Effect of voltage sensitive fluorescent proteins on neuronal excitability (Akemann et al. 2009)

 Download zip file   Auto-launch 
Help downloading and running models
Accession:123453
"Fluorescent protein voltage sensors are recombinant proteins that are designed as genetically encoded cellular probes of membrane potential using mechanisms of voltage-dependent modulation of fluorescence. Several such proteins, including VSFP2.3 and VSFP3.1, were recently reported with reliable function in mammalian cells. ... Expression of these proteins in cell membranes is accompanied by additional dynamic membrane capacitance, ... We used recordings of sensing currents and fluorescence responses of VSFP2.3 and of VSFP3.1 to derive kinetic models of the voltage-dependent signaling of these proteins. Using computational neuron simulations, we quantitatively investigated the perturbing effects of sensing capacitance on the input/output relationship in two central neuron models, a cerebellar Purkinje and a layer 5 pyramidal neuron. ... ". The Purkinje cell model is included in ModelDB.
Reference:
1 . Akemann W, Lundby A, Mutoh H, Knöpfel T (2009) Effect of voltage sensitive fluorescent proteins on neuronal excitability. Biophys J 96:3959-76 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell;
Brain Region(s)/Organism: Cerebellum;
Cell Type(s): Cerebellum Purkinje GABA cell;
Channel(s): I Na,t; I A; I K; I h; I K,Ca; I Calcium;
Gap Junctions:
Receptor(s):
Gene(s): Kv1.1 KCNA1; Kv4.3 KCND3; Kv3.3 KCNC3; Kv3.4 KCNC4; HCN1;
Transmitter(s):
Simulation Environment: NEURON;
Model Concept(s):
Implementer(s): Akemann, Walther [akemann at brain.riken.jp];
Search NeuronDB for information about:  Cerebellum Purkinje GABA cell; I Na,t; I A; I K; I h; I K,Ca; I Calcium;
TITLE Voltage sensor protein VSFP3.1

COMMENT
Model calculates the displacement current and fluorescence response produced by the voltage-sensing domain in VSFP3.1
Kinetic parameters from least-square fits to experimental data provided by Alica Lundby of VSFP3.1 expressed in PC12 cells

Version 2.0

KINETIC SCHEME: 
8-state-Markov-Process

Sensor states: closed = S1n, S2n; open = S1p, S2p
Reporter: off = Rn; on = Rp

Reference: Akemann et al. Biophys. J. (2009) 96: 3959-3976

Laboratory for Neuronal Circuit Dynamics
RIKEN Brain Science Institute, Wako City, Japan
http://www.neurodynamics.brain.riken.jp

Date of Implementation: December 2008
Contact: akemann@brain.riken.jp

ENDCOMMENT

NEURON {
	SUFFIX VSFP31M3
	NONSPECIFIC_CURRENT i
	GLOBAL S1ONzero, S1OFFzero, S2niONzero, S2niOFFzero, S2ipONzero, S2ipONzero, S12pONzero, S12pOFFzero, S12nONzero, S12nOFFzero
	GLOBAL R1nONzero, R1nOFFzero, R1pONzero, R1pOFFzero, R2pONzero, R2pOFFzero, R2nONzero, R2nOFFzero
	GLOBAL zGateS1, zGateS2, zGateS12p, zGateS12n
	GLOBAL deltaGateS1, deltaGateS2ni, deltaGateS2i, deltaGateS2ip, deltaGateS12p, deltaGateS12n
	GLOBAL deltaF, Fhalf
	GLOBAL baseline
	RANGE nc
	RANGE fluoSignal
	RANGE fluoActivation
}

UNITS {
	(mV) = (millivolt)
	(mA) = (milliamp)
	(nA) = (nanoamp)
	(pA) = (picoamp)
	(S)  = (siemens)
	(mS) = (millisiemens)
	(nS) = (nanosiemens)
	(pS) = (picosiemens)
	(um) = (micron)
	(molar) = (1/liter)
	(mM) = (millimolar)		
}

CONSTANT {
	e0 = 1.60217646e-19 (coulombs)
	kB = 1.3806505e-23 (joule/kelvin) 
	q10Gate = 1.43 (1)			: q10 = 0.9 (70 mV); 0.6 (-30 mV)  ON
	q10Fluo = 1.67 (1) 				
	tempGate = 25 (degC)
	tempFluo = 25 (degC)
}

PARAMETER {
	baseline = 1 (1)	: 0 = fluorescence baseline set to 0; 

	nc = 0 (1/cm2)
	
	S1ONzero = 0.48 (1/ms)
	S1OFFzero = 0.074 (1/ms)

	S2niONzero = 0.4 (1/ms)
	S2niOFFzero = 0.38 (1/ms)

	S2ipONzero = 2 (1/ms)
	S2ipOFFzero = 0.1 (1/ms)

	S12pONzero = 0.014 (1/ms)
	S12pOFFzero = 0.0066 (1/ms)

	S12nONzero = 1e-9 (1/ms)
	S12nOFFzero = 0.002 (1/ms)

	zGateS1 = 1.2 (1)
	zGateS2 = 1.2 (1)
	zGateS12p = 0.3 (1)
	zGateS12n = 0.3 (1)
	
	deltaGateS1 = 0.35 (1)		: location of the S1 transition state (between 0 = internal side to 1 = external side)
	deltaGateS2i = 0.2 (1)		: location of the transition state of the intermediate state (Si) in S2
	deltaGateS2ni = 0.15 (1)	: location of the transition state in the reaction of S2n to S2i
	deltaGateS2ip = 0.3 (1)		: location of the transition state in the reaction of S2i to S2p
	deltaGateS12p = 0.4 (1)		: location of the transition state in the reaction of S1p to S2p
	deltaGateS12n = 0.2 (1)		: location of the transition state in the reaction of S1n to S2n

	R1nONzero = 1e-12 (1/ms)
	R1nOFFzero = 2 (1/ms)
	
	R1pONzero = 1 (1/ms)
	R1pOFFzero = 0.7 (1/ms)

	R2pONzero = 2 (1/ms)
	R2pOFFzero = 1e-12 (1/ms)
	
	R2nONzero = 1e-9 (1/ms)
	R2nOFFzero = 0.028 (1/ms)

	deltaF = -0.0105 (1)			: maximum fluoresence modulation
	Fhalf = 1 (1)				: fluorescence ratio at vhalf
}

ASSIGNED {
	celsius (degC)
	v (mV)
	
	i (mA/cm2)
	
	S1ON (1/ms)
	S1OFF (1/ms)

	S2niON (1/ms)
	S2niOFF (1/ms)
	S2ipON (1/ms)
	S2ipOFF (1/ms)

	S12pON (1/ms)
	S12pOFF (1/ms)

	S12nON (1/ms)
	S12nOFF (1/ms)

	R1nON (1/ms)
	R1nOFF (1/ms)
	
	R1pON (1/ms)
	R1pOFF (1/ms)

	R2pON (1/ms)
	R2pOFF (1/ms)

	R2nON (1/ms)
	R2nOFF (1/ms)

	qtGate (1)
	qtFluo (1)

	fluoSignal (1)				: Fluorescence response
	fluoActivation (1)	
	fluoInit (1)
}

STATE {
	S1nRn FROM 0 TO 1
	S1pRn FROM 0 TO 1
	S2pRn FROM 0 TO 1
	S2nRn FROM 0 TO 1
	S2iRn FROM 0 TO 1	

	S1nRp FROM 0 TO 1
	S1pRp FROM 0 TO 1
	S2pRp FROM 0 TO 1
	S2nRp FROM 0 TO 1
	S2iRp FROM 0 TO 1
}

INITIAL {
	qtGate = q10Gate^((celsius-tempGate)/10 (degC))
	qtFluo = q10Fluo^((celsius-tempFluo)/10 (degC))

	if ( deltaGateS2ni > deltaGateS2i ) { deltaGateS2ni = deltaGateS2i }
	if ( deltaGateS2ip < deltaGateS2i ) { deltaGateS2ip = deltaGateS2i }

	rateConst(v)
	SOLVE reaction STEADYSTATE sparse

	if ( baseline == 0 ) {
		fluoInit = Fhalf + deltaF * ( S1nRp + S1pRp + S2pRp + S2nRp + S2iRp - 0.5 )
		} else {
		fluoInit = 0
		}
}

BREAKPOINT {
	SOLVE reaction METHOD sparse
	i = nc * (1e6) * e0 * ( zGateS1 * gate1Flip() + zGateS2 * gate2Flip() + zGateS12p * gate12pFlip() + zGateS12n * gate12nFlip() )
 	
	fluoActivation = S1nRp + S1pRp + S2pRp + S2nRp + S2iRp 
	fluoSignal = Fhalf + deltaF * ( S1nRp + S1pRp + S2pRp + S2nRp + S2iRp - 0.5 ) - fluoInit
}

KINETIC reaction {
	rateConst(v)
	~ S1nRn <-> S1pRn		(S1ON, S1OFF)
	~ S2nRn <-> S2iRn		(S2niON, S2niOFF)
	~ S2iRn <-> S2pRn		(S2ipON, S2ipOFF)

	~ S1pRn <-> S2pRn		(S12pON, S12pOFF)
	~ S1nRn <-> S2nRn		(S12nON, S12nOFF)

	~ S1nRp <-> S1pRp		(S1ON, S1OFF)
	~ S2nRp <-> S2iRp		(S2niON, S2niOFF)
	~ S2iRp <-> S2pRp		(S2ipON, S2ipOFF)

	~ S1pRp <-> S2pRp		(S12pON, S12pOFF)
	~ S1nRp <-> S2nRp		(S12nON, S12nOFF)

	~ S1nRn <-> S1nRp		(R1nON, R1nOFF)
 	~ S1pRn <-> S1pRp		(R1pON, R1pOFF)
	~ S2pRn <-> S2pRp		(R2pON, R2pOFF)
	~ S2nRn <-> S2nRp		(R2nON, R2nOFF)


CONSERVE S1nRn + S1pRn + S2pRn + S2nRn + S2iRn + S1nRp + S1pRp + S2pRp + S2nRp + S2iRp = 1
}

PROCEDURE rateConst( v(mV) ) {
	
	S1ON = qtGate * S1ONzero * exp( zGateS1 * e0 * deltaGateS1 * v / ( (1000) * kB * celsiusTOkelvin( celsius ) ) )
	S1OFF = qtGate * S1OFFzero * exp( -zGateS1 * e0 * (1-deltaGateS1) * v / ( (1000) * kB * celsiusTOkelvin( celsius ) ) )
	
	S2niON = qtGate * S2niONzero * exp( zGateS2 * e0 * deltaGateS2ni * v / ( (1000) * kB * celsiusTOkelvin( celsius ) ) )
	S2niOFF = qtGate * S2niOFFzero * exp( -zGateS2 * e0 * (deltaGateS2i-deltaGateS2ni) * v / ( (1000) * kB * celsiusTOkelvin( celsius ) ) )

	S2ipON = qtGate * S2ipONzero * exp( zGateS2 * e0 * (deltaGateS2ip-deltaGateS2i) * v / ( (1000) * kB * celsiusTOkelvin( celsius ) ) )
	S2ipOFF = qtGate * S2ipOFFzero * exp( -zGateS2 * e0 * (1-deltaGateS2ip) * v / ( (1000) * kB * celsiusTOkelvin( celsius ) ) )

	S12pON = qtGate * S12pONzero * exp( zGateS12p * e0 * deltaGateS12p * v / ( (1000) * kB * celsiusTOkelvin( celsius ) ) )
	S12pOFF = qtGate * S12pOFFzero * exp( -zGateS12p * e0 * (1-deltaGateS12p) * v / ( (1000) * kB * celsiusTOkelvin( celsius ) ) )

	S12nON = qtGate * S12nONzero * exp( zGateS12n * e0 * deltaGateS12n * v / ( (1000) * kB * celsiusTOkelvin( celsius ) ) )
	S12nOFF = qtGate * S12nOFFzero * exp( -zGateS12n * e0 * (1-deltaGateS12n) * v / ( (1000) * kB * celsiusTOkelvin( celsius ) ) )

	R1nON = qtFluo * R1nONzero
	R1nOFF = qtFluo * R1nOFFzero

	R1pON = qtFluo * R1pONzero
	R1pOFF = qtFluo * R1pOFFzero

	R2pON = qtFluo * R2pONzero
	R2pOFF = qtFluo * R2pOFFzero

	R2nON = qtFluo * R2nONzero
	R2nOFF = qtFluo * R2nOFFzero
}		

FUNCTION gate1Flip() (1/ms) {
	gate1Flip = S1ON * ( S1nRn + S1nRp ) - S1OFF * ( S1pRn + S1pRp )
}

FUNCTION gate2Flip() (1/ms) {
	gate2Flip = deltaGateS2i * ( S2niON * ( S2nRn + S2nRp ) - S2niOFF * ( S2iRn + S2iRp ) ) + (1-deltaGateS2i) * ( S2ipON * ( S2iRn + S2iRp ) - S2ipOFF * ( S2pRn +S2pRp ) )
}

FUNCTION gate12pFlip() (1/ms) {
	gate12pFlip = S12pON * ( S1pRn + S1pRp ) - S12pOFF * ( S2pRn + S2pRp )
}

FUNCTION gate12nFlip() (1/ms) {
	gate12nFlip = S12nON * ( S1nRn + S1nRp ) - S12nOFF * ( S2nRn + S2nRp )
}

FUNCTION celsiusTOkelvin ( c (degC) ) (kelvin) {
UNITSOFF
	celsiusTOkelvin = 273.15 + c
UNITSON
}


Loading data, please wait...