846237
constant: true
value: 0.231
name: kRd
type: Parameter

489337
stoichiometry: 1.0
species: 846218
type: SpeciesReference

846239
constant: true
value: 0.0077
name: kPd
type: Parameter

846245
constant: true
value: 6.02E23
name: nA
type: Parameter

846235
constant: false
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: NaN
in compartment: 846215
name: H3_DNA
type: Species

846225
kinetic law: 489424
modifier: 489411
product: 489398
fast: false
reversible: true
name: v3
type: Reaction

489398
stoichiometry: 1.0
species: 846220
type: SpeciesReference

846247
constant: true
value: 3.6
name: coef
type: Parameter

846243
constant: true
value: 0.236
name: wfr
type: Parameter

846241
constant: true
value: 15300.0
name: mProt
type: Parameter

489374
stoichiometry: 1.0
species: 846218
type: SpeciesReference

846223
kinetic law: 489386
reactant: 489374
fast: false
reversible: true
name: v2
type: Reaction

metaid_0000023
constant: true
value: 1.0
name: nfac
type: Parameter

846238
constant: true
value: 343.0
name: kPs
type: Parameter

489437
stoichiometry: 1.0
species: 846220
type: SpeciesReference

846226
kinetic law: 489450
reactant: 489437
fast: false
reversible: true
name: v4
type: Reaction

846218
constant: false
boundary condition: false
has only substance units: false
initial concentration: 5.7E8
initial amount: NaN
in compartment: 846215
name: H3_RNA
type: Species

846246
constant: true
value: 14.0
name: ktranscriptionattenuation
type: Parameter

846234
constant: false
value: NaN
type: Parameter

846215
constant: true
size: 1.0
spatial dimensions: 3.0
name: cell
type: Compartment

846242
constant: true
value: 3.15E-12
name: mDNA
type: Parameter

MODEL5954483266
parameter: metaid_0000023
parameter: 846246
species: 846220
time units: 013121
rule: 846232
is described by: http://identifiers.org/pubmed/3267765
parameter: 846234
parameter: 846237
parameter: 846243
parameter: 846245
volume units: metaid_0000217
reaction: 846223
reaction: 846226
species: 846218
parameter: metaid_0000024
curated: false
parameter: 846242
substance units: 106194
reaction: 846222
parameter: 846239
area units: area
parameter: 846247
parameter: 846241
length unit: length
type: SBMLModel
name: Koster1988_Histone_Expression
rule: 846231
reaction: 846225
notes: This model is described in the article: Kinetics of histone gene expression during early development of Xenopus laevis. Koster JG, Destrée OH and Westerhoff HV. J Theor Biol. 1988 Nov 21;135(2):139-67. PMID: 3267765 Abstract: Using literature data for transcriptional and translational rate constants, gene copy numbers, DNA concentrations, and stability constants, we have calculated the expected concentrations of histones and histone mRNA during embryogenesis of Xenopus laevis. The results led us to conclude that: (i) for X. laevis the gene copy number of the histone genes is too low to ensure the synthesis of sufficient histones during very early development, inheritance from the oocyte of either histone protein or histone mRNA (but not necessarily both) is necessary; (ii) from the known storage of histones in the oocyte and the rates of histone synthesis determined by Adamson and Woodland (1977), there would be sufficient histones to structure the newly synthesized DNA up to gastrulation but not thereafter (these empirical rates of histone synthesis may be underestimates); (iii) on the other hand, the amount of H3 mRNA recently observed during early embryogenesis (Koster, 1987, Koster et al., 1988) could direct a higher and sufficient synthesis of H3 protein, also after gastrulation. We present a quantitative model that accounts both for the observed H3 mRNA concentration as a function of time during embryogenesis and for the synthesis of sufficient histones to structure the DNA throughout early embryogenesis. The model suggests that X. laevis exhibits a major (i.e. some 14-fold) reduction in transcription of histone genes approximately 11 hours after fertilization. This reduction could be due to a decrease in the number of transcribed histone genes, a decreased rate constant of transcription with continued transcription of all the histone genes, and/or a reduction in the time during the cell cycle in which histone mRNA synthesis takes place. Alternatively, the his…
parameter: 846238
species: 846235
compartment: 846215

846220
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.33E12
initial amount: NaN
in compartment: 846215
name: H3_Protein
type: Species

metaid_0000024
notes: number of His genes
constant: true
value: 50.0
name: ng
type: Parameter

846222
kinetic law: 489362
modifier: 489350
product: 489337
fast: false
reversible: true
name: v1
type: Reaction