Literature DB >> 16593049

On the attribution and additivity of binding energies.

W P Jencks1.   

Abstract

It can be useful to describe the Gibbs free energy changes for the binding to a protein of a molecule, A-B, and of its component parts, A and B, in terms of the "intrinsic binding energies" of A and B, DeltaG(A) (i) and DeltaG(B) (i), and a "connection Gibbs energy," DeltaG(s) that is derived largely from changes in translational and rotational entropy. This empirical approach avoids the difficult or insoluble problem of interpreting observed DeltaH and TDeltaS values for aqueous solutions. The DeltaG(i) and DeltaG(s) terms can be large for binding to enzymes and other proteins.

Entities:  

Year:  1981        PMID: 16593049      PMCID: PMC319722          DOI: 10.1073/pnas.78.7.4046

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  32 in total

1.  Reaction of peptide aldehydes with serine proteases. Implications for the entropy changes associated with enzymatic catalysis.

Authors:  R C Thompson; C A Bauer
Journal:  Biochemistry       Date:  1979-04-17       Impact factor: 3.162

Review 2.  Mechanism of actomyosin ATPase and the problem of muscle contraction.

Authors:  E W Taylor
Journal:  CRC Crit Rev Biochem       Date:  1979

3.  The binding constant of ATP to myosin S1 fragment.

Authors:  R S Goody; W Hofmann; G H Mannherz
Journal:  Eur J Biochem       Date:  1977-09

Review 4.  The utilization of binding energy in coupled vectorial processes.

Authors:  W P Jencks
Journal:  Adv Enzymol Relat Areas Mol Biol       Date:  1980

5.  Mechanism of action of enolase: effect of the beta-hydroxy group on the rate of dissociation of the alpha-carbon-hydrogen bond.

Authors:  J Stubbe; R H Abeles
Journal:  Biochemistry       Date:  1980-11-25       Impact factor: 3.162

6.  The binding of heavy meromyosin to F-actin.

Authors:  L E Greene; E Eisenberg
Journal:  J Biol Chem       Date:  1980-01-25       Impact factor: 5.157

7.  An editing mechanism for the methionyl-tRNA synthetase in the selection of amino acids in protein synthesis.

Authors:  A R Fersht; C Dingwall
Journal:  Biochemistry       Date:  1979-04-03       Impact factor: 3.162

8.  The transition of bovine trypsinogen to a trypsin-like state upon strong ligand binding. II. The binding of the pancreatic trypsin inhibitor and of isoleucine-valine and of sequentially related peptides to trypsinogen and to p-guanidinobenzoate-trypsinogen.

Authors:  W Bode
Journal:  J Mol Biol       Date:  1979-02-05       Impact factor: 5.469

9.  Cysteinyl-tRNA synthetase from Escherichia coli does not need an editing mechanism to reject serine and alanine. High binding energy of small groups in specific molecular interactions.

Authors:  A R Fersht; C Dingwall
Journal:  Biochemistry       Date:  1979-04-03       Impact factor: 3.162

10.  Heavy meromyosin binds actin with negative cooperativity.

Authors:  S Highsmith
Journal:  Biochemistry       Date:  1978-01-10       Impact factor: 3.162

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  228 in total

1.  Scoring functions: a view from the bench.

Authors:  J R Tame
Journal:  J Comput Aided Mol Des       Date:  1999-03       Impact factor: 3.686

2.  Site-directed ligand discovery.

Authors:  D A Erlanson; A C Braisted; D R Raphael; M Randal; R M Stroud; E M Gordon; J A Wells
Journal:  Proc Natl Acad Sci U S A       Date:  2000-08-15       Impact factor: 11.205

3.  A paradigm for enzyme-catalyzed proton transfer at carbon: triosephosphate isomerase.

Authors:  John P Richard
Journal:  Biochemistry       Date:  2012-03-20       Impact factor: 3.162

4.  The paradoxical thermodynamic basis for the interaction of ethylene glycol, glycine, and sarcosine chains with bovine carbonic anhydrase II: an unexpected manifestation of enthalpy/entropy compensation.

Authors:  Vijay M Krishnamurthy; Brooks R Bohall; Vincent Semetey; George M Whitesides
Journal:  J Am Chem Soc       Date:  2006-05-03       Impact factor: 15.419

5.  The consequences of translational and rotational entropy lost by small molecules on binding to proteins.

Authors:  Christopher W Murray; Marcel L Verdonk
Journal:  J Comput Aided Mol Des       Date:  2002-10       Impact factor: 3.686

6.  Heat capacity changes and hydrophobic interactions in the binding of FK506 and rapamycin to the FK506 binding protein.

Authors:  P R Connelly; J A Thomson
Journal:  Proc Natl Acad Sci U S A       Date:  1992-06-01       Impact factor: 11.205

7.  Directed discovery of bivalent peptide ligands to an SH3 domain.

Authors:  Monique R Ferguson; Xiuzhen Fan; Munia Mukherjee; Jinquan Luo; Raza Khan; Josephine C Ferreon; Vincent J Hilser; Robert E Shope; Robert O Fox
Journal:  Protein Sci       Date:  2004-03       Impact factor: 6.725

8.  Pentosan polysulfate increases affinity between ADAMTS-5 and TIMP-3 through formation of an electrostatically driven trimolecular complex.

Authors:  Linda Troeberg; Barbara Mulloy; Peter Ghosh; Meng-Huee Lee; Gillian Murphy; Hideaki Nagase
Journal:  Biochem J       Date:  2012-04-01       Impact factor: 3.857

Review 9.  Specificity in transition state binding: the Pauling model revisited.

Authors:  Tina L Amyes; John P Richard
Journal:  Biochemistry       Date:  2013-02-04       Impact factor: 3.162

10.  Quantitative Characterization of Bivalent Probes for a Dual Bromodomain Protein, Transcription Initiation Factor TFIID Subunit 1.

Authors:  Junghyun L Suh; Brian Watts; Jacob I Stuckey; Jacqueline L Norris-Drouin; Stephanie H Cholensky; Bradley M Dickson; Yi An; Sebastian Mathea; Eidarus Salah; Stefan Knapp; Abid Khan; Alexander T Adams; Brian D Strahl; Cari A Sagum; Mark T Bedford; Lindsey I James; Dmitri B Kireev; Stephen V Frye
Journal:  Biochemistry       Date:  2018-03-28       Impact factor: 3.162

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