Projects > Lazár_2009 > Thylakoid membrane > Cytochrome b6/f > Pair of high-potential heme b and heme c > bH.c2-

Projects

+ Holzwarth_2006
+ Photosynthetic apparatus
+ Thylakoid membrane
+ Photosystem II
+ 'P680'
o P680
o P680+
+ 'Qa'
o Qa
o Qa-
+ 'PhD1'
o PhD1
o PhD1-
+ Core Antenna
o ac
o ac*
+ 'ChlD1'
o ChlD1
o ChlD1*
o ChlD1+
+ Laisk_2009
+ Ontology
+ Photosynthetic apparatus
+ Chloroplast stroma
o ADPGlu
o ATP
o E4P
o EOP
o EP
o EPG
o EPP
o ER
o F6P
o FBP
o G6P
o G1P
o NADPH
o OP
o Ru5P
o R5P
o Xu5P
o PGA
+ Ferredoxin
o Fd-
o RuBP
o S7P
o SBP
o GAP
o DHAP
o TRf_
o TRm_
+ Thylakoid membrane
o Cytochrome b6/f
+ Photosystem I
+ 'P700'
o P700
+ 'Fb'
o Fb-
+ Thylakiod lumen
+ Plastocyanin
o Pc
o Hlt
+ Cytosol
o DHAPc
o F26BPc
o F6Pc
o FBPc
o G1Pc
o G6Pc
o GAPc
o OXAc
o P2GAc
o PEPc
o PGAc
o PYRc
o SuPCc
o UDPGluc
+ Enzymes
o ENf_
o ENm_
o
+ Lazár_2009
+ Photosynthetic apparatus
+ Thylakoid membrane
+ Cytochrome b6/f
+ Heme f
o f
o f-
+ Pair of high-potential heme b and heme c
o bH.c-
o bH.c
o bH.c2-
+ Low-potential heme b
o bL-
o bL
+ Photosystem II
+ 'Qa'
o Qa-
o Qa
+ 'P680'
o P680+
o P680
+ 'Qb'
o Qb
o Qb-
o Qb2-
+ Oxygen Evolving Complex
o S0
o S1
o S2
o S3
+ Photosystem I
+ 'Fb'
o Fb
o Fb-
+ 'P700'
o P700+
o P700
+ PQ Pool
+ Plastoquinon
o PQ
o PQH
+ Chloroplast stroma
+ Ferredoxin
o Fd
o Fd-
+ FNR
o FNRa
o FNRa-
o FNRa2-
o FNRi
+ Thylakiod lumen
+ Plastocyanin
o Pc
o Pc+

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bH.c2-

Annotations
Components
Reactions
Parameters
Simulation
+species:doubly reduced state of the pair of haems
“Doubly reduced state of the pair of the high-potential form (it has a high midpoint redox potential) of haem b and of haem c (also known as haem x) of cytochrome b6/f. The haems are assumed to be in a kinetic equilibrium forming thus a two-electron acceptor. The two electrons from the doubly reduced pair are donated to oxidized plastoquinone molecule from the plastoquinone pool at the stromal side of thylakoid membrane thus participating in/allowing the Q-cycle (also semi Q-cycle exists) of cytochrome b6/f.”

bH.c2-
Model states corresponding to the currently selected level:
+bL-/bH.c2-/f
Initial value: 0
Simulation type: reaction
+bL-/bH.c2-/f-
Initial value: 0
Simulation type: reaction
+bL/bH.c2-/f
Initial value: 0
Simulation type: reaction
+bL/bH.c2-/f-
Initial value: 0
Simulation type: reaction
+Electron transport from cytochrome b6/f complex to oxidized Pc (6)
“Reduced haem f (f-) of cytochrome b6/f donates its electron to oxidized Pc (Pc+). This reaction is considered reversible with forward and backward rate constants kfF and kbF, respectively.”


Function: Mass Action (reversible)
Reaction rate: kfF*bL-/bH.c2-/f- * Pc+-kbF*bL-/bH.c2-/f * Pc
Product: bL-/bH.c2-/f, Pc
Kinetic rate constant Value
+Electron transport from cytochrome b6/f complex to oxidized PQ (2)
“When the pair of the high-potential form of haem b and of haem c is doubly reduced ((bH.c)2-) it transports electron to oxidized PQ molecule form the pool (protonation is assumed implicitly). This reaction is considered reversible with forward and backward rate constants kfHC and kbHC, respectively.”


Function: Mass Action (reversible)
Reaction rate: "kf(HC)"*PQ * bL-/bH.c2-/f-"kb(HC)"*PQH * bL-/bH.c/f
Product: PQH, bL-/bH.c/f
Kinetic rate constant Value
+Electron transport from reduced Fd to cytochrome b6/f complex (6)
“Reduced Fd (Fd-) donates its electron to to oxidized or singly reduced state of the pair of the high-potential form of haem b and of haem c ((bH.c) or (bH.c)-, respectively) of cytochrome b6/f with the same forward rate constants kfct. Both these reactions are considered reversible with the same backward rate constants kbct.”


Function: Mass Action (reversible)
Reaction rate: kfct*Fd- * bL-/bH.c-/f-kbct*Fd * bL-/bH.c2-/f
Product: Fd, bL-/bH.c2-/f
Kinetic rate constant Value
+Electron transport from cytochrome b6/f complex to oxidized PQ (4)
“When the pair of the high-potential form of haem b and of haem c is doubly reduced ((bH.c)2-) it transports electron to oxidized PQ molecule form the pool (protonation is assumed implicitly). This reaction is considered reversible with forward and backward rate constants kfHC and kbHC, respectively.”


Function: Mass Action (reversible)
Reaction rate: "kf(HC)"*PQ * bL-/bH.c2-/f--"kb(HC)"*PQH * bL-/bH.c/f-
Product: PQH, bL-/bH.c/f-
Kinetic rate constant Value
+Electron transport from reduced Fd to cytochrome b6/f complex (8)
“Reduced Fd (Fd-) donates its electron to to oxidized or singly reduced state of the pair of the high-potential form of haem b and of haem c ((bH.c) or (bH.c)-, respectively) of cytochrome b6/f with the same forward rate constants kfct. Both these reactions are considered reversible with the same backward rate constants kbct.”


Function: Mass Action (reversible)
Reaction rate: kfct*Fd- * bL-/bH.c-/f--kbct*Fd * bL-/bH.c2-/f-
Product: Fd, bL-/bH.c2-/f-
Kinetic rate constant Value
+Electron transport from reduced PQ to cytochrome b6/f complex (3)
“When both haem f (f) and low-potential form of haem b (bL) of cytochrome b6/f are oxidized, they are reduced by reduced and protonated PQ molecule (PQH) from the pool: PQH is oxidized (its deprotonation is assumed implicitely) in lumenal side of cytochrome b6/f leading to transport of one electron to bL and one electron to f. This reaction is considered reversible with forward and backward rate constants kfLF and kbLF respectively.”


Function: Mass Action (reversible)
Reaction rate: "kfL,F"*PQH * bL/bH.c2-/f-"kbL,F"*PQ * bL-/bH.c2-/f-
Product: PQ, bL-/bH.c2-/f-
Kinetic rate constant Value
+Electron transport from cytochrome b6/f complex to oxidized Pc (5)
“Reduced haem f (f-) of cytochrome b6/f donates its electron to oxidized Pc (Pc+). This reaction is considered reversible with forward and backward rate constants kfF and kbF, respectively.”


Function: Mass Action (reversible)
Reaction rate: kfF*bL/bH.c2-/f- * Pc+-kbF*bL/bH.c2-/f * Pc
Product: bL/bH.c2-/f, Pc
Kinetic rate constant Value
+Electron transport from cytochrome b6/f complex to oxidized PQ (1)
“When the pair of the high-potential form of haem b and of haem c is doubly reduced ((bH.c)2-) it transports electron to oxidized PQ molecule form the pool (protonation is assumed implicitly). This reaction is considered reversible with forward and backward rate constants kfHC and kbHC, respectively.”


Function: Mass Action (reversible)
Reaction rate: "kf(HC)"*PQ * bL/bH.c2-/f-"kb(HC)"*bL/bH.c/f * PQH
Product: bL/bH.c/f, PQH
Kinetic rate constant Value
+Electron transport from reduced Fd to cytochrome b6/f complex (5)
“Reduced Fd (Fd-) donates its electron to to oxidized or singly reduced state of the pair of the high-potential form of haem b and of haem c ((bH.c) or (bH.c)-, respectively) of cytochrome b6/f with the same forward rate constants kfct. Both these reactions are considered reversible with the same backward rate constants kbct.”


Function: Mass Action (reversible)
Reaction rate: kfct*Fd- * bL/bH.c-/f-kbct*Fd * bL/bH.c2-/f
Product: Fd, bL/bH.c2-/f
Kinetic rate constant Value
+Electron transport inside cytochrome b6/f complex (3)
“It occurs from reduced state of low-potential form of haem b (bL-) to oxidized or singly reduced state of the pair of the high-potential form of haem b and of haem c ((bH.c) or (bH.c)-, respectively) with the same forward rate constants kLHC. Both these reactions aree considered reversible with the same backward rate constants kHCL.”


Function: Mass Action (reversible)
Reaction rate: "kL(HC)"*bL-/bH.c-/f-"k(HC)L"*bL/bH.c2-/f
Product: bL/bH.c2-/f
Kinetic rate constant Value
+Electron transport from cytochrome b6/f complex to oxidized PQ (3)
“When the pair of the high-potential form of haem b and of haem c is doubly reduced ((bH.c)2-) it transports electron to oxidized PQ molecule form the pool (protonation is assumed implicitly). This reaction is considered reversible with forward and backward rate constants kfHC and kbHC, respectively.”


Function: Mass Action (reversible)
Reaction rate: "kf(HC)"*PQ * bL/bH.c2-/f--"kb(HC)"*PQH * bL/bH.c/f-
Product: PQH, bL/bH.c/f-
Kinetic rate constant Value
+Electron transport from reduced Fd to cytochrome b6/f complex (7)
“Reduced Fd (Fd-) donates its electron to to oxidized or singly reduced state of the pair of the high-potential form of haem b and of haem c ((bH.c) or (bH.c)-, respectively) of cytochrome b6/f with the same forward rate constants kfct. Both these reactions are considered reversible with the same backward rate constants kbct.”


Function: Mass Action (reversible)
Reaction rate: kfct*Fd- * bL/bH.c-/f--kbct*Fd * bL/bH.c2-/f-
Product: Fd, bL/bH.c2-/f-
Kinetic rate constant Value
+Electron transport inside cytochrome b6/f complex (4)
“It occurs from reduced state of low-potential form of haem b (bL-) to oxidized or singly reduced state of the pair of the high-potential form of haem b and of haem c ((bH.c) or (bH.c)-, respectively) with the same forward rate constants kLHC. Both these reactions aree considered reversible with the same backward rate constants kHCL.”


Function: Mass Action (reversible)
Reaction rate: "kL(HC)"*bL-/bH.c-/f--"k(HC)L"*bL/bH.c2-/f-
Product: bL/bH.c2-/f-
Kinetic rate constant Value

Constant quantities

+k(HC)L
Initial value: 7
Simulation type: fixed
+k01
Initial value: 20000
Simulation type: fixed
+k12
Initial value: 10000
Simulation type: fixed
+k23
Initial value: 3330
Simulation type: fixed
+k30
Initial value: 1000
Simulation type: fixed
+ka
Initial value: 0.01
Simulation type: fixed
+kAB1
Initial value: 3500
Simulation type: fixed
+kAB2
Initial value: 1750
Simulation type: fixed
+kb(HC)
Initial value: 10
Simulation type: fixed
+kBA1
Initial value: 175
Simulation type: fixed
+kBA2
Initial value: 35
Simulation type: fixed
+kbB
Initial value: 250
Simulation type: fixed
+kbct
Initial value: 100
Simulation type: fixed
+kbF
Initial value: 10
Simulation type: fixed
+kbFd
Initial value: 5
Simulation type: fixed
+kbL,F
Initial value: 10
Simulation type: fixed
+kbR
Initial value: 10
Simulation type: fixed
+kbX
Initial value: 10
Simulation type: fixed
+kf(HC)
Initial value: 100
Simulation type: fixed
+kfB
Initial value: 250
Simulation type: fixed
+kfct
Initial value: 100
Simulation type: fixed
+kfF
Initial value: 100
Simulation type: fixed
+kfFd
Initial value: 5
Simulation type: fixed
+kfL,F
Initial value: 100
Simulation type: fixed
+kFNR
Initial value: 220
Simulation type: fixed
+kfR
Initial value: 100
Simulation type: fixed
+kfX
Initial value: 100
Simulation type: fixed
+kL(HC)
Initial value: 2300
Simulation type: fixed
+kL1
Initial value: 200
Simulation type: fixed
+kL2
Initial value: 4000
Simulation type: fixed

Assigned quantities

+Fq(t)
Initial expression: ((1-0.55)*("P680+/Qa-/Qb"+"P680+/Qa-/Qb-"+"P680+/Qa-/Qb2-"+"P680/Qa-/Qb2-"+"P680/Qa-/Qb"+"P680/Qa-/Qb-")/(1-0.55*("P680+/Qa-/Qb"+"P680+/Qa-/Qb-"+"P680+/Qa-/Qb2-"+"P680/Qa-/Qb2-"+"P680/Qa-/Qb"+"P680/Qa-/Qb-")))/(1+((1/45+(("P680+/Qa-/Qb"+"P680+/Qa-/Qb-"+"P680+/Qa-/Qb2-"+"P680/Qa-/Qb2-"+"P680/Qa-/Qb"+"P680/Qa-/Qb-")*4/63))*"PQ"))
Simulation type: assignment
+Funq(t)
Initial expression: (1-0.55)*("P680+/Qa-/Qb"+"P680+/Qa-/Qb-"+"P680+/Qa-/Qb2-"+"P680/Qa-/Qb2-"+"P680/Qa-/Qb"+"P680/Qa-/Qb-")/(1-0.55*("P680+/Qa-/Qb"+"P680+/Qa-/Qb-"+"P680+/Qa-/Qb2-"+"P680/Qa-/Qb2-"+"P680/Qa-/Qb"+"P680/Qa-/Qb-"))
Simulation type: assignment
+I820
Initial expression: 10^(-(2.16*10^(-7)*1590*"Pc+" + 2.16*10^(-7)*10300*("P700+/Fb"+"P700+/Fb-")))
Simulation type: assignment
+Initial conditions
Name Value
bL-/bH.c-/f 0
bL-/bH.c-/f- 0
bL-/bH.c/f 0
bL-/bH.c/f- 0
bL-/bH.c2-/f 0
bL-/bH.c2-/f- 0
bL/bH.c-/f 0
bL/bH.c-/f- 0
bL/bH.c/f 1
bL/bH.c/f- 0
bL/bH.c2-/f 0
bL/bH.c2-/f- 0
Fd 3
Fd- 0
FNRa 0
FNRa- 0
FNRa2- 0
FNRi 3
P680+/Qa-/N 0
P680+/Qa-/Qb 0
P680+/Qa-/Qb- 0
P680+/Qa-/Qb2- 0
P680+/Qa/Qb 0
P680+/Qa/Qb- 0
P680+/Qa/Qb2- 0
P680/Qa-/N 0
P680/Qa-/Qb 0
P680/Qa-/Qb- 0
P680/Qa-/Qb2- 0
P680/Qa/N 0
P680/Qa/Qb 1
P680/Qa/Qb- 0
P680/Qa/Qb2- 0
P700+/Fb 0
P700+/Fb- 0
P700/Fb 1
P700/Fb- 0
Pc 3
Pc+ 0
PQ 2.5
PQH 2.5
S0 0.25
S1 0.75
S2 0
S3 0
+Parameters

Constant quantities

Name Value
k(HC)L 7
k01 20000
k12 10000
k23 3330
k30 1000
ka 0.01
kAB1 3500
kAB2 1750
kb(HC) 10
kBA1 175
kBA2 35
kbB 250
kbct 100
kbF 10
kbFd 5
kbL,F 10
kbR 10
kbX 10
kf(HC) 100
kfB 250
kfct 100
kfF 100
kfFd 5
kfL,F 100
kFNR 220
kfR 100
kfX 100
kL(HC) 2300
kL1 200
kL2 4000

Assigned quantities

Name Value
Fq(t)
Funq(t)
I820
+Options
Name Value
Simulation end 1
Use log time scale 1
Multiplication of time scale 1
Simulation start 0.000001
Number of steps 200
Simulation tolerance 0.01
Label x-axis time [s]

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