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User:Mario Murakami

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Mario Murakami is the scientific director of the Brazilian Biorenewables National Laboratory (since 2018) and former coordinator of the macromolecular crystallography village at the Brazilian National Center for Research in Energy and Materials (2010-2017). He obtained Ph.D. degree in molecular biophysics (2006) from the State University of São Paulo with a split Ph.D. at the University of Hamburg and German Electron Synchrotron DESY. He worked with the structural elucidation of macromolecular complexes involved in the inhibition and activation of coagulation cascade and mechanochemical enzymes during his post-docs at UNESP and Rutgers University. His current research interests encompass the discovery and mechanistic understanding of CAZymes and the genetic engineering of filamentous fungi for enzyme production [1]. He has contributed to structural and functional studies of CAZymes from families GH1 [2, 3, 4, 5, 6, 7], GH2 [8], GH5 [9, 10, 11, 12, 13, 14], GH7 [15], GH8 [16], GH10 [17, 18, 19], GH11 [20, 21, 22], GH12 [23, 24, 25], GH16 [26, 27], GH26 [28], GH39 [29, 30], GH42 [31], GH43 [32, 33, 34], GH45 [35], GH51 [36, 37], GH54 [38], GH57 [39], GH128 [40] and AA10 [41].

Particularly notable works include the systematic biochemical and structural investigation of the GH128 family [40], the development of a cellulase hyper-secreting strain [1], the elucidation of the molecular basis for Man-β-1,4-GlcNAc [14] and xyloglucan [12] specificity in the GH5 family, the discovery of a GH10 reducing end xylose-releasing exo-oligoxylanase [19], the mechanistic understanding and rational redesign of rumen metagenome GH43 arabinanases [32] and the uncovering of the structural determinants for glucose tolerance in GH1 beta-glucosidases [2, 7].



Solved structures

GH128

PDB ID 6UAQ - Subgroup I endo-beta-1,3-glucanase from Amycolatopsis mediterranei (AmGH128_I)

PDB ID 6UAR - AmGH128_I in complex with laminaritriose

PDB ID 6UAS - AmGH128_I in complex with laminaripentaose

PDB ID 6UAU - AmGH128_I, E102A mutant, in complex with laminaritriose and laminaribiose

PDB ID 6UAT - AmGH128_I, E102A mutant, in complex with laminaripentaose

PDB ID 6UFZ - AmGH128_I, E199Q mutant

PDB ID 6UFL - AmGH128_I, E199Q mutant, in the complex with laminarihexaose

PDB ID 6UAV - Subgroup II long oligosaccharide-releasing endo-beta-1,3-glucanase from Pseudomonas viridiflava (PvGH128_II)

PDB ID 6UAW - PvGH128_II in complex with laminaritriose

PDB ID 6UAX - Subgroup II long-oligosaccharide-releasing endo-beta-1,3-glucanase from Sorangium cellulosum (ScGH128_II)

PDB ID 6UAY - Subgroup III non-reducing-end curdlan-specific exo-beta-1,3-glucanase from Blastomyces gilchristii (BgGH128_III)

PDB ID 6UNV - BgGH128_III in complex with glucose

PDB ID 6UB0 - BgGH128_III in complex with laminaribiose at -2 and -1 subsites

PDB ID 6UB1 - BgGH128_III in complex with laminaribiose at -3 and -2 subsides

PDB ID 6UB2 - Subgroup IV atypical endo-beta-1,3-glucanase from Lentinula edodes (LeGH128_IV)

PDB ID 6UB4 - LeGH128_IV in complex with laminaritriose (C2 crystal form)

PDB ID 6UB5 - LeGH128_IV in complex with laminaritriose (P21 crystal form)

PDB ID 6UB6 - LeGH128_IV in complex with laminaritetraose

PDB ID 6UB3 - LeGH128_IV with laminaribiose at the surface-binding site

PDB ID 6UB7 - Subgroup V glucose-releasing exo-beta-1,3-glucanase from Cryptococcus neoformans (CnGH128_V)

PDB ID 6UB8 - Subgroup VI reducing-end L3-releasing exo-beta-1,3-glucanase from Aureobasidium namibiae (AnGH128_VI)

PDB ID 6UBA - AnGH128_VI in complex with laminaritriose

PDB ID 6UBB - AnGH128_VI with laminaribiose at the surface-binding site

PDB ID 6UBD - Subgroup VII oligosaccharide-binding protein from Trichoderma gamsii (TgGH128_VII)

PDB ID 6UBC - Subgroup VII oligosaccharide-binding protein from Cryptococcus neoformans (CnGH128_VII)

GH5

PDB ID 6MP2 - BlMan5B, a Man-β-1,4-GlcNAc specific GH5 mannosidase from Bifidobacterium longum

PDB ID 6MPA - BlMan5B in complex with GlcNAc (soaking)

PDB ID 6MPC - BlMan5B, E257A mutant

PDB ID 6MP7 - BlMan5B, E257A mutant, in complex with GlcNAc (soaking)

PDB ID 6MOY - BlMan5B, E257A mutant, in complex with GlcNAc (co-crystallization)

PDB ID 4W7U - Xac0030, a GH5 endo-beta-1,4-glucanase from Xanthomonas axonopodis pv. citri

PDB ID 4W7V - Xac0030 in complex with cellobiose

PDB ID 4W7W - Xac0030 in complex with cellopentaose

PDB ID 5HNN - Xac0030, triple mutation H174W, Y211A and K227R

PDB ID 5HOS - Xac0029, a GH5 endo-beta-1,4-glucanase from Xanthomonas axonopodis pv. citri

PDB ID 4W84 - XEG5A, a GH5 xyloglucan-specific endo-beta-1,4-glucanase from ruminal metagenomic library

PDB ID 4W85 - XEG5A in complex with glucose

PDB ID 4W86 - XEG5A in complex with glucose and TRIS

PDB ID 4W89 - XEG5A in complex with cellotriose

PDB ID 4W87 - XEG5A in complex with a xyloglucan oligosaccharide

PDB ID 4W88 - XEG5A in complex with a xyloglucan oligosaccharide and TRIS

PDB ID 4W8A - XEG5B, a GH5 xyloglucan-specific beta-1,4-glucanase from ruminal metagenomic library

PDB ID 4W8B - XEG5B in complex with XXLG

PDB ID 4M1R - A GH5 endo-beta-1,4-glucanase from a sugarcane soil metagenomic library

PDB ID 3PZ9 - TpMan5A, a GH5 endo-1,4-beta-mannanase from Thermotoga petrophila RKU-1 (P212121 crystal form)

PDB ID 3PZG - TpMan5A (I222 crystal form)

PDB ID 3PZM - TpMan5A in complex with three glycerol molecules

PDB ID 3PZO - TpMan5A in complex with three maltose molecules

PDB ID 3PZQ - TpMan5A in complex with maltose and glycerol

PDB ID 3PZI - TpMan5A in complex with glucose

PDB ID 3PZU - BsCel5A, a GH5 endo-1,4-beta-glucanase from Bacillus subtilis 168 (P212121 crystal form)

PDB ID 3PZV - BsCel5A (C2 crystal form)

PDB ID 3PZT - BsCel5A in complex with manganese(II) ion

GH1

PDB ID 5BWF - ThBgl, a GH1 beta-glucosidase from Trichoderma harzianum

PDB ID 6EFU - ThBgl, double mutant L167W/P172L

PDB ID 5WKA - a GH1 beta-glucosidase retrieved from microbial metagenome of Poraque Amazon lake

PDB ID 5DT5 - EaBgl, GH1 beta-glucosidase from Exiguobacterium antarcticum B7 (P21 crystal form)

PDB ID 5DT7 - EaBgl (C2221 crystal form)

PDB ID 4MDO - HiBG, a GH1 beta-glucosidase from the fungus Humicola insolens

PDB ID 4MDP - HiBG in complex with glucose

GH43

PDB ID 6MS2 - BlXynB, an inactive GH43 member from Bacillus licheniformis

PDB ID 6MS3 - Active BlXynB mutant (K247S)

PDB ID 4KCA - Endo-1,5-alpha-L-arabinanase from a Bovine Ruminal Metagenomic Library

PDB ID 4KCB - Exo-1,5-alpha-L-arabinanase from Bovine Ruminal Metagenomic Library

PDB ID 4KC7 - Endo-1,5-alpha-L-arabinanase from Thermotoga petrophila RKU-1

GH2

PDB ID 6BYC - XacMan2A, a GH2 exo-beta-mannanase from Xanthomonas axonopodis pv. citri

PDB ID 6BYE - XacMan2A in complex with mannose

PDB ID 6BYG - XacMan2A, nucleophile mutant (E575A)

PDB ID 6BYI - XacMan2A, Acid/Base mutant (E477A)

GH57

PDB ID 3N8T - TK1436, a GH57 branching enzyme from hyperthermophilic archaeon Thermococcus kodakaraensis

PDB ID 3N98 - TK1436 in complex with glucose and additives

PDB ID 3N92 - TK1436 in complex with glucose

GH22

PDB ID 6B7U - Hen egg-white lysozyme without high-pressure pre-treatment

PDB ID 6B7V - Hen egg-white lysozyme pre-treated with high-pressure homogenization at 120 MPa

PDB ID 6B7W - Hen egg-white lysozyme pre-treated with high pressure (600 MPa) under isobaric condition

GH51

PDB ID 6D25 - XacAbf51, a GH51 arabinofuranosidase from Xanthomonas axonopodis pv. citri

PDB ID 3S2C - Thermostable GH51 alpha-L-arabinofuranosidase from Thermotoga petrophila RKU-1

GH42

PDB ID 4UZS - BbgII, a GH42 beta-galactosidase from Bifidobacterium bifidum

PDB ID 4UCF - BbgII in complex with alpha-galactose

GH39

PDB ID 4M29 - GH39 beta-xylosidase from Caulobacter crescentus

GH26

PDB ID 6UEH - Ruminal GH26 endo-beta-1,4-mannanase

GH16

PDB ID 3O5S - Endo-beta-1,3-1,4 glucanase from Bacillus subtilis (strain 168)

GH8

PDB ID 5CZL - A GH8 endo-beta-1,4-glucanase from an Achatina fulica gut metagenomic library

GH12

PDB ID 4NPR - A GH12 Xyloglucanase from Aspergillus niveus

GH11

PDB ID 1XXN - A GH11 xylanase A from Bacillus subtilis 1A1

AA10

PDB ID 6NDQ - KpLPMO10A, a AA10 LPMO from Kitasatospora papulosa

CBM3

PDB ID 2L8A - CBM3 domain from BsCel5A from Bacillus subtilis


References

  1. Fonseca LM, Parreiras LS, and Murakami MT. (2020) Rational engineering of the Trichoderma reesei RUT-C30 strain into an industrially relevant platform for cellulase production. Biotechnol Biofuels. 13, 93. DOI:10.1186/s13068-020-01732-w | PubMed ID:32461765 | HubMed [Fonseca2020]
  2. de Giuseppe PO, Souza Tde A, Souza FH, Zanphorlin LM, Machado CB, Ward RJ, Jorge JA, Furriel Rdos P, and Murakami MT. (2014) Structural basis for glucose tolerance in GH1 β-glucosidases. Acta Crystallogr D Biol Crystallogr. 70, 1631-9. DOI:10.1107/S1399004714006920 | PubMed ID:24914974 | HubMed [Giuseppe2014]
  3. Crespim E, Zanphorlin LM, de Souza FH, Diogo JA, Gazolla AC, Machado CB, Figueiredo F, Sousa AS, Nóbrega F, Pellizari VH, Murakami MT, and Ruller R. (2016) A novel cold-adapted and glucose-tolerant GH1 β-glucosidase from Exiguobacterium antarcticum B7. Int J Biol Macromol. 82, 375-80. DOI:10.1016/j.ijbiomac.2015.09.018 | PubMed ID:26475230 | HubMed [Crespim2016]
  4. Santos CA, Zanphorlin LM, Crucello A, Tonoli CCC, Ruller R, Horta MAC, Murakami MT, and de Souza AP. (2016) Crystal structure and biochemical characterization of the recombinant ThBgl, a GH1 β-glucosidase overexpressed in Trichoderma harzianum under biomass degradation conditions. Biotechnol Biofuels. 9, 71. DOI:10.1186/s13068-016-0487-0 | PubMed ID:27006690 | HubMed [Santos2016]
  5. Zanphorlin LM, de Giuseppe PO, Honorato RV, Tonoli CC, Fattori J, Crespim E, de Oliveira PS, Ruller R, and Murakami MT. (2016) Oligomerization as a strategy for cold adaptation: Structure and dynamics of the GH1 β-glucosidase from Exiguobacterium antarcticum B7. Sci Rep. 6, 23776. DOI:10.1038/srep23776 | PubMed ID:27029646 | HubMed [Zanphorlin2016]
  6. Toyama D, de Morais MAB, Ramos FC, Zanphorlin LM, Tonoli CCC, Balula AF, de Miranda FP, Almeida VM, Marana SR, Ruller R, Murakami MT, and Henrique-Silva F. (2018) A novel β-glucosidase isolated from the microbial metagenome of Lake Poraquê (Amazon, Brazil). Biochim Biophys Acta Proteins Proteom. 1866, 569-579. DOI:10.1016/j.bbapap.2018.02.001 | PubMed ID:29454992 | HubMed [Toyama2018]
  7. Santos CA, Morais MAB, Terrett OM, Lyczakowski JJ, Zanphorlin LM, Ferreira-Filho JA, Tonoli CCC, Murakami MT, Dupree P, and Souza AP. (2019) An engineered GH1 β-glucosidase displays enhanced glucose tolerance and increased sugar release from lignocellulosic materials. Sci Rep. 9, 4903. DOI:10.1038/s41598-019-41300-3 | PubMed ID:30894609 | HubMed [Santos2019]
  8. Domingues MN, Souza FHM, Vieira PS, de Morais MAB, Zanphorlin LM, Dos Santos CR, Pirolla RAS, Honorato RV, de Oliveira PSL, Gozzo FC, and Murakami MT. (2018) Structural basis of exo-β-mannanase activity in the GH2 family. J Biol Chem. 293, 13636-13649. DOI:10.1074/jbc.RA118.002374 | PubMed ID:29997257 | HubMed [Domingues2018]
  9. dos Santos CR, Paiva JH, Meza AN, Cota J, Alvarez TM, Ruller R, Prade RA, Squina FM, and Murakami MT. (2012) Molecular insights into substrate specificity and thermal stability of a bacterial GH5-CBM27 endo-1,4-β-D-mannanase. J Struct Biol. 177, 469-76. DOI:10.1016/j.jsb.2011.11.021 | PubMed ID:22155669 | HubMed [Santos2012a]
  10. Santos CR, Paiva JH, Sforça ML, Neves JL, Navarro RZ, Cota J, Akao PK, Hoffmam ZB, Meza AN, Smetana JH, Nogueira ML, Polikarpov I, Xavier-Neto J, Squina FM, Ward RJ, Ruller R, Zeri AC, and Murakami MT. (2012) Dissecting structure-function-stability relationships of a thermostable GH5-CBM3 cellulase from Bacillus subtilis 168. Biochem J. 441, 95-104. DOI:10.1042/BJ20110869 | PubMed ID:21880019 | HubMed [Santos2012b]
  11. Alvarez TM, Paiva JH, Ruiz DM, Cairo JP, Pereira IO, Paixão DA, de Almeida RF, Tonoli CC, Ruller R, Santos CR, Squina FM, and Murakami MT. (2013) Structure and function of a novel cellulase 5 from sugarcane soil metagenome. PLoS One. 8, e83635. DOI:10.1371/journal.pone.0083635 | PubMed ID:24358302 | HubMed [Alvarez2013a]
  12. Dos Santos CR, Cordeiro RL, Wong DW, and Murakami MT. (2015) Structural basis for xyloglucan specificity and α-d-Xylp(1 → 6)-D-Glcp recognition at the -1 subsite within the GH5 family. Biochemistry. 54, 1930-42. DOI:10.1021/acs.biochem.5b00011 | PubMed ID:25714929 | HubMed [Santos2015]
  13. Ruiz DM, Turowski VR, and Murakami MT. (2016) Effects of the linker region on the structure and function of modular GH5 cellulases. Sci Rep. 6, 28504. DOI:10.1038/srep28504 | PubMed ID:27334041 | HubMed [Ruiz2016]
  14. Cordeiro RL, Pirolla RAS, Persinoti GF, Gozzo FC, de Giuseppe PO, and Murakami MT. (2019) N-glycan Utilization by Bifidobacterium Gut Symbionts Involves a Specialist β-Mannosidase. J Mol Biol. 431, 732-747. DOI:10.1016/j.jmb.2018.12.017 | PubMed ID:30641082 | HubMed [Rosa2019]
  15. Segato F, Damasio AR, Gonçalves TA, Murakami MT, Squina FM, Polizeli M, Mort AJ, and Prade RA. (2012) Two structurally discrete GH7-cellobiohydrolases compete for the same cellulosic substrate fiber. Biotechnol Biofuels. 5, 21. DOI:10.1186/1754-6834-5-21 | PubMed ID:22494694 | HubMed [Segato2012]
  16. Scapin SMN, Souza FHM, Zanphorlin LM, de Almeida TS, Sade YB, Cardoso AM, Pinheiro GL, and Murakami MT. (2017) Structure and function of a novel GH8 endoglucanase from the bacterial cellulose synthase complex of Raoultella ornithinolytica. PLoS One. 12, e0176550. DOI:10.1371/journal.pone.0176550 | PubMed ID:28448629 | HubMed [Scapin2017]
  17. Santos CR, Meza AN, Hoffmam ZB, Silva JC, Alvarez TM, Ruller R, Giesel GM, Verli H, Squina FM, Prade RA, and Murakami MT. (2010) Thermal-induced conformational changes in the product release area drive the enzymatic activity of xylanases 10B: Crystal structure, conformational stability and functional characterization of the xylanase 10B from Thermotoga petrophila RKU-1. Biochem Biophys Res Commun. 403, 214-9. DOI:10.1016/j.bbrc.2010.11.010 | PubMed ID:21070746 | HubMed [Santos2010]
  18. Alvarez TM, Goldbeck R, dos Santos CR, Paixão DA, Gonçalves TA, Franco Cairo JP, Almeida RF, de Oliveira Pereira I, Jackson G, Cota J, Büchli F, Citadini AP, Ruller R, Polo CC, de Oliveira Neto M, Murakami MT, and Squina FM. (2013) Development and biotechnological application of a novel endoxylanase family GH10 identified from sugarcane soil metagenome. PLoS One. 8, e70014. DOI:10.1371/journal.pone.0070014 | PubMed ID:23922891 | HubMed [Alvarez2013b]
  19. Santos CR, Hoffmam ZB, de Matos Martins VP, Zanphorlin LM, de Paula Assis LH, Honorato RV, Lopes de Oliveira PS, Ruller R, and Murakami MT. (2014) Molecular mechanisms associated with xylan degradation by Xanthomonas plant pathogens. J Biol Chem. 289, 32186-200. DOI:10.1074/jbc.M114.605105 | PubMed ID:25266726 | HubMed [Santos2014a]
  20. Murakami MT, Arni RK, Vieira DS, Degrève L, Ruller R, and Ward RJ. (2005) Correlation of temperature induced conformation change with optimum catalytic activity in the recombinant G/11 xylanase A from Bacillus subtilis strain 168 (1A1). FEBS Lett. 579, 6505-10. DOI:10.1016/j.febslet.2005.10.039 | PubMed ID:16289057 | HubMed [Murakami2005]
  21. Ribeiro LF, Furtado GP, Lourenzoni MR, Costa-Filho AJ, Santos CR, Nogueira SC, Betini JA, Polizeli Mde L, Murakami MT, and Ward RJ. (2011) Engineering bifunctional laccase-xylanase chimeras for improved catalytic performance. J Biol Chem. 286, 43026-38. DOI:10.1074/jbc.M111.253419 | PubMed ID:22006920 | HubMed [Ribeiro2011]
  22. Hoffmam ZB, Zanphorlin LM, Cota J, Diogo JA, Almeida GB, Damásio AR, Squina F, Murakami MT, and Ruller R. (2016) Xylan-specific carbohydrate-binding module belonging to family 6 enhances the catalytic performance of a GH11 endo-xylanase. N Biotechnol. 33, 467-72. DOI:10.1016/j.nbt.2016.02.006 | PubMed ID:26923808 | HubMed [Hoffmam2016]
  23. Damásio AR, Ribeiro LF, Ribeiro LF, Furtado GP, Segato F, Almeida FB, Crivellari AC, Buckeridge MS, Souza TA, Murakami MT, Ward RJ, Prade RA, and Polizeli ML. (2012) Functional characterization and oligomerization of a recombinant xyloglucan-specific endo-β-1,4-glucanase (GH12) from Aspergillus niveus. Biochim Biophys Acta. 1824, 461-7. DOI:10.1016/j.bbapap.2011.12.005 | PubMed ID:22230786 | HubMed [Damasio2012]
  24. Furtado GP, Santos CR, Cordeiro RL, Ribeiro LF, de Moraes LA, Damásio AR, Polizeli Mde L, Lourenzoni MR, Murakami MT, and Ward RJ. (2015) Enhanced xyloglucan-specific endo-β-1,4-glucanase efficiency in an engineered CBM44-XegA chimera. Appl Microbiol Biotechnol. 99, 5095-107. DOI:10.1007/s00253-014-6324-0 | PubMed ID:25605422 | HubMed [Furtado2015]
  25. Segato F, Dias B, Berto GL, de Oliveira DM, De Souza FHM, Citadini AP, Murakami MT, Damásio ARL, Squina FM, and Polikarpov I. (2017) Cloning, heterologous expression and biochemical characterization of a non-specific endoglucanase family 12 from Aspergillus terreus NIH2624. Biochim Biophys Acta Proteins Proteom. 1865, 395-403. DOI:10.1016/j.bbapap.2017.01.003 | PubMed ID:28088615 | HubMed [Segato2017]
  26. Cota J, Alvarez TM, Citadini AP, Santos CR, de Oliveira Neto M, Oliveira RR, Pastore GM, Ruller R, Prade RA, Murakami MT, and Squina FM. (2011) Mode of operation and low-resolution structure of a multi-domain and hyperthermophilic endo-β-1,3-glucanase from Thermotoga petrophila. Biochem Biophys Res Commun. 406, 590-4. DOI:10.1016/j.bbrc.2011.02.098 | PubMed ID:21352806 | HubMed [Cota2011]
  27. Cota J, Oliveira LC, Damásio AR, Citadini AP, Hoffmam ZB, Alvarez TM, Codima CA, Leite VB, Pastore G, de Oliveira-Neto M, Murakami MT, Ruller R, and Squina FM. (2013) Assembling a xylanase-lichenase chimera through all-atom molecular dynamics simulations. Biochim Biophys Acta. 1834, 1492-500. DOI:10.1016/j.bbapap.2013.02.030 | PubMed ID:23459129 | HubMed [Cota2013]
  28. Mandelli F, de Morais MAB, de Lima EA, Oliveira L, Persinoti GF, and Murakami MT. (2020) Spatially remote motifs cooperatively affect substrate preference of a ruminal GH26-type endo-β-1,4-mannanase. J Biol Chem. 295, 5012-5021. DOI:10.1074/jbc.RA120.012583 | PubMed ID:32139511 | HubMed [Mandelli2020]
  29. Santos CR, Polo CC, Corrêa JM, Simão Rde C, Seixas FA, and Murakami MT. (2012) The accessory domain changes the accessibility and molecular topography of the catalytic interface in monomeric GH39 β-xylosidases. Acta Crystallogr D Biol Crystallogr. 68, 1339-45. DOI:10.1107/S0907444912028491 | PubMed ID:22993088 | HubMed [Santos2012c]
  30. de Morais MAB, Polo CC, Domingues MN, Persinoti GF, Pirolla RAS, de Souza FHM, Correa JBL, Dos Santos CR, and Murakami MT. (2020) Exploring the Molecular Basis for Substrate Affinity and Structural Stability in Bacterial GH39 β-Xylosidases. Front Bioeng Biotechnol. 8, 419. DOI:10.3389/fbioe.2020.00419 | PubMed ID:32500063 | HubMed [Morais2020]
  31. Godoy AS, Camilo CM, Kadowaki MA, Muniz HD, Espirito Santo M, Murakami MT, Nascimento AS, and Polikarpov I. (2016) Crystal structure of β1→6-galactosidase from Bifidobacterium bifidum S17: trimeric architecture, molecular determinants of the enzymatic activity and its inhibition by α-galactose. FEBS J. 283, 4097-4112. DOI:10.1111/febs.13908 | PubMed ID:27685756 | HubMed [Godoy2016]
  32. Santos CR, Polo CC, Costa MC, Nascimento AF, Meza AN, Cota J, Hoffmam ZB, Honorato RV, Oliveira PS, Goldman GH, Gilbert HJ, Prade RA, Ruller R, Squina FM, Wong DW, and Murakami MT. (2014) Mechanistic strategies for catalysis adopted by evolutionary distinct family 43 arabinanases. J Biol Chem. 289, 7362-73. DOI:10.1074/jbc.M113.537167 | PubMed ID:24469445 | HubMed [Santos2014b]
  33. Diogo JA, Hoffmam ZB, Zanphorlin LM, Cota J, Machado CB, Wolf LD, Squina F, Damásio AR, Murakami MT, and Ruller R. (2015) Development of a chimeric hemicellulase to enhance the xylose production and thermotolerance. Enzyme Microb Technol. 69, 31-7. DOI:10.1016/j.enzmictec.2014.11.006 | PubMed ID:25640722 | HubMed [Diogo2015]
  34. Zanphorlin LM, de Morais MAB, Diogo JA, Domingues MN, de Souza FHM, Ruller R, and Murakami MT. (2019) Structure-guided design combined with evolutionary diversity led to the discovery of the xylose-releasing exo-xylanase activity in the glycoside hydrolase family 43. Biotechnol Bioeng. 116, 734-744. DOI:10.1002/bit.26899 | PubMed ID:30556897 | HubMed [Zanphorlin2019]
  35. Berto GL, Velasco J, Tasso Cabos Ribeiro C, Zanphorlin LM, Noronha Domingues M, Tyago Murakami M, Polikarpov I, de Oliveira LC, Ferraz A, and Segato F. (2019) Functional characterization and comparative analysis of two heterologous endoglucanases from diverging subfamilies of glycosyl hydrolase family 45. Enzyme Microb Technol. 120, 23-35. DOI:10.1016/j.enzmictec.2018.09.005 | PubMed ID:30396396 | HubMed [Berto2019]
  36. Souza TA, Santos CR, Souza AR, Oldiges DP, Ruller R, Prade RA, Squina FM, and Murakami MT. (2011) Structure of a novel thermostable GH51 α-L-arabinofuranosidase from Thermotoga petrophila RKU-1. Protein Sci. 20, 1632-7. DOI:10.1002/pro.693 | PubMed ID:21796714 | HubMed [Souza2011]
  37. Dos Santos CR, de Giuseppe PO, de Souza FHM, Zanphorlin LM, Domingues MN, Pirolla RAS, Honorato RV, Tonoli CCC, de Morais MAB, de Matos Martins VP, Fonseca LM, Büchli F, de Oliveira PSL, Gozzo FC, and Murakami MT. (2018) The mechanism by which a distinguishing arabinofuranosidase can cope with internal di-substitutions in arabinoxylans. Biotechnol Biofuels. 11, 223. DOI:10.1186/s13068-018-1212-y | PubMed ID:30127853 | HubMed [Santos2018]
  38. Gonçalves TA, Damásio AR, Segato F, Alvarez TM, Bragatto J, Brenelli LB, Citadini AP, Murakami MT, Ruller R, Paes Leme AF, Prade RA, and Squina FM. (2012) Functional characterization and synergic action of fungal xylanase and arabinofuranosidase for production of xylooligosaccharides. Bioresour Technol. 119, 293-9. DOI:10.1016/j.biortech.2012.05.062 | PubMed ID:22750495 | HubMed [Goncalves2012]
  39. Santos CR, Tonoli CC, Trindade DM, Betzel C, Takata H, Kuriki T, Kanai T, Imanaka T, Arni RK, and Murakami MT. (2011) Structural basis for branching-enzyme activity of glycoside hydrolase family 57: structure and stability studies of a novel branching enzyme from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1. Proteins. 79, 547-57. DOI:10.1002/prot.22902 | PubMed ID:21104698 | HubMed [Santos2011]
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