Table A1.
List of parameters used for the simulation of influenza virus replication
Parameter | Description | Value | Source, reference, or comment |
---|---|---|---|
Bhitot | No. of high-affinity binding sites | 150 sites | 44 |
Blotot | No. of low-affinity binding sites | 1,000 sites | 44 |
DRib | Distance between two adjacent ribosomes | 160 nt | 4 |
FFus | Fraction of fusion-competent virions | 0.51 | Expt in Fig. 2A |
FSp17 | Fraction of M2-encoding mRNAs | 0.02 | Based on ration of M2 to M1 |
FSp18 | Fraction of NEP-encoding mRNAs | 0.125 | 50 |
khiAtt | Attachment to high-affinity binding sites | 8.09 · 10−2 sites−1 · h−1 | Adjusted to data in reference 44 |
kloAtt | Attachment to low-affinity binding sites | 4.55 · 10−2 sites−1 · h−1 | Adjusted to data in reference 44 |
kM1Bind | Binding of M1 to nuclear vRNPs | 1.39 · 10−6 molecule−1 · h−1 | Expt in Fig. 4A and B |
kNPBind | Binding of NP to RdRp-RNA complexes | 3.01 · 10−4 molecule−1 · h−1 | Expt in Fig. 3B-D |
kRdRpBind | Binding of RdRp complexes to RNA | 1 molecule−1 · h−1 | Expt in Fig. 3B-D |
kMDeg | Degradation of mRNA | 0.33 h−1 | Expt in Fig. 3B-D |
kRDeg | Degradation of nascent cRNA/vRNA | 36.36 h−1 | Expt in Fig. 3B-D |
kRnpDeg | Degradation of RNPs | 0.09 h−1 | Expt in Fig. 4A and B |
kRRdRpDeg | Degradation of RdRp-RNA complexes | 4.25 h−1 | Expt in Fig. 3B-D |
kEn | Endocytosis | 4.8 h−1 | Expt in Fig. 2A |
khiEq | Equilibrium constant of high-affinity sites | 1.13 · 10−2 site−1 | 44 |
kloEq | Equilibrium constant of low-affinity sites | 8.33 · 10−5 site−1 | 44 |
kExp | NEP binding and nuclear export | 1 · 10−6 molecule−1 · h−1 | Adjusted to data from reference 2 |
kFus | Fusion with endosomes | 3.21 h−1 | Expt in Fig. 2A |
kImp | Nuclear import | 6 h−1 | 5 |
kRdRp | Formation of RdRp complexes | 1 molecule−2 · h−1 | Rapid complex formation |
kRel | Virus release | 3.7 · 10−3 virions · molecule−1 · h−1 | Cell releases 104 virions in 12 h |
kCSyn | cRNA synthesis | 1.38 h−1 | Expt in Fig. 4A and B |
kMSyn | mRNA synthesis | 2.5 · 10−5 nt · h−1 | Expt in Fig. 4A and B |
kPSyn | Protein synthesis | 64,800 nt · h−1 | 56 |
kVSyn | vRNA synthesis | 13.86 h−1 | Expt in Fig. 4A and B |
KVRel | Influence of proteins on virus release | 10 virions | Adjusted |
L1 | Length of segment 1's mRNA | 2,320 nt | 33 |
L2 | Length of segment 2's mRNA | 2,320 nt | 33 |
L3 | Length of segment 3's mRNA | 2,211 nt | 33 |
L4 | Length of segment 4's mRNA | 1,757 nt | 33 |
L5 | Length of segment 5's mRNA | 1,540 nt | 33 |
L6 | Length of segment 6's mRNA | 1,392 nt | 33 |
L7 | Length of segment 7's unspliced mRNA | 1,005 nt | 33 |
L8 | Length of segment 8's unspliced mRNA | 868 nt | 33 |
LV | Average length of a vRNA | 1,700 nt | Based on reference 33 |
NPRdRP | No. of RdRp complexes in a virion | 45 molecules · virion−1 | 33 |
NPHA | No. of HA molecules in a virion | 500 molecules · virion−1 | 33 |
NPNP | No. of NP molecules in a virion | 1,000 molecules · virion−1 | 33 |
NPNA | No. of NA molecules in a virion | 100 molecules · virion−1 | 33 |
NPM1 | No. of M1 molecules in a virion | 3,000 molecules · virion−1 | 33 |
NPM2 | No. of M2 molecules in a virion | 40 molecules · virion−1 | 33 |
NPNEP | No. of NEP molecules in a virion | 165 molecules · virion−1 | 33 |
NM1nuc | Nucleotides bound by one M1 molecule | 200 nt | 63 |
NNEPNuc | Nucleotides bound by one NEP molecule | 1,700 nt | Adjusted to data in reference 47 |
NNPnuc | Nucleotides bound by one NP molecule | 24 nt | 47 |