Literature DB >> 12493836

Structural energetics of protein-carbohydrate interactions: Insights derived from the study of lysozyme binding to its natural saccharide inhibitors.

Enrique García-Hernández1, Rafael A Zubillaga, Eneas A Chavelas-Adame, Edgar Vázquez-Contreras, Arturo Rojo-Domínguez, Miguel Costas.   

Abstract

High-sensitivity isothermal titration calorimetry was used to characterize the binding of the glycohydrolitic enzyme hen egg-white lysozyme to its natural saccharide inhibitors, chitobiose and chitrotriose. Measurements were done at a pH of 4.7, in the 15 degrees C -45 degrees C temperature range. Using a structural-energetic parameterization derived previously for lectin-carbohydrate associations, both binding enthalpies and entropies for the present systems and for the complex of chitobiose with turkey egg-white lysozyme from the literature were correctly accounted for. These observations suggest that both lysozymes and lectins follow the same structural-energetic behavior in the binding to their ligands. From the analysis of lysozyme data in conjunction with other binding data reported in the literature, an ad hoc parameterization of DeltaCp for protein-carbohydrate complexes was derived for the first time. The novel parameters for both polar and apolar surface areas differed significantly from correlations obtained previously from model compounds and protein-folding data. As DeltaCp is extremely sensitive to changes in solvent structure, this finding indicates that protein-carbohydrate complexes have distinctive hydration properties. According to our analysis, the dehydration of polar groups is the major cause for the observed decrease in DeltaCp, which implies that these groups behave hydrophobically. The contribution of apolar surface areas was found of the expected sign, but their specific weight is much smaller than those obtained in other correlations. This small contribution to DeltaCp is consistent with Lemieux's hypothesis of a low degree of hydration of apolar surfaces on carbohydrates.

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Year:  2003        PMID: 12493836      PMCID: PMC2312411          DOI: 10.1110/ps.0222503

Source DB:  PubMed          Journal:  Protein Sci        ISSN: 0961-8368            Impact factor:   6.725


  38 in total

1.  Van't Hoff and calorimetric enthalpies from isothermal titration calorimetry: are there significant discrepancies?

Authors:  J R Horn; D Russell; E A Lewis; K P Murphy
Journal:  Biochemistry       Date:  2001-02-13       Impact factor: 3.162

2.  Analysis and prediction of carbohydrate binding sites.

Authors:  C Taroni; S Jones; J M Thornton
Journal:  Protein Eng       Date:  2000-02

Review 3.  Biological information transfer beyond the genetic code: the sugar code.

Authors:  H J Gabius
Journal:  Naturwissenschaften       Date:  2000-03

4.  Binding sites in Escherichia coli dihydrofolate reductase communicate by modulating the conformational ensemble.

Authors:  H Pan; J C Lee; V J Hilser
Journal:  Proc Natl Acad Sci U S A       Date:  2000-10-24       Impact factor: 11.205

5.  PFA, a novel mollusk agglutinin, is structurally related to the ribosome-inactivating protein superfamily.

Authors:  R Arreguín-Espinosa; B Fenton; E Vázquez-Contreras; B Arreguín; E García-Hernández
Journal:  Arch Biochem Biophys       Date:  2001-10-15       Impact factor: 4.013

6.  Structure-based prediction of binding affinities and molecular design of peptide ligands.

Authors:  I Luque; E Freire
Journal:  Methods Enzymol       Date:  1998       Impact factor: 1.600

7.  Loss of translational entropy in binding, folding, and catalysis.

Authors:  L M Amzel
Journal:  Proteins       Date:  1997-06

Review 8.  Animal lectins as self/non-self recognition molecules. Biochemical and genetic approaches to understanding their biological roles and evolution.

Authors:  G R Vasta; H Ahmed; N E Fink; M T Elola; A G Marsh; A Snowden; E W Odom
Journal:  Ann N Y Acad Sci       Date:  1994-04-15       Impact factor: 5.691

9.  Involvement of water in carbohydrate-protein binding.

Authors:  C Clarke; R J Woods; J Gluska; A Cooper; M A Nutley; G J Boons
Journal:  J Am Chem Soc       Date:  2001-12-12       Impact factor: 15.419

10.  X-ray structure of turkey-egg lysozyme complex with tri-N-acetylchitotriose. Lack of binding ability at subsite A.

Authors:  K Harata; M Muraki
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  1997-11-01
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  9 in total

1.  The dynamical response of hen egg white lysozyme to the binding of a carbohydrate ligand.

Authors:  Veronica R Moorman; Kathleen G Valentine; A Joshua Wand
Journal:  Protein Sci       Date:  2012-06-05       Impact factor: 6.725

2.  The first identification of carbohydrate binding modules specific to chitosan.

Authors:  Shoko Shinya; Takayuki Ohnuma; Reina Yamashiro; Hisashi Kimoto; Hideo Kusaoke; Padmanabhan Anbazhagan; André H Juffer; Tamo Fukamizo
Journal:  J Biol Chem       Date:  2013-08-28       Impact factor: 5.157

3.  A novel transition-state analogue for lysozyme, 4-O-β-tri-N-acetylchitotriosyl moranoline, provided evidence supporting the covalent glycosyl-enzyme intermediate.

Authors:  Makoto Ogata; Naoyuki Umemoto; Takayuki Ohnuma; Tomoyuki Numata; Akari Suzuki; Taichi Usui; Tamo Fukamizo
Journal:  J Biol Chem       Date:  2013-01-09       Impact factor: 5.157

4.  Wide-angle X-ray solution scattering for protein-ligand binding: multivariate curve resolution with Bayesian confidence intervals.

Authors:  David D L Minh; Lee Makowski
Journal:  Biophys J       Date:  2013-02-19       Impact factor: 4.033

Review 5.  A surprising role for conformational entropy in protein function.

Authors:  A Joshua Wand; Veronica R Moorman; Kyle W Harpole
Journal:  Top Curr Chem       Date:  2013

6.  An Inductive Logic Programming Approach to Validate Hexose Binding Biochemical Knowledge.

Authors:  Houssam Nassif; Hassan Al-Ali; Sawsan Khuri; Walid Keirouz; David Page
Journal:  Inductive Log Program       Date:  2010

7.  Quantitative Determination of Ca2+-binding to Ca2+-sensor Proteins by Isothermal Titration Calorimetry.

Authors:  Seher Abbas; Karl-Wilhelm Koch
Journal:  Bio Protoc       Date:  2020-04-05

8.  Stereoelectronic effects in stabilizing protein-N-glycan interactions revealed by experiment and machine learning.

Authors:  Maziar S Ardejani; Louis Noodleman; Evan T Powers; Jeffery W Kelly
Journal:  Nat Chem       Date:  2021-03-15       Impact factor: 24.427

9.  Structural, Functional and Phylogenetic Analysis of Sperm Lysozyme-Like Proteins.

Authors:  Shalini Kalra; Mangottil Ayyappan Pradeep; Ashok K Mohanty; Jai K Kaushik
Journal:  PLoS One       Date:  2016-11-10       Impact factor: 3.240

  9 in total

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