal of Molecular Biology

Year:

1983

Language:

english

File:

PDF, 859 KB

english, 1983

70

A Double Mutation at the Tip of the Dimer Interface Loop of Triosephosphate Isomerase Generates Active Monomers with Reduced Stability †

Schliebs, Wolfgang, Thanki, Narmada, Jaenicke, Rainer, Wierenga, Rik K.

Journal:

Year:

1997

Language:

english

File:

PDF, 188 KB

english, 1997

71

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

72

Crystallographic and molecular modeling studies on trypanosomal triosephosphate isomerase: a critical assessment of the predicted and observed structures of the complex with 2-phosphoglycerate

Noble, Martin E. M., Verlinde, Christophe L. M. J., Groendijk, Hillie, Kalk, Kor H., Wierenga, Rik K., Hol, Wim G. J.

Journal:

Journal of Medicinal Chemistry

Year:

1991

Language:

english

File:

PDF, 1.83 MB

english, 1991

73

Mutagenic and Enzymological Studies of the Hydratase and Isomerase Activities of 2-Enoyl-CoA Hydratase-1 †

Kiema, Tiila-Riikka, Engel, Christian K., Schmitz, Werner, Filppula, Sirpa A., Wierenga, Rik K., Hiltunen, J. Kalervo

Journal:

Year:

1999

Language:

english

File:

PDF, 181 KB

english, 1999

74

Modular mutagenesis of a TEM-barrel enzyme: the crystal structure of a chimeric E.coli TIM having the eighth βα-unit replaced by the equivalent unit of chicken TIM

Kishan, Radha, Zeelen, Ph. Johan, Noble, Martin E.M., Borchert, Torben V., Mainfroid, Véronique, Goraj, Karine, Martial, Joseph A., Wierenga, Rik K.

Journal:

Protein Engineering Design and Selection

Year:

1994

Language:

english

File:

PDF, 3.09 MB

english, 1994

75

The Structural Motifs for Substrate Binding and Dimerization of the α Subunit of Collagen Prolyl 4-Hydroxylase

Anantharajan, Jothi, Koski, M. Kristian, Kursula, Petri, Hieta, Reija, Bergmann, Ulrich, Myllyharju, Johanna, Wierenga, Rik K.

Journal:

Year:

2013

Language:

english

File:

PDF, 3.23 MB

english, 2013

76

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

77

Structure determination of the glycosomal triosephosphate isomerase from Trypanosoma brucei brucei at 2.4 Å resolution

Wierenga, Rik K., Kalk, Kor H., Hol, Wim G.J.

Journal:

Journal of Molecular Biology

Year:

1987

Language:

english

File:

PDF, 1.59 MB

english, 1987

78

Src Regulated by C-Terminal Phosphorylation is Monomeric

Albert Weijland, John C. Williams, Gitte Neubauer, Sara A. Courtneidge, Rik K. Wierenga and Giulio Superti-Furga

Journal:

Proceedings of the National Academy of Sciences

Year:

1997

Language:

english

File:

PDF, 1.33 MB

english, 1997

79

The coenzyme analog adenosine 5-diphosphoribose displaces FAD in the active site of p-hydroxybenzoate hydroxylase. An x-ray crystallographic investigation

Van der Laan, Jan M., Schreuder, Herman A., Swarte, Myra B. A., Wierenga, Rik K., Kalk, Kor H., Hol, Wim G. J., Drenth, Jan

Journal:

Year:

1989

Language:

english

File:

PDF, 831 KB

english, 1989

80

The Thiolase Reaction Mechanism: The Importance of Asn316 and His348 for Stabilizing the Enolate Intermediate of the Claisen Condensation

Meriläinen, Gitte, Poikela, Visa, Kursula, Petri, Wierenga, Rik K.

Journal:

Year:

2009

Language:

english

File:

PDF, 3.58 MB

english, 2009

81

The Catalytic Cycle of Biosynthetic Thiolase: A Conformational Journey of an Acetyl Group through Four Binding Modes and Two Oxyanion Holes ‡

Kursula, Petri, Ojala, Juha, Lambeir, Anne-Marie, Wierenga, Rik K.

Journal:

Year:

2002

Language:

english

File:

PDF, 1.01 MB

english, 2002

82

Structural Mutations That Probe the Interactions between the Catalytic and Dianion Activation Sites of Triosephosphate Isomerase

Zhai, Xiang, Amyes, Tina L., Wierenga, Rik K., Loria, J. Patrick, Richard, John P.

Journal:

Year:

2013

Language:

english

File:

PDF, 1.95 MB

english, 2013

83

Functional Role of the Conserved Active Site Proline of Triosephosphate Isomerase †,‡

Casteleijn, Marco G., Alahuhta, Markus, Groebel, Katrin, El-Sayed, Ibrahim, Augustyns, Koen, Lambeir, Anne-Marie, Neubauer, Peter, Wierenga, Rik K.

Journal:

Year:

2006

Language:

english

File:

PDF, 873 KB

english, 2006

84

MS-associated gene CLEC16A uses the molecular machinery of late endosomal biogenesis to control HLA-II expression in APC

Van Luijn, Marvin M., Kreft, Karim L., Jongsma, Marlieke L., Mes, Steven W., Wierenga-wolf, Annet F., Van Meurs, Marjan, Melief, Marie-josé, Van Der Kant, Rik, Janssen, Lennert, Janssen, Hans, Priatel

Journal:

Journal of Neuroimmunology

Year:

2014

Language:

english

File:

PDF, 51 KB

english, 2014

85

Insights into mitochondrial fatty acid synthesis from the structure of heterotetrameric 3-ketoacyl-ACP reductase/3R-hydroxyacyl-CoA dehydrogenase

Venkatesan, Rajaram, Sah-Teli, Shiv K., Awoniyi, Luqman O., Jiang, Guangyu, Prus, Piotr, Kastaniotis, Alexander J., Hiltunen, J. Kalervo, Wierenga, Rik K., Chen, Zhijun

Journal:

Nature Communications

Year:

2014

Language:

english

File:

PDF, 1.90 MB

english, 2014

86

The isomerase and hydratase reaction mechanism of the crotonase active site of the multifunctional enzyme (type-1), as deduced from structures of complexes with 3S-hydroxy-acyl-CoA

Kasaragod, Prasad, Schmitz, Werner, Hiltunen, Jukka K., Wierenga, Rik K.

Journal:

Year:

2013

Language:

english

File:

PDF, 1.15 MB

english, 2013

87

The crystal structure of human mitochondrial 3-ketoacyl-CoA thiolase (T1): insight into the reaction mechanism of its thiolase and thioesterase activities

Kiema, Tiila-Riikka, Harijan, Rajesh K., Strozyk, Malgorzata, Fukao, Toshiyuki, Alexson, Stefan E. H., Wierenga, Rik K.

Journal:

Acta Crystallographica Section D Biological Crystallography

Year:

2014

Language:

english

File:

PDF, 2.87 MB

english, 2014

88

A comprehensive analysis of the geranylgeranylglyceryl phosphate synthase enzyme family identifies novel members and reveals mechanisms of substrate specificity and quaternary structure organization

Peterhoff, David, Beer, Barbara, Rajendran, Chitra, Kumpula, Esa-Pekka, Kapetaniou, Evangelia, Guldan, Harald, Wierenga, Rik K., Sterner, Reinhard, Babinger, Patrick

Journal:

Molecular Microbiology

Year:

2014

Language:

english

File:

PDF, 7.65 MB

english, 2014

89

The first case in Asia of 2-methyl-3-hydroxybutyryl-CoA dehydrogenase deficiency (HSD10 disease) with atypical presentation

Fukao, Toshiyuki, Akiba, Kazuhisa, Goto, Masahiro, Kuwayama, Nobuki, Morita, Mikiko, Hori, Tomohiro, Aoyama, Yuka, Venkatesan, Rajaram, Wierenga, Rik, Moriyama, Yohsuke, Hashimoto, Takashi, Usuda, Nob

Journal:

Journal of Human Genetics

Year:

2014

Language:

english

File:

PDF, 879 KB

english, 2014

90

Multiple sclerosis-associated CLEC16A controls HLA class II expression via late endosome biogenesis

van Luijn, Marvin M., Kreft, Karim L., Jongsma, Marlieke L., Mes, Steven W., Wierenga-Wolf, Annet F., van Meurs, Marjan, Melief, Marie-José, der Kant, Rik van, Janssen, Lennert, Janssen, Hans, Tan, Ru

Journal:

Year:

2015

Language:

english

File:

PDF, 2.63 MB

english, 2015

91

Crystallization and preliminary X-ray diffraction studies of the C-terminal domain of Chlamydia trachomatis CdsD

Meriläinen, Gitte, Wierenga, Rik K.

Journal:

Acta Crystallographica Section F Structural Biology Communications

Year:

2014

Language:

english

File:

PDF, 356 KB

english, 2014

92

The Peptide-Substrate-binding Domain of Collagen Prolyl 4-Hydroxylases Is a Tetratricopeptide Repeat Domain with Functional Aromatic Residues

Pekkala, Mira, Hieta, Reija, Bergmann, Ulrich, Kivirikko, Kari I., Wierenga, Rik K., Myllyharju, Johanna

Journal:

Journal of Biological Chemistry

Year:

2004

Language:

english

File:

PDF, 1010 KB

english, 2004

93

Crystal structures of SCP2-thiolases of Trypanosomatidae, human pathogens causing widespread tropical diseases: the importance for catalysis of the cysteine of the unique HDCF loop

Harijan, Rajesh K., Kiema, Tiila R., Karjalainen, Mikael P., Janardan, Neelanjana, Murthy, M. R. N., Weiss, Manfred S., Michels, Paul A. M., Wierenga, Rik K.

Journal:

Biochemical Journal

Year:

2013

Language:

english

File:

PDF, 2.33 MB

english, 2013

94

Human Δ 3 ,Δ 2 -enoyl-CoA isomerase, type 2: a structural enzymology study on the catalytic role of its ACBP domain and helix-10

Onwukwe, Goodluck U., Kursula, Petri, Koski, M. Kristian, Schmitz, Werner, Wierenga, Rik K.

Journal:

Year:

2015

Language:

english

File:

PDF, 2.23 MB

english, 2015

95

Design, Creation, and Characterization of a Stable, Monomeric Triosephosphate Isomerase

Torben V. Borchert, Ruben Abagyan, Rainer Jaenicke and Rik K. Wierenga

Journal:

Proceedings of the National Academy of Sciences

Year:

1994

Language:

english

File:

PDF, 968 KB

english, 1994

96

Crystal structures of two monomeric triosephosphate isomerase variants identified via a directed-evolution protocol selecting for L -arabinose isomerase activity

Krause, Mirja, Kiema, Tiila-Riikka, Neubauer, Peter, Wierenga, Rik K.

Journal:

Acta Crystallographica Section F Structural Biology Communications

Year:

2016

Language:

english

File:

PDF, 1.43 MB

english, 2016

97

Structure–Function Studies of Hydrophobic Residues That Clamp a Basic Glutamate Side Chain during Catalysis by Triosephosphate Isomerase

Richard, John P., Amyes, Tina L., Malabanan, M. Merced, Zhai, Xiang, Kim, Kalvin J., Reinhardt, Christopher J., Wierenga, Rik K., Drake, Eric J., Gulick, Andrew M.

Journal:

Year:

2016

Language:

english

File:

PDF, 5.39 MB

english, 2016

98

ATGme: Open-source web application for rare codon identification and custom DNA sequence optimization

Daniel, Edward, Onwukwe, Goodluck U., Wierenga, Rik K., Quaggin, Susan E., Vainio, Seppo J., Krause, Mirja

Journal:

BMC Bioinformatics

Year:

2015

Language:

english

File:

PDF, 1.97 MB

english, 2015

99

The extended structure of the periplasmic region of CdsD, a structural protein of the type III secretion system of Chlamydia trachomatis

Meriläinen, Gitte, Koski, M. Kristian, Wierenga, Rik K.

Journal:

Protein Science

Year:

2016

Language:

english

File:

PDF, 3.54 MB

english, 2016

100

The SCP2-thiolase-like protein (SLP) of Trypanosoma brucei is an enzyme involved in lipid metabolism

Harijan, Rajesh K., Mazet, Muriel, Kiema, Tiila R., Bouyssou, Guillaume, Alexson, Stefan E. H., Bergmann, Ulrich, Moreau, Patrick, Michels, Paul A. M., Bringaud, Frédéric, Wierenga, Rik K.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2016

Language:

english

File:

PDF, 1.44 MB

english, 2016