Table 1. Rate constant definitions for... | Rockefeller University Press

Table 1.

Rate constant definitions for the free-exchange model simulations

Parameter (unit)	Transition	Side of membrane	Process	Physiological value/range
k1 (M⁻¹ s⁻¹)	Eext → EHext	External	Proton-on^a	1 × 10¹⁰
k2 (s⁻¹)	Eext ← EHext	External	Proton-off	1–1,000,000
k3 (M⁻¹ s⁻¹)	Eint → EHint	Internal	Proton-on^a	1 × 10¹⁰
k4 (s⁻¹)	Eint ← EHint	Internal	Proton-off	1–1,000,000
k5 (M⁻¹ s⁻¹)	EDext → EHDext	External	Proton-on^a	1 × 10¹⁰
k6 (s⁻¹)	EDext ← EHDext	External	Proton-off	1–1,000,000
k7 (M⁻¹ s⁻¹)	EDint → EHDint	Internal	Proton-on^a	1 × 10¹⁰
k8 (s⁻¹)	EDint ← EHDint	Internal	Proton-off	0.01–10,000
k9 (M⁻¹ s⁻¹)	Eext → EDext	External	Drug-on^b	1 × 10⁷
k10 (s⁻¹)	Eext ← EDext	External	Drug-off	0.01–10,000
k11 (M⁻¹ s⁻¹)	Eint → EDint	Internal	Drug-on^b	1 × 10⁷
k12 (s⁻¹)	Eint ← EDint	Internal	Drug-off	0.01–10,000
k13 (M⁻¹ s⁻¹)	EHext → EHDext	External	Drug-on^b	1 × 10⁷
k14 (s⁻¹)	EHext ← EHDext	External	Drug-off	0.01–10,000
k15 (M⁻¹ s⁻¹)	EHint → EHDint	Internal	Drug-on^b	1 × 10⁷
k16 (s⁻¹)	EHint ← EHDint	Internal	Drug-off	0.01–10,000
k17 (s⁻¹)	EHint → EHext		Alternating access	1–100
k18 (s⁻¹)	EHint ← EHext		Alternating access	1–100
k19 (s⁻¹)	Eint → Eext		Alternating access	1–100
k20 (s⁻¹)	Eint ← Eext		Alternating access	1–100
k21 (s⁻¹)	EDint → EDext		Alternating access	1–100
k22 (s⁻¹)	EDint ← EDext		Alternating access	1–100
k23 (s⁻¹)	EHDint → EHDext		Alternating access	1–100
k24 (s⁻¹)^c	EHDint ← EHDext		Alternating access	1–100
k25 (s⁻¹)^c	EHHint → EHHext		Alternating access	1–100
k26 (s⁻¹)^c	EHHint ← EHHext		Alternating access	1–100
k27 (M⁻¹ s⁻¹)^c	EHext → EHHext	External	Proton-on^a	1 × 10¹⁰
k28 (s⁻¹)^c	EHext ← EHHext	External	Proton-off	1–1,000,000
k29 (M⁻¹ s⁻¹)^c	EHint → EHHint	Internal	Proton-on^a	1 × 10¹⁰
k30 (s⁻¹)^c	EHint ← EHHint	Internal	Proton-off	1–1,000,000

Parameter (unit)	Transition	Side of membrane	Process	Physiological value/range
k1 (M⁻¹ s⁻¹)	Eext → EHext	External	Proton-on^a	1 × 10¹⁰
k2 (s⁻¹)	Eext ← EHext	External	Proton-off	1–1,000,000
k3 (M⁻¹ s⁻¹)	Eint → EHint	Internal	Proton-on^a	1 × 10¹⁰
k4 (s⁻¹)	Eint ← EHint	Internal	Proton-off	1–1,000,000
k5 (M⁻¹ s⁻¹)	EDext → EHDext	External	Proton-on^a	1 × 10¹⁰
k6 (s⁻¹)	EDext ← EHDext	External	Proton-off	1–1,000,000
k7 (M⁻¹ s⁻¹)	EDint → EHDint	Internal	Proton-on^a	1 × 10¹⁰
k8 (s⁻¹)	EDint ← EHDint	Internal	Proton-off	0.01–10,000
k9 (M⁻¹ s⁻¹)	Eext → EDext	External	Drug-on^b	1 × 10⁷
k10 (s⁻¹)	Eext ← EDext	External	Drug-off	0.01–10,000
k11 (M⁻¹ s⁻¹)	Eint → EDint	Internal	Drug-on^b	1 × 10⁷
k12 (s⁻¹)	Eint ← EDint	Internal	Drug-off	0.01–10,000
k13 (M⁻¹ s⁻¹)	EHext → EHDext	External	Drug-on^b	1 × 10⁷
k14 (s⁻¹)	EHext ← EHDext	External	Drug-off	0.01–10,000
k15 (M⁻¹ s⁻¹)	EHint → EHDint	Internal	Drug-on^b	1 × 10⁷
k16 (s⁻¹)	EHint ← EHDint	Internal	Drug-off	0.01–10,000
k17 (s⁻¹)	EHint → EHext		Alternating access	1–100
k18 (s⁻¹)	EHint ← EHext		Alternating access	1–100
k19 (s⁻¹)	Eint → Eext		Alternating access	1–100
k20 (s⁻¹)	Eint ← Eext		Alternating access	1–100
k21 (s⁻¹)	EDint → EDext		Alternating access	1–100
k22 (s⁻¹)	EDint ← EDext		Alternating access	1–100
k23 (s⁻¹)	EHDint → EHDext		Alternating access	1–100
k24 (s⁻¹)^c	EHDint ← EHDext		Alternating access	1–100
k25 (s⁻¹)^c	EHHint → EHHext		Alternating access	1–100
k26 (s⁻¹)^c	EHHint ← EHHext		Alternating access	1–100
k27 (M⁻¹ s⁻¹)^c	EHext → EHHext	External	Proton-on^a	1 × 10¹⁰
k28 (s⁻¹)^c	EHext ← EHHext	External	Proton-off	1–1,000,000
k29 (M⁻¹ s⁻¹)^c	EHint → EHHint	Internal	Proton-on^a	1 × 10¹⁰
k30 (s⁻¹)^c	EHint ← EHHint	Internal	Proton-off	1–1,000,000

Proton on-rates are assumed to be diffusion-limited and constant as observed for EmrE (Adam et al., 2007).

Drug on-rates are assumed to be diffusion-limited and slower than proton on-rates as observed for EmrE (Robinson et al., 2017; Adam et al., 2007).

Only used in 10-state model.

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