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BIOMD0000000365 - Hockin1999_BloodCoagulation_VaInactivation

  
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Reference Publication
Publication ID: 10346914
Hockin MF, Cawthern KM, Kalafatis M, Mann KG.
A model describing the inactivation of factor Va by APC: bond cleavage, fragment dissociation, and product inhibition.
Biochemistry 1999 May; 38(21): 6918-6934
Department of Biochemistry, The University of Vermont, College of Medicine, Burlington, Vermont 05405, USA.  [more]
Model
Original Model: BIOMD0000000365.origin
Submitter: Michael Schubert
Submission ID: MODEL1108260001
Submission Date: 26 Aug 2011 17:12:01 UTC
Last Modification Date: 09 Oct 2014 18:17:13 UTC
Creation Date: 26 Aug 2011 17:38:00 UTC
Encoders:  Michael Schubert
set #1
bqbiol:hasProperty Human Disease Ontology inherited blood coagulation disease
set #2
bqbiol:hasTaxon Taxonomy Eukaryota
set #3
bqmodel:is Gene Ontology blood coagulation
Notes
Model
Publication ID: 10346914 Submission Date: 26 Aug 2011 17:12:01 UTC Last Modification Date: 09 Oct 2014 18:17:13 UTC Creation Date: 26 Aug 2011 17:38:00 UTC
Mathematical expressions
Reactions
r1 r2 r3 r4
r5 r6 r7 r8
r9 r10 r11 r12
r13 r14 r15 r16
r17 r18 r19 r20
r21 r22 r23 r24
r25 r26 r27 r28
r29 r30 r31 r32
r33      
Physical entities
Compartments Species
compartment_1 APC Va Va_APC
Va3 Va3_APC Va5
Va5_APC Va53 Va53_APC
Va56 Va56_APC Va36
Va36_APC Va536 Va536_APC
HC LC HC5
HC3 HC56 HC36
HC536 LC_APC HC53
VaA3 VaA53 VaA36
VaA536 VaLCA1 VaLCA1_APC
Global parameters
k1 k2 k3 k5
k6 k7 k8 k9
k10      
Reactions (33)
 
 r1 [Va] + [APC] ↔ [Va_APC];  
 
 r2 [Va3] + [APC] ↔ [Va3_APC];  
 
 r3 [Va5] + [APC] ↔ [Va5_APC];  
 
 r4 [Va53] + [APC] ↔ [Va53_APC];  
 
 r5 [Va56] + [APC] ↔ [Va56_APC];  
 
 r6 [Va36] + [APC] ↔ [Va36_APC];  
 
 r7 [Va536] + [APC] ↔ [Va536_APC];  
 
 r8 [Va_APC] → [Va5_APC];  
 
 r9 [Va5_APC] → [Va56_APC];  
 
 r10 [Va56_APC] → [Va536_APC];  
 
 r11 [Va5_APC] → [Va53_APC];  
 
 r12 [Va53_APC] → [Va536_APC];  
 
 r13 [Va_APC] → [Va3_APC];  
 
 r14 [Va3_APC] → [Va36_APC];  
 
 r15 [Va36_APC] → [Va536_APC];  
 
 r16 [Va3_APC] → [Va53_APC];  
 
 r17 [Va] ↔ [HC] + [LC];  
 
 r18 [Va5] ↔ [HC5] + [LC];  
 
 r19 [Va3] ↔ [HC3] + [LC];  
 
 r20 [Va56] ↔ [HC56] + [LC];  
 
 r21 [Va53] ↔ [HC53] + [LC];  
 
 r22 [Va36] ↔ [HC36] + [LC];  
 
 r23 [Va536] ↔ [HC536] + [LC];  
 
 r24 [LC] + [APC] ↔ [LC_APC];  
 
 r25 [Va3] ↔ [VaA3] + [VaLCA1];  
 
 r26 [Va53] ↔ [VaA53] + [VaLCA1];  
 
 r27 [Va36] ↔ [VaA36] + [VaLCA1];  
 
 r28 [Va536] ↔ [VaA536] + [VaLCA1];  
 
 r29 [Va3_APC] ↔ [VaA3] + [VaLCA1_APC];  
 
 r30 [Va53_APC] ↔ [VaA53] + [VaLCA1_APC];  
 
 r31 [Va36_APC] ↔ [VaA36] + [VaLCA1_APC];  
 
 r32 [Va536_APC] ↔ [VaA536] + [VaLCA1_APC];  
 
 r33 [VaLCA1] + [APC] ↔ [VaLCA1_APC];  
 
   compartment_1 Spatial dimensions: 3.0  Compartment size: 1.0
 
 APC
Compartment: compartment_1
Initial concentration: 1.0E-8
 
 Va
Compartment: compartment_1
Initial concentration: 2.0E-7
 
 Va_APC
Compartment: compartment_1
Initial concentration: 0.0
 
   Va3
Compartment: compartment_1
Initial concentration: 0.0
 
 Va3_APC
Compartment: compartment_1
Initial concentration: 0.0
 
   Va5
Compartment: compartment_1
Initial concentration: 0.0
 
 Va5_APC
Compartment: compartment_1
Initial concentration: 0.0
 
   Va53
Compartment: compartment_1
Initial concentration: 0.0
 
 Va53_APC
Compartment: compartment_1
Initial concentration: 0.0
 
   Va56
Compartment: compartment_1
Initial concentration: 0.0
 
 Va56_APC
Compartment: compartment_1
Initial concentration: 0.0
 
   Va36
Compartment: compartment_1
Initial concentration: 0.0
 
 Va36_APC
Compartment: compartment_1
Initial concentration: 0.0
 
   Va536
Compartment: compartment_1
Initial concentration: 0.0
 
 Va536_APC
Compartment: compartment_1
Initial concentration: 0.0
 
   HC
Compartment: compartment_1
Initial concentration: 0.0
 
   LC
Compartment: compartment_1
Initial concentration: 0.0
 
   HC5
Compartment: compartment_1
Initial concentration: 0.0
 
   HC3
Compartment: compartment_1
Initial concentration: 0.0
 
   HC56
Compartment: compartment_1
Initial concentration: 0.0
 
   HC36
Compartment: compartment_1
Initial concentration: 0.0
 
   HC536
Compartment: compartment_1
Initial concentration: 0.0
 
 LC_APC
Compartment: compartment_1
Initial concentration: 0.0
 
   HC53
Compartment: compartment_1
Initial concentration: 0.0
 
   VaA3
Compartment: compartment_1
Initial concentration: 0.0
 
   VaA53
Compartment: compartment_1
Initial concentration: 0.0
 
   VaA36
Compartment: compartment_1
Initial concentration: 0.0
 
   VaA536
Compartment: compartment_1
Initial concentration: 0.0
 
   VaLCA1
Compartment: compartment_1
Initial concentration: 0.0
 
 VaLCA1_APC
Compartment: compartment_1
Initial concentration: 0.0
 
Global Parameters (9)
 
 k1
Value: 1.0E8
Constant
 
 k2
Value: 0.7
Constant
 
 k3
Value: 0.064
Constant
 
 k5
Value: 1.0
Constant
 
 k6
Value: 5.2E-4
Constant
 
 k7
Value: 0.028
Constant
 
 k8
Value: 2570.0
Constant
 
 k9
Value: 1.72E-5
Constant
 
 k10
Value: 2630.0
Constant
 
Representative curation result(s)
Representative curation result(s) of BIOMD0000000365

Curator's comment: (updated: 26 Aug 2011 17:32:30 GMT)

Reproduction of figure 7a of the article.

Model integrated using PySCeS and plotted with Matplotlib.
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