Substrate cleavage pattern, biophysical characterization and low-resolution structure of a novel hyperthermostable arabinanase from Thermotoga petrophila

Squina, Fabio M.; Santos, Camila R.; Ribeiro, Daniela A.; Cota, Júnio; de Oliveira, Renata R.; Ruller, Roberto; Mort, Andrew; Murakami, Mario T.; Prade, Rolf A.

doi:10.1016/j.bbrc.2010.07.097

Substrate cleavage pattern, biophysical characterization and low-resolution structure of a novel hyperthermostable arabinanase from Thermotoga petrophila

Journal Article · Wed Sep 01 00:00:00 EDT 2010 · Biochemical and Biophysical Research Communications

DOI:https://doi.org/10.1016/j.bbrc.2010.07.097· OSTI ID:2318578

Squina, Fabio M.; Santos, Camila R.; Ribeiro, Daniela A.; Cota, Júnio; de Oliveira, Renata R.; Ruller, Roberto; Mort, Andrew; Murakami, Mario T.; Prade, Rolf A.

Not Available

View Journal Article

Sponsoring Organization:: USDOE

OSTI ID:: 2318578

Journal Information:: Biochemical and Biophysical Research Communications, Journal Name: Biochemical and Biophysical Research Communications Journal Issue: 4 Vol. 399; ISSN 0006-291X

Publisher:: ElsevierCopyright Statement

Country of Publication:: United States

Language:: English

References (36)

Three acidic residues are at the active site of a β-propeller architecture in glycoside hydrolase families 32, 43, 62, and 68: Three Key Acidic Residues in GH Families Pons, Tirso; Naumoff, Daniil G.; Martínez-Fleites, Carlos Proteins: Structure, Function, and Bioinformatics, Vol. 54, Issue 3 https://doi.org/10.1002/prot.10604	journal	December 2003
Analysis of Mono- and Oligosaccharide Isomers Derivatized with 9-Aminopyrene-1,4,6-trisulfonate by Capillary Electrophoresis with Laser-Induced Fluorescence Chen, F. T. A.; Evangelista, R. A. Analytical Biochemistry, Vol. 230, Issue 2 https://doi.org/10.1006/abio.1995.1474	journal	September 1995
Comparative Protein Modelling by Satisfaction of Spatial Restraints Šali, Andrej; Blundell, Tom L. Journal of Molecular Biology, Vol. 234, Issue 3 https://doi.org/10.1006/jmbi.1993.1626	journal	December 1993
Characterization of a thermostable endo-1,5-α-l-arabinanase from Caldicellulorsiruptor saccharolyticus Hong, Mi-Ri; Park, Chang-Su; Oh, Deok-Kun Biotechnology Letters, Vol. 31, Issue 9 https://doi.org/10.1007/s10529-009-0019-0	journal	May 2009
A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding Bradford, Marion M. Analytical Biochemistry, Vol. 72, Issue 1-2 https://doi.org/10.1016/0003-2697(76)90527-3	journal	May 1976
Analysis of endo-(1 → 5)-α- degradation patterns of linear (1 → 5)-α- by high-performance anion-exchange chromatography with pulsed amperometric detection Dunkel, Matthias P. H.; Amadò, Renato Carbohydrate Research, Vol. 268, Issue 1 https://doi.org/10.1016/0008-6215(94)00305-Y	journal	March 1995
Degradation of arabinans by arabinanases from Aspergillus aculeatus and Aspergillus niger Beldman, G.; Searle-van Leeuwen, M. J. F.; De Ruiter, G. A. Carbohydrate Polymers, Vol. 20, Issue 3 https://doi.org/10.1016/0144-8617(93)90146-U	journal	January 1993
Restoring Low Resolution Structure of Biological Macromolecules from Solution Scattering Using Simulated Annealing Svergun, D. I. Biophysical Journal, Vol. 76, Issue 6, p. 2879-2886 https://doi.org/10.1016/S0006-3495(99)77443-6	journal	June 1999
l-Arabinose selectively inhibits intestinal sucrase in an uncompetitive manner and suppresses glycemic response after sucrose ingestion in animals Seri, Kenji; Sanai, Kazuko; Matsuo, Noriki Metabolism, Vol. 45, Issue 11 https://doi.org/10.1016/S0026-0495(96)90117-1	journal	November 1996
Structural and sequence-based classification of glycoside hydrolases Henrissat, Bernard; Davies, Gideon Current Opinion in Structural Biology, Vol. 7, Issue 5, p. 637-644 https://doi.org/10.1016/S0959-440X(97)80072-3	journal	October 1997
Structures and mechanisms of glycosyl hydrolases Davies, Gideon; Henrissat, Bernard Structure, Vol. 3, Issue 9 https://doi.org/10.1016/S0969-2126(01)00220-9	journal	September 1995
Purification, characterization and functional analysis of an endo-arabinanase (AbnA) from Bacillus subtilis Leal, Teresa Fontes; de Sa-Nogueira, Isabel FEMS Microbiology Letters, Vol. 241, Issue 1, p. 41-48 https://doi.org/10.1016/j.femsle.2004.10.003	journal	December 2004
Xylan decomposition by Aspergillus clavatus endo-xylanase Squina, Fabio M.; Mort, Andrew J.; Decker, Stephen R. Protein Expression and Purification, Vol. 68, Issue 1 https://doi.org/10.1016/j.pep.2009.06.014	journal	November 2009
Use of Dinitrosalicylic Acid Reagent for Determination of Reducing Sugar Miller, G. L. Analytical Chemistry, Vol. 31, Issue 3 https://doi.org/10.1021/ac60147a030	journal	March 1959
The Structure of the Complex between a Branched Pentasaccharide and Thermobacillus xylanilyticus GH-51 Arabinofuranosidase Reveals Xylan-Binding Determinants and Induced Fit Paës, Gabriel; Skov, Lars K.; O’Donohue, Michael J. Biochemistry, Vol. 47, Issue 28 https://doi.org/10.1021/bi800424e	journal	June 2008
Assessment of protein models with three-dimensional profiles Lüthy, Roland; Bowie, James U.; Eisenberg, David Nature, Vol. 356, Issue 6364 https://doi.org/10.1038/356083a0	journal	March 1992
Cellvibrio japonicus α-L-arabinanase 43A has a novel five-blade β-propeller fold Nurizzo, Didier; Turkenburg, Johan P.; Charnock, Simon J. Nature Structural Biology, Vol. 9, Issue 9 https://doi.org/10.1038/nsb835	journal	August 2002
Structural insight into the ligand specificity of a thermostable family 51 arabinofuranosidase, Araf51, from Clostridium thermocellum Taylor, Edward J.; Smith, Nicola L.; Turkenburg, Johan P. Biochemical Journal, Vol. 395, Issue 1 https://doi.org/10.1042/BJ20051780	journal	March 2006
Crystal structure of an inverting GH 43 1,5-α- L -arabinanase from Geobacillus stearothermophilus complexed with its substrate Alhassid, Anat; Ben-David, Alon; Tabachnikov, Orly Biochemical Journal, Vol. 422, Issue 1 https://doi.org/10.1042/BJ20090180	journal	July 2009
A classification of glycosyl hydrolases based on amino acid sequence similarities Henrissat, B. Biochemical Journal, Vol. 280, Issue 2 https://doi.org/10.1042/bj2800309	journal	December 1991
Arabinanase A from Pseudomonas fluorescens subsp. cellulosa exhibits both an endo- and an exo- mode of action McKIE, Vincent A.; Black, Gary W.; Millward-Sadler, Sarah J. Biochemical Journal, Vol. 323, Issue 2 https://doi.org/10.1042/bj3230547	journal	April 1997
Tailored catalysts for plant cell-wall degradation: Redesigning the exo/endo preference of Cellvibrio japonicus arabinanase 43A Proctor, M. R.; Taylor, E. J.; Nurizzo, D. Proceedings of the National Academy of Sciences, Vol. 102, Issue 8 https://doi.org/10.1073/pnas.0500051102	journal	February 2005
DICHROWEB: an interactive website for the analysis of protein secondary structure from circular dichroism spectra Lobley, A.; Whitmore, L.; Wallace, B. A. Bioinformatics, Vol. 18, Issue 1 https://doi.org/10.1093/bioinformatics/18.1.211	journal	January 2002
Crystal structure and snapshots along the reaction pathway of a family 51 -L-arabinofuranosidase Hovel, K. The EMBO Journal, Vol. 22, Issue 19 https://doi.org/10.1093/emboj/cdg494	journal	October 2003
L-Arabinose Feeding Prevents Increases Due to Dietary Sucrose in Lipogenic Enzymes and Triacylglycerol Levels in Rats Osaki, Shigemitsu; Kimura, Tomoe; Sugimoto, Tomomi The Journal of Nutrition, Vol. 131, Issue 3 https://doi.org/10.1093/jn/131.3.796	journal	March 2001
ProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins Wiederstein, M.; Sippl, M. J. Nucleic Acids Research, Vol. 35, Issue Web Server https://doi.org/10.1093/nar/gkm290	journal	May 2007
Thermotoga petrophila sp. nov. and Thermotoga naphthophila sp. nov., two hyperthermophilic bacteria from the Kubiki oil reservoir in Niigata, Japan Takahata, Y.; Nishijima, M.; Hoaki, T. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 51, Issue 5 https://doi.org/10.1099/00207713-51-5-1901	journal	September 2001
Automated matching of high- and low-resolution structural models Kozin, M. B.; Svergun, D. I. Journal of Applied Crystallography, Vol. 34, Issue 1, p. 33-41 https://doi.org/10.1107/S0021889800014126	journal	February 2001
Determination of the regularization parameter in indirect-transform methods using perceptual criteria Svergun, D. I. Journal of Applied Crystallography, Vol. 25, Issue 4, p. 495-503 https://doi.org/10.1107/S0021889892001663	journal	August 1992
PROCHECK: a program to check the stereochemical quality of protein structures Laskowski, R. A.; MacArthur, M. W.; Moss, D. S. Journal of Applied Crystallography, Vol. 26, Issue 2 https://doi.org/10.1107/S0021889892009944	journal	April 1993
Coot model-building tools for molecular graphics Emsley, Paul; Cowtan, Kevin Acta Crystallographica Section D Biological Crystallography, Vol. 60, Issue 12, p. 2126-2132 https://doi.org/10.1107/S0907444904019158	journal	November 2004
Expression, purification, crystallization and preliminary crystallographic analysis of an endo-1,5-α-L-arabinanase from hyperthermophilicThermotoga petrophila Squina, Fabio Marcio; Prade, Rolf Alexander; Wang, Hongliang Acta Crystallographica Section F Structural Biology and Crystallization Communications, Vol. 65, Issue 9 https://doi.org/10.1107/S1744309109029844	journal	August 2009
Detection and identification of rhamnogalacturonan lyase activity in intercellular spaces of expanding cotton cotyledons Naran, Radnaa; Pierce, Margaret L.; Mort, Andrew J. The Plant Journal, Vol. 50, Issue 1 https://doi.org/10.1111/j.1365-313X.2007.03033.x	journal	March 2007
Biomass Recalcitrance: Engineering Plants and Enzymes for Biofuels Production Himmel, M. E.; Ding, S.-Y.; Johnson, D. K. Science, Vol. 315, Issue 5813, p. 804-807 https://doi.org/10.1126/science.1137016	journal	February 2007
Purification and Characterization of Thermostable Endo-1,5-α- l -Arabinase from a Strain of Bacillus thermodenitrificans Takao, Makoto; Akiyama, Kana; Sakai, Takuo Applied and Environmental Microbiology, Vol. 68, Issue 4 https://doi.org/10.1128/AEM.68.4.1639-1646.2002	journal	April 2002
Functional Cloning and Expression of a Novel Endo-α-1,5-L-Arabinanase from a Metagenomic Library Wong, Dominic; Chan, Victor; McCormack, Amanda Protein & Peptide Letters, Vol. 16, Issue 12 https://doi.org/10.2174/092986609789839313	journal	December 2009

Similar Records

Crystal structure of a novel thermotoga maritima enzyme (tm1112) from the cupin family at 1.83 A resolution

Journal Article · Fri Jun 24 00:00:00 EDT 2005 · Proteins Struct.Funct.Genet.56:615,2004 · OSTI ID:890322

Identification and biophysical characterization of a novel domain-swapped camelid antibody specific for fentanyl

Journal Article · Thu Aug 01 00:00:00 EDT 2024 · Journal of Biological Chemistry · OSTI ID:2378055

High-resolution structure of RNase p protein from thermotoga maritima

Journal Article · Mon Jun 30 00:00:00 EDT 2003 · Proceedings of the National Academy of Sciences · OSTI ID:842238

Substrate cleavage pattern, biophysical characterization and low-resolution structure of a novel hyperthermostable arabinanase from Thermotoga petrophila

Citation Formats

References (36)

Similar Records

Related Subjects