Literature DB >> 2986133

Modification of pK values caused by change in H-bond geometry.

S Scheiner, E A Hillenbrand.   

Abstract

The competition between various groups for a proton is studied by ab initio molecular orbital methods. It is found that reorientations of the two groups involved in a H-bond can reverse the equilibrium position of the proton shared between them. Specifically, the carbonyl and hydroxyl groups were modeled by H2CO and HOH. In the H-bond between these two groups, association of the proton with the carbonyl (H2COH...OH2)+ is favored over the hydroxyl (H2CO...HOH2)+ when the latter group is situated along a lone pair of the carbonyl oxygen. However, displacement of the water to the C = O axis between the two carbonyl lone pairs reverses the situation and (H2CO...HOH2)+ is more stable. A similar reversal of stability is observed in the H-bond involving a Schiff base (modeled by CH2NH) and amine (NH3). In one arrangement where the lone pairs of the two groups point toward one another, the proton prefers the Schiff base to the amine--i.e., (H2CHNH...NH3)+ is more stable than (H2CHN...HNH3)+. On the other hand, rotation of the lone pair of the amine away from the Schiff base nitrogen results in proton transfer across to the amine. These shifts in stability correspond to reversal of relative pK of the groups involved. A fundamental principle emerging from the calculations is that ion-dipole electrostatic interactions favor transfer of a proton to the group that is positioned as closely as possible to the negative end of the dipole moment vector of the other. The ideas developed here suggest a number of means by which conformational changes may be utilized to shift protons from residue to residue within a protein molecule such as an enzyme or bacteriorhodopsin.

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Year:  1985        PMID: 2986133      PMCID: PMC397641          DOI: 10.1073/pnas.82.9.2741

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


  11 in total

1.  Experimental evidence for secondary protein-chromophore interactions at the Schiff base linkage in bacteriorhodopsin: Molecular mechanism for proton pumping.

Authors:  A Lewis; M A Marcus; B Ehrenberg; H Crespi
Journal:  Proc Natl Acad Sci U S A       Date:  1978-10       Impact factor: 11.205

2.  Molecular mechanisms for proton transport in membranes.

Authors:  J F Nagle; H J Morowitz
Journal:  Proc Natl Acad Sci U S A       Date:  1978-01       Impact factor: 11.205

Review 3.  Bacteriorhodopsin and related pigments of halobacteria.

Authors:  W Stoeckenius; R A Bogomolni
Journal:  Annu Rev Biochem       Date:  1982       Impact factor: 23.643

Review 4.  Proton transfer in the catalytic mechanism of carbonic anhydrase.

Authors:  D N Silverman; S H Vincent
Journal:  CRC Crit Rev Biochem       Date:  1983

Review 5.  Hydrogen bonded chain mechanisms for proton conduction and proton pumping.

Authors:  J F Nagle; S Tristram-Nagle
Journal:  J Membr Biol       Date:  1983       Impact factor: 1.843

6.  Fourier transform infrared difference spectroscopy of bacteriorhodopsin and its photoproducts.

Authors:  K Bagley; G Dollinger; L Eisenstein; A K Singh; L Zimányi
Journal:  Proc Natl Acad Sci U S A       Date:  1982-08       Impact factor: 11.205

7.  Infrared evidence that the Schiff base of bacteriorhodopsin is protonated: bR570 and K intermediates.

Authors:  K J Rothschild; H Marrero
Journal:  Proc Natl Acad Sci U S A       Date:  1982-07       Impact factor: 11.205

8.  Light-driven proton translocation by bacteriorhodopsin reconstituted with the phenyl analog of retinal.

Authors:  H Bayley; R Radhakrishnan; K S Huang; H G Khorana
Journal:  J Biol Chem       Date:  1981-04-25       Impact factor: 5.157

9.  Determination of retinal Schiff base configuration in bacteriorhodopsin.

Authors:  S O Smith; A B Myers; J A Pardoen; C Winkel; P P Mulder; J Lugtenburg; R Mathies
Journal:  Proc Natl Acad Sci U S A       Date:  1984-04       Impact factor: 11.205

10.  Reversible inhibition of the proton pump bacteriorhodopsin by modification of tyrosine 64.

Authors:  H D Lemke; J Bergmeyer; J Straub; D Oesterhelt
Journal:  J Biol Chem       Date:  1982-08-25       Impact factor: 5.157

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  11 in total

1.  Molecular dynamics study of the nature and origin of retinal's twisted structure in bacteriorhodopsin.

Authors:  E Tajkhorshid; J Baudry; K Schulten; S Suhai
Journal:  Biophys J       Date:  2000-02       Impact factor: 4.033

Review 2.  Membrane protein folding: how important are hydrogen bonds?

Authors:  James U Bowie
Journal:  Curr Opin Struct Biol       Date:  2010-11-12       Impact factor: 6.809

3.  Deprotonation of lipid-depleted bacteriorhodopsin.

Authors:  D J Jang; M A el-Sayed
Journal:  Proc Natl Acad Sci U S A       Date:  1988-08       Impact factor: 11.205

4.  Effect of intermolecular orientation upon proton transfer within a polarizable medium.

Authors:  S Scheiner; X Duan
Journal:  Biophys J       Date:  1991-10       Impact factor: 4.033

5.  The nature of enzyme catalysis in trypsin.

Authors:  S J Weiner; G L Seibel; P A Kollman
Journal:  Proc Natl Acad Sci U S A       Date:  1986-02       Impact factor: 11.205

6.  On the molecular mechanisms of the Schiff base deprotonation during the bacteriorhodopsin photocycle.

Authors:  E L Chronister; T C Corcoran; L Song; M A El-Sayed
Journal:  Proc Natl Acad Sci U S A       Date:  1986-11       Impact factor: 11.205

7.  On catalytic preorganization in oxyanion holes: highlighting the problems with the gas-phase modeling of oxyanion holes and illustrating the need for complete enzyme models.

Authors:  Shina C L Kamerlin; Zhen T Chu; A Warshel
Journal:  J Org Chem       Date:  2010-10-01       Impact factor: 4.354

8.  The energetics of the primary proton transfer in bacteriorhodopsin revisited: it is a sequential light-induced charge separation after all.

Authors:  Sonja Braun-Sand; Pankaz K Sharma; Zhen T Chu; Andrei V Pisliakov; Arieh Warshel
Journal:  Biochim Biophys Acta       Date:  2008-03-14

9.  Elucidating the exact role of engineered CRABPII residues for the formation of a retinal protonated Schiff base.

Authors:  Chrysoula Vasileiou; Wenjing Wang; Xiaofei Jia; Kin Sing Stephen Lee; Camille T Watson; James H Geiger; Babak Borhan
Journal:  Proteins       Date:  2009-12

10.  A new type of proton coordination in an F(1)F(o)-ATP synthase rotor ring.

Authors:  Laura Preiss; Ozkan Yildiz; David B Hicks; Terry A Krulwich; Thomas Meier
Journal:  PLoS Biol       Date:  2010-08-03       Impact factor: 8.029

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