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Molecule Parameter List for Rap1GDP

The statistics table lists the distribution of a molecule acting either as a substrate, product, enzyme or as a molecule within the network.
The text color of a molecule is highlighted by

color.

Statistics

*Rap1GDP* participated as	Molecule	Sum total of	Enzyme	Substrate of an enzyme	Product of an enzyme	Substrate in Reaction	Product in Reaction
No. of occurrences	1	0	0	1	2	0	1

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
mRNA synthesis	94	Network	kinetics, compartment_1, compartment_2
The model consists of three major pathways: Calcium-calmodulin dependent protein kinase IV (CaMKIV), Mitogen-activated protein kinase (MAPK) and Protein Phosphatase 1 (PP1). Each of these converged on CREB activation. We also modeled further interactions with Transducer of regulated CREB activity 1 (TORC1) and the protein kinase A (PKA) pathway.

Rap1GDP acting as a Molecule in mRNA synthesis Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
Rap1GDP	mRNA synthesis Accession No. : 94	kinetics Pathway No. : 1112	0.2	1000	No

Rap1GDP acting as a Substrate for an Enzyme in mRNA synthesis Network

Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
CRK_C3G_Cbl_ star_clx / RAP_GEF	mRNA synthesis Accession No. : 94	kinetics Pathway No. : 1112	0.01	0.2	4	explicit E-S complex	Substrate Rap1GDP Product Rap1GTP

Rap1GDP acting as a Product of an Enzyme in mRNA synthesis Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	Rap1GAP / RapGAP2	mRNA synthesis Accession No. : 94	kinetics Pathway No. : 1112	1	2	100	explicit E-S complex	Substrate bRaf_Rap1GTP Product Rap1GDP bRaf

2	Rap1GAP / RapGAP1	mRNA synthesis Accession No. : 94	kinetics Pathway No. : 1112	1	2	100	explicit E-S complex	Substrate Rap1GTP Product Rap1GDP

Rap1GDP acting as a Product in a reaction in mRNA synthesis Network

Kd is calculated only for second order reactions, like nA+nB <->nC or nA<->nC+nD, where n is number and A,B,C,D are molecules, where as for first order reactions Keq is calculated. Kd for higher order reaction are not consider.

Name	Accession Name	Pathway Name	Kf	Kb	Kd	tau	Reagents
intrinsic_ GTPase	mRNA synthesis Accession No. : 94	kinetics Pathway No. : 1112	0.0001 (s^-1)	0 (s^-1)	-	-	Substrate Rap1GTP Product Rap1GDP

Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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