Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 165

1.

Mutation update on ACAT1 variants associated with mitochondrial acetoacetyl-CoA thiolase (T2) deficiency.

Abdelkreem E, Harijan RK, Yamaguchi S, Wierenga RK, Fukao T.

Hum Mutat. 2019 Jul 3. doi: 10.1002/humu.23831. [Epub ahead of print]

PMID:
31268215
2.

Complementary substrate specificity and distinct quaternary assembly of the Escherichia coli aerobic and anaerobic beta-oxidation trifunctional enzyme complexes.

Sah-Teli SK, Hynönen MJ, Schmitz W, Geraets JA, Seitsonen J, Pedersen JS, Butcher SJ, Wierenga RK, Venkatesan R.

Biochem J. 2019 Jun 25. pii: BCJ20190314. doi: 10.1042/BCJ20190314. [Epub ahead of print]

PMID:
31235482
3.

The peroxisomal zebrafish SCP2-thiolase (type-1) is a weak transient dimer as revealed by crystal structures and native mass spectrometry.

Kiema TR, Thapa CJ, Laitaoja M, Schmitz W, Maksimainen MM, Fukao T, Rouvinen J, Jänis J, Wierenga RK.

Biochem J. 2019 Jan 25;476(2):307-332. doi: 10.1042/BCJ20180788.

PMID:
30573650
4.

Structural enzymology binding studies of the peptide-substrate-binding domain of human collagen prolyl 4-hydroxylase (type-II): High affinity peptides have a PxGP sequence motif.

Murthy AV, Sulu R, Koski MK, Tu H, Anantharajan J, Sah-Teli SK, Myllyharju J, Wierenga RK.

Protein Sci. 2018 Sep;27(9):1692-1703. doi: 10.1002/pro.3450.

PMID:
30168208
5.

Crystal structure of human anterior gradient protein 3.

Nguyen VD, Biterova E, Salin M, Wierenga RK, Ruddock LW.

Acta Crystallogr F Struct Biol Commun. 2018 Jul 1;74(Pt 7):425-430. doi: 10.1107/S2053230X18009093. Epub 2018 Jun 26.

PMID:
29969106
6.

De novo biosynthesis of sterols and fatty acids in the Trypanosoma brucei procyclic form: Carbon source preferences and metabolic flux redistributions.

Millerioux Y, Mazet M, Bouyssou G, Allmann S, Kiema TR, Bertiaux E, Fouillen L, Thapa C, Biran M, Plazolles N, Dittrich-Domergue F, Crouzols A, Wierenga RK, Rotureau B, Moreau P, Bringaud F.

PLoS Pathog. 2018 May 29;14(5):e1007116. doi: 10.1371/journal.ppat.1007116. eCollection 2018 May.

7.

Structural enzymology comparisons of multifunctional enzyme, type-1 (MFE1): the flexibility of its dehydrogenase part.

Kasaragod P, Midekessa GB, Sridhar S, Schmitz W, Kiema TR, Hiltunen JK, Wierenga RK.

FEBS Open Bio. 2017 Nov 6;7(12):1830-1842. doi: 10.1002/2211-5463.12337. eCollection 2017 Dec.

8.

The EMBO biocatalysis conference "The biochemistry and chemistry of biocatalysis: from understanding to design".

Wierenga RK, Ringe D.

Protein Eng Des Sel. 2017 Apr 24:1. doi: 10.1093/protein/gzx020. [Epub ahead of print] No abstract available.

PMID:
28444392
9.

Assembly of the elongated collagen prolyl 4-hydroxylase α2β2 heterotetramer around a central α2 dimer.

Koski MK, Anantharajan J, Kursula P, Dhavala P, Murthy AV, Bergmann U, Myllyharju J, Wierenga RK.

Biochem J. 2017 Feb 20;474(5):751-769. doi: 10.1042/BCJ20161000.

PMID:
28093469
10.

Crystallographic substrate binding studies of Leishmania mexicana SCP2-thiolase (type-2): unique features of oxyanion hole-1.

Harijan RK, Kiema TR, Syed SM, Qadir I, Mazet M, Bringaud F, Michels PAM, Wierenga RK.

Protein Eng Des Sel. 2017 Mar 1;30(3):225-233. doi: 10.1093/protein/gzw080.

PMID:
28062645
11.

Crystal structure of a thiolase from Escherichia coli at 1.8 Å resolution.

Ithayaraja M, Janardan N, Wierenga RK, Savithri HS, Murthy MR.

Acta Crystallogr F Struct Biol Commun. 2016 Jul;72(Pt 7):534-44. doi: 10.1107/S2053230X16008451. Epub 2016 Jun 22.

12.

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

Krause M, Kiema TR, Neubauer P, Wierenga RK.

Acta Crystallogr F Struct Biol Commun. 2016 Jun;72(Pt 6):490-9. doi: 10.1107/S2053230X16007548. Epub 2016 May 23.

13.

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

Richard JP, Amyes TL, Malabanan MM, Zhai X, Kim KJ, Reinhardt CJ, Wierenga RK, Drake EJ, Gulick AM.

Biochemistry. 2016 May 31;55(21):3036-47. doi: 10.1021/acs.biochem.6b00311. Epub 2016 May 17.

14.

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

Harijan RK, Mazet M, Kiema TR, Bouyssou G, Alexson SE, Bergmann U, Moreau P, Michels PA, Bringaud F, Wierenga RK.

Proteins. 2016 Aug;84(8):1075-96. doi: 10.1002/prot.25054. Epub 2016 May 9.

PMID:
27093562
15.

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

Meriläinen G, Koski MK, Wierenga RK.

Protein Sci. 2016 May;25(5):987-98. doi: 10.1002/pro.2906. Epub 2016 Mar 11.

16.

Structural characterization of a mitochondrial 3-ketoacyl-CoA (T1)-like thiolase from Mycobacterium smegmatis.

Janardan N, Harijan RK, Kiema TR, Wierenga RK, Murthy MR.

Acta Crystallogr D Biol Crystallogr. 2015 Dec 1;71(Pt 12):2479-93. doi: 10.1107/S1399004715019331. Epub 2015 Nov 27.

PMID:
26627655
17.

Structures of yeast peroxisomal Δ(3),Δ(2)-enoyl-CoA isomerase complexed with acyl-CoA substrate analogues: the importance of hydrogen-bond networks for the reactivity of the catalytic base and the oxyanion hole.

Onwukwe GU, Koski MK, Pihko P, Schmitz W, Wierenga RK.

Acta Crystallogr D Biol Crystallogr. 2015 Nov;71(Pt 11):2178-91. doi: 10.1107/S139900471501559X. Epub 2015 Oct 27.

PMID:
26527136
18.

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

Daniel E, Onwukwe GU, Wierenga RK, Quaggin SE, Vainio SJ, Krause M.

BMC Bioinformatics. 2015 Sep 21;16:303. doi: 10.1186/s12859-015-0743-5.

19.

Structure-based directed evolution of a monomeric triosephosphate isomerase: toward a pentose sugar isomerase.

Krause M, Neubauer P, Wierenga RK.

Protein Eng Des Sel. 2015 Jun;28(6):187-97. doi: 10.1093/protein/gzv010. Epub 2015 Mar 11.

PMID:
25767111
20.

Human Δ³,Δ²-enoyl-CoA isomerase, type 2: a structural enzymology study on the catalytic role of its ACBP domain and helix-10.

Onwukwe GU, Kursula P, Koski MK, Schmitz W, Wierenga RK.

FEBS J. 2015 Feb;282(4):746-68. doi: 10.1111/febs.13179. Epub 2015 Jan 14.

21.

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

Kiema TR, Harijan RK, Strozyk M, Fukao T, Alexson SE, Wierenga RK.

Acta Crystallogr D Biol Crystallogr. 2014 Dec 1;70(Pt 12):3212-25. doi: 10.1107/S1399004714023827. Epub 2014 Nov 22.

PMID:
25478839
22.

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

Meriläinen G, Wierenga RK.

Acta Crystallogr F Struct Biol Commun. 2014 Oct;70(Pt 10):1431-3. doi: 10.1107/S2053230X14019712. Epub 2014 Sep 25.

23.

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

Fukao T, Akiba K, Goto M, Kuwayama N, Morita M, Hori T, Aoyama Y, Venkatesan R, Wierenga R, Moriyama Y, Hashimoto T, Usuda N, Murayama K, Ohtake A, Hasegawa Y, Shigematsu Y, Hasegawa Y.

J Hum Genet. 2014 Nov;59(11):609-14. doi: 10.1038/jhg.2014.79. Epub 2014 Sep 18.

PMID:
25231369
24.

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

Venkatesan R, Sah-Teli SK, Awoniyi LO, Jiang G, Prus P, Kastaniotis AJ, Hiltunen JK, Wierenga RK, Chen Z.

Nat Commun. 2014 Sep 9;5:4805. doi: 10.1038/ncomms5805.

PMID:
25203508
25.

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

Anbazhagan P, Harijan RK, Kiema TR, Janardan N, Murthy MR, Michels PA, Juffer AH, Wierenga RK.

Tuberculosis (Edinb). 2014 Jul;94(4):405-12. doi: 10.1016/j.tube.2014.03.003. Epub 2014 Apr 4.

PMID:
24825023
26.

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

Peterhoff D, Beer B, Rajendran C, Kumpula EP, Kapetaniou E, Guldan H, Wierenga RK, Sterner R, Babinger P.

Mol Microbiol. 2014 May;92(4):885-99. doi: 10.1111/mmi.12596. Epub 2014 Apr 16.

27.

The structural motifs for substrate binding and dimerization of the α subunit of collagen prolyl 4-hydroxylase.

Anantharajan J, Koski MK, Kursula P, Hieta R, Bergmann U, Myllyharju J, Wierenga RK.

Structure. 2013 Dec 3;21(12):2107-18. doi: 10.1016/j.str.2013.09.005. Epub 2013 Oct 24.

28.

Development of MLPA for human ACAT1 gene and identification of a heterozygous Alu-mediated deletion of exons 3 and 4 in a patient with mitochondrial acetoacetyl-CoA thiolase (T2) deficiency.

Fukao T, Aoyama Y, Murase K, Hori T, Harijan RK, Wierenga RK, Boneh A, Kondo N.

Mol Genet Metab. 2013 Sep-Oct;110(1-2):184-7. doi: 10.1016/j.ymgme.2013.07.004. Epub 2013 Jul 14.

PMID:
23920042
29.

Structural mutations that probe the interactions between the catalytic and dianion activation sites of triosephosphate isomerase.

Zhai X, Amyes TL, Wierenga RK, Loria JP, Richard JP.

Biochemistry. 2013 Aug 27;52(34):5928-40. doi: 10.1021/bi401019h. Epub 2013 Aug 16.

30.

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 RK, Kiema TR, Karjalainen MP, Janardan N, Murthy MR, Weiss MS, Michels PA, Wierenga RK.

Biochem J. 2013 Oct 1;455(1):119-30. doi: 10.1042/BJ20130669.

PMID:
23909465
31.

Structure of mycobacterial β-oxidation trifunctional enzyme reveals its altered assembly and putative substrate channeling pathway.

Venkatesan R, Wierenga RK.

ACS Chem Biol. 2013 May 17;8(5):1063-73. doi: 10.1021/cb400007k. Epub 2013 Mar 27.

PMID:
23496842
32.

Three Japanese Patients with Beta-Ketothiolase Deficiency Who Share a Mutation, c.431A>C (H144P) in ACAT1 : Subtle Abnormality in Urinary Organic Acid Analysis and Blood Acylcarnitine Analysis Using Tandem Mass Spectrometry.

Fukao T, Maruyama S, Ohura T, Hasegawa Y, Toyoshima M, Haapalainen AM, Kuwada N, Imamura M, Yuasa I, Wierenga RK, Yamaguchi S, Kondo N.

JIMD Rep. 2012;3:107-15. doi: 10.1007/8904_2011_72. Epub 2011 Sep 6.

33.

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 P, Schmitz W, Hiltunen JK, Wierenga RK.

FEBS J. 2013 Jul;280(13):3160-75. doi: 10.1111/febs.12150. Epub 2013 Feb 15.

34.

Crystal structure of a monomeric thiolase-like protein type 1 (TLP1) from Mycobacterium smegmatis.

Janardan N, Harijan RK, Wierenga RK, Murthy MR.

PLoS One. 2012;7(7):e41894. doi: 10.1371/journal.pone.0041894. Epub 2012 Jul 26.

35.

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 S, Bhaumik P, Schmitz W, Venkatesan R, Hiltunen JK, Conzelmann E, Juffer AH, Wierenga RK.

J Phys Chem B. 2012 Mar 22;116(11):3619-29. doi: 10.1021/jp210185m. Epub 2012 Mar 7.

PMID:
22360758
36.

The characterization and evolutionary relationships of a trypanosomal thiolase.

Mazet M, Harijan RK, Kiema TR, Haapalainen AM, Morand P, Morales J, Bringaud F, Wierenga RK, Michels PA.

Int J Parasitol. 2011 Oct;41(12):1273-83. doi: 10.1016/j.ijpara.2011.07.009. Epub 2011 Aug 26.

PMID:
21907205
37.

Cloning, expression, purification and preliminary X-ray diffraction studies of a putative Mycobacterium smegmatis thiolase.

Janardan N, Paul A, Harijan RK, Wierenga RK, Murthy MR.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Jul 1;67(Pt 7):817-20. doi: 10.1107/S1744309111019324. Epub 2011 Jun 30.

38.
39.

Stereoelectronic requirements for optimal hydrogen-bond-catalyzed enolization.

Pápai I, Hamza A, Pihko PM, Wierenga RK.

Chemistry. 2011 Mar 1;17(10):2859-66. doi: 10.1002/chem.201002943. Epub 2011 Feb 9.

PMID:
21308811
40.

Triosephosphate isomerase: a highly evolved biocatalyst.

Wierenga RK, Kapetaniou EG, Venkatesan R.

Cell Mol Life Sci. 2010 Dec;67(23):3961-82. doi: 10.1007/s00018-010-0473-9. Epub 2010 Aug 7. Review.

PMID:
20694739
41.

Crystallographic binding studies with an engineered monomeric variant of triosephosphate isomerase.

Salin M, Kapetaniou EG, Vaismaa M, Lajunen M, Casteleijn MG, Neubauer P, Salmon L, Wierenga RK.

Acta Crystallogr D Biol Crystallogr. 2010 Aug;66(Pt 8):934-44. doi: 10.1107/S0907444910025710. Epub 2010 Jul 14.

PMID:
20693693
42.

Crystal structure of liganded rat peroxisomal multifunctional enzyme type 1: a flexible molecule with two interconnected active sites.

Kasaragod P, Venkatesan R, Kiema TR, Hiltunen JK, Wierenga RK.

J Biol Chem. 2010 Jul 30;285(31):24089-98. doi: 10.1074/jbc.M110.117606. Epub 2010 May 12.

44.

The thiolase reaction mechanism: the importance of Asn316 and His348 for stabilizing the enolate intermediate of the Claisen condensation.

Meriläinen G, Poikela V, Kursula P, Wierenga RK.

Biochemistry. 2009 Nov 24;48(46):11011-25. doi: 10.1021/bi901069h.

PMID:
19842716
45.

Mitochondrial fatty acid synthesis--an adopted set of enzymes making a pathway of major importance for the cellular metabolism.

Hiltunen JK, Chen Z, Haapalainen AM, Wierenga RK, Kastaniotis AJ.

Prog Lipid Res. 2010 Jan;49(1):27-45. doi: 10.1016/j.plipres.2009.08.001. Epub 2009 Aug 15. Review.

PMID:
19686777
46.

17beta-hydroxysteroid dehydrogenase type 8 and carbonyl reductase type 4 assemble as a ketoacyl reductase of human mitochondrial FAS.

Chen Z, Kastaniotis AJ, Miinalainen IJ, Rajaram V, Wierenga RK, Hiltunen JK.

FASEB J. 2009 Nov;23(11):3682-91. doi: 10.1096/fj.09-133587. Epub 2009 Jul 1.

PMID:
19571038
47.

The crystal structure of an algal prolyl 4-hydroxylase complexed with a proline-rich peptide reveals a novel buried tripeptide binding motif.

Koski MK, Hieta R, Hirsilä M, Rönkä A, Myllyharju J, Wierenga RK.

J Biol Chem. 2009 Sep 11;284(37):25290-301. doi: 10.1074/jbc.M109.014050. Epub 2009 Jun 24.

48.

Inclusion of ionization states of ligands in affinity calculations.

Donnini S, Villa A, Groenhof G, Mark AE, Wierenga RK, Juffer AH.

Proteins. 2009 Jul;76(1):138-50. doi: 10.1002/prot.22326.

PMID:
19089986
49.

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.

Meriläinen G, Schmitz W, Wierenga RK, Kursula P.

FEBS J. 2008 Dec;275(24):6136-48. doi: 10.1111/j.1742-4658.2008.06737.x. Epub 2008 Nov 1.

50.

Alternative conformations of the x region of human protein disulphide-isomerase modulate exposure of the substrate binding b' domain.

Nguyen VD, Wallis K, Howard MJ, Haapalainen AM, Salo KE, Saaranen MJ, Sidhu A, Wierenga RK, Freedman RB, Ruddock LW, Williamson RA.

J Mol Biol. 2008 Nov 28;383(5):1144-55. doi: 10.1016/j.jmb.2008.08.085. Epub 2008 Sep 9.

PMID:
18801374

Supplemental Content

Loading ...
Support Center