Page 199 - Thermodynamics of Biochemical Reactions

BasicBiochemData2 199

standard transformed reaction Gibbs energies, apparent equilibrium constants,
and changes in binding of hydrogen ions in a biochemical reaction.";
round::usage= 1ground[vec-,params-:{4,2}] rounds to the desired number of digits.";
mkeqm: :usage = llmkecpn[c-List,s-List] types out a
biochemical reaction from its stoichiometric number vector.";
nameMatrix::usage = "nameMatrix[m-List,s-List] types out the biochemical reactions
in a system of biochemical reactions from the stoichiometric number matrix.";
calcappredpot::usage= "CalCagpr~dgOt[~g_,nU~,pnlist~,islist~]
calculates the standard apparent reduction potential of
a half reaction at the desired pH and ionic strength.";
equca1cc::usage = "equcalcc[as-,lnk-,no-] calculates the equilibrium composition
for a biochemical reaction or a series of biochemical reactions,
given the conservation matrix, a list of transformed Gibbs energies
of formation, and a list of initial concentrations of reactants.";
equca1crx::usage = llegucalcrx[nt-,lnkr-,no-] calculates the equilibrium composition
for a biochemical reaction or a series of biochemical reactions, given the
transposed stoichiometric number matrix, the apparent equilibrium constants
of the reactons, and a list of initial concentrations of reactants.";
listfnpHis::usage= "1istfnpHis is a list of functions, like atp, that gives
the standard transformed Gibbs energies of formation of reactants.";
1istspeciesdata::usage = "listspeciesdata is a list of names, like
atpsp, of data files on the species of a reactant.";
listdG3I::usage= "listdG31 is a list of vectors, like atpis,
that give the values of the standard transformed Gibbs
energies of formation at pH 7 and 3 ionic strengths.";
list::usage= "list is a list of names of reactants, each in quotation marks.";
1istreactantspH::usage =
"listreactantspH is a list of vectors, like atppH,that give the values of the
standard transformed Gibbs energy of formation of a reactant at 5 pH values.";
listreactantsh::usage= "listreactantsh is a list of the names in
quotation marks for the reactants for which the standard
transformed enthalpy of formation is calculated.";
1isthisreactants::usage = "listhisreactants is a vector of the values of standard
transformed enthalpies of formation of reactants at three ionic strengths.";
listfnpHish::usage= "1istfnpHish is a function of pH and ionic strength that
gives the standard transformed enthalpy of formation of a reactant.";
1istspeciesdatah::usage = "listspeciesdatah is a list of names, like atpsp, of
data files on the species of a reactant for which the enthalpy is known.";
1isthpHreactants ::usage = "1isthpHreactants is a list of names
of reactants, like atphpH, that give the values of the
standard transformed enthalpy of formation at 5 pH values.";
pH: :usage = "pH is an independent variable.";
is::usage= "is is ionic strength, which is an independent variable.";
atp::usage= "atp is the name of a reactant that yields a function of pH and
ionic strength for the standard transformed Gibbs energy of formation.";
atpsp::usage= "atpsp yields the basic data on the species of the reactant.";
atpis::usage = "atpis yields the standard transformed
Gibbs energy of a reactant at 3 values of the ionic strength.";
atppH::USage = "atppH yields the standard transformed Gibbs energy
of a reactant at 5 values of the ionic strength.";
atph::usage= "atph yields the function of pH and ionic strength that
gives the standard transformed enthalpy of formation of atp.";
atphis::usage = "atphis yields the standard transformed
enthaply of atp at 3 ionic strengths.";
atphpH::usage = "atphis yields the standard transformed
enthaply of at9 at 5 pH values.";
tablel::usage= "table1 produces a table of standard transformed Gibbs energies of
fonnation of reactants at pH 7 and ionic strengths of 0, 0.10, and 0.25 M.";