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PMID: 15802263,12796777,12871942
The real ligand of Nod1 was characterized as
PGN fragments that contain the dipeptide, D-gamma-glutamyl-meso-
DAP (iE-DAP), which can either be generated by degradation of
PGN or secreted by bacteria during replication</csml:comment>
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PMID: 15802263,12796777,12871942
The real ligand of Nod1 was characterized as
PGN fragments that contain the dipeptide, D-gamma-glutamyl-meso-
DAP (iE-DAP), which can either be generated by degradation of
PGN or secreted by bacteria during replication

</csml:comment>
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PMID: 15802263,10880512
Nod1 activates NF-KappaB through recruitment and oligomerization
of RICK (also called RIP2 or CARDIAK), which results in the
activation of the IKK complex

PMID: 15802263
Stimulation of cells with iE-DAP causes the oligomerization of Nod1
and recruitment of the protein kinase RICK.</csml:comment>
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PMID: 15802263
Stimulation of cells with iE-DAP causes the oligomerization of Nod1
and recruitment of the protein kinase RICK.

PMID: 15802263,10880512
Nod1 activates NF-KappaB through recruitment and oligomerization
of RICK (also called RIP2 or CARDIAK), which results in the
activation of the IKK complex

</csml:comment>
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indirect</csml:comment>
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PMID: 15802263,10880512
Nod1 activates NF-KappaB through recruitment and oligomerization
of RICK (also called RIP2 or CARDIAK), which results in the
activation of the IKK complex

</csml:comment>
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indirect</csml:comment>
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PMID: 15802263
RICK activates the IKK complex,
which then phosphorylates (P) IKappaBalpha, signaling its degradation by the
proteasome.</csml:comment>
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PMID: 15802263
RICK activates the IKK complex,
which then phosphorylates (P) IKappaBalpha, signaling its degradation by the
proteasome.</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
pathways JNK, Erk, and p38 that result in the activation of specific transcription
factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
pathways JNK, Erk, and p38 that result in the activation of specific transcription
factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
pathways JNK, Erk, and p38 that result in the activation of specific transcription
factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
pathways JNK, Erk, and p38 that result in the activation of specific transcription
factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
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factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
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factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
pathways JNK, Erk, and p38 that result in the activation of specific transcription
factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
pathways JNK, Erk, and p38 that result in the activation of specific transcription
factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
pathways JNK, Erk, and p38 that result in the activation of specific transcription
factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
pathways JNK, Erk, and p38 that result in the activation of specific transcription
factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
pathways JNK, Erk, and p38 that result in the activation of specific transcription
factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
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factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Nod1 and RICK also activate the MAPK-stimulated
pathways JNK, Erk, and p38 that result in the activation of specific transcription
factors, such as AP-1, SRF, and CREB</csml:comment>
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PMID: 15802263
Figure2

PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Figure2

PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Figure2

PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Figure2

PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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<csml:comment type="text">

PMID: 15802263
Figure2

PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Figure2

PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Figure2

PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
</csml:comment>
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PMID: 15802263
Figure2

PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Figure2

PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Figure2

PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

</csml:comment>
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
Once released from its inhibitor IKappaBalpha, the transcription factor
NF-KappaB translocates to the nucleus and initiates the transcription of proinflammatory
genes.

PMID: 15802263
Figure2
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PMID: 15802263
The specific moiety of
PGN that stimulates Nod2 activity is MDP

PMID: 15802263,12871942,12514169,12791997
MDP is a
common component of almost all types of PGN, indicating that
Nod2 acts as a general sensor of PGN</csml:comment>
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<csml:comment type="text">PMID: 15802263,12791997
Once activated
by MDP, Nod2 activates downstream inflammatory signaling pathways
through RICK

PMID: 15802263
Nod2 is activated by MDP
stimulation of cells and, like Nod1, oligomerizes and recruits RICK, which
activates the IKK complex and stimulates NF-KappaB activation by ubiquitinylation
(Ub) of the IKKgamma subunit of the IKK complex.</csml:comment>
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<csml:comment type="text">PMID: 15802263
Nod2 is activated by MDP
stimulation of cells and, like Nod1, oligomerizes and recruits RICK, which
activates the IKK complex and stimulates NF-KappaB activation by ubiquitinylation
(Ub) of the IKKgamma subunit of the IKK complex.</csml:comment>
</csml:comments>
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<csml:comment type="text">PMID: 15802263
Nod2 is activated by MDP
stimulation of cells and, like Nod1, oligomerizes and recruits RICK, which
activates the IKK complex and stimulates NF-KappaB activation by ubiquitinylation
(Ub) of the IKKgamma subunit of the IKK complex.</csml:comment>
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<csml:processKinetic calcStyle="csml-calcStyle:speed" fast="false" kineticStyle="csml-kineticStyle:mass">
<csml:parameter key="coefficient2" value="1.0"/>
<csml:parameter key="coefficient1" value="0.1"/>
</csml:processKinetic>
</csml:processSimulationProperty>
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<csml:comment type="text">PMID: 15802263
Nod2 is activated by MDP
stimulation of cells and, like Nod1, oligomerizes and recruits RICK, which
activates the IKK complex and stimulates NF-KappaB activation by ubiquitinylation
(Ub) of the IKKgamma subunit of the IKK complex.</csml:comment>
</csml:comments>
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<csml:comment type="text">indirect</csml:comment>
</csml:comments>
</csml:connector>
<csml:connector id="c181" name="c181" refID="MO000016894" type="cso30:c:InputProcess">
<csml:connectorSimulationProperty>
<csml:connectorFiring connectorFiringStyle="csml-connectorFiringStyle:threshold" value="0"/>
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<csml:connectorFiring connectorFiringStyle="csml-connectorFiringStyle:threshold" value="0"/>
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<csml:delay delayStyle="nodelay" value="0.0"/>
<csml:processKinetic calcStyle="csml-calcStyle:speed" fast="false" kineticStyle="csml-kineticStyle:mass">
<csml:parameter key="coefficient2" value="1.0"/>
<csml:parameter key="coefficient1" value="0.1"/>
</csml:processKinetic>
</csml:processSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="562.0" y="610.0"/>
<csml:shape shapeID="default" visible="true">
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<csml:toolSpecificGraphics/>
</csml:shape>
</csml:viewProperty>
<csml:biologicalProperty refBiologicalEventID="cso30:i:ME_UnknownActivation" refCellComponentID="cso30:i:CC_Cytosol"/>
<csml:comments>
<csml:comment type="text">PMID: 15802263
Nod2 also activates the
MAPK pathway upon stimulation.</csml:comment>
</csml:comments>
</csml:process>
<csml:process id="p80" name="p80" type="cso30:c:ProcessBiological">
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<csml:connectorSimulationProperty>
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<csml:connectorKinetic>
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</csml:connectorSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="734.0" y="357.0"/>
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<csml:firing firingOnce="false" firingStyle="csml-firingStyle:and" type="csml-variable:Boolean" value="true"/>
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<csml:processKinetic calcStyle="csml-calcStyle:speed" fast="false" kineticStyle="csml-kineticStyle:mass">
<csml:parameter key="coefficient2" value="1.0"/>
<csml:parameter key="coefficient1" value="0.1"/>
</csml:processKinetic>
</csml:processSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="762.0" y="406.0"/>
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<csml:biologicalProperty refBiologicalEventID="cso30:i:ME_Binding" refCellComponentID="cso30:i:CC_Cytosol"/>
<csml:comments>
<csml:comment type="text">PMID: 15802263
Activation of cryopyrin by its proposed
ligand, MDP, causes the formation of a complex composed of cryopyrin, ASC,
CARD8, and caspase-1, which activates the IKK complex and NF-KappaB signaling,
as well as induces maturation and secretion of pro-IL-1beta and pro-IL-18
through proteolytic cleavage by caspase-1.</csml:comment>
</csml:comments>
</csml:process>
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<csml:viewProperty>
<csml:position position="auto" positionID="default" x="614.0" y="1032.5894663844042"/>
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</csml:processKinetic>
</csml:processSimulationProperty>
<csml:viewProperty>
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<csml:comments>
<csml:comment type="text">PMID: 15802263,15163405
Cryopyrin is the
protein product of the gene CIAS1, which is mutated in several
hereditary fever syndromes and is expressed primarily in polymorphonuclear
cells and chondrocytes</csml:comment>
</csml:comments>
</csml:process>
<csml:process id="p82" name="p82" type="cso30:c:ProcessBiological">
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<csml:comments>
<csml:comment type="text">indirect</csml:comment>
</csml:comments>
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</csml:processKinetic>
</csml:processSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="586.0" y="766.0"/>
<csml:shape shapeID="default" visible="true">
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<csml:toolSpecificGraphics/>
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<csml:biologicalProperty refBiologicalEventID="cso30:i:ME_Translation" refCellComponentID="cso30:i:CC_Cytosol"/>
<csml:comments>
<csml:comment type="text">PMID: 15802263,15163405
Cryopyrin is the
protein product of the gene CIAS1, which is mutated in several
hereditary fever syndromes and is expressed primarily in polymorphonuclear
cells and chondrocytes</csml:comment>
</csml:comments>
</csml:process>
<csml:process id="p83" name="p80" type="cso30:c:ProcessBiological">
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</csml:connector>
<csml:connector id="c194" name="c194" refID="MO000016828" type="cso30:c:InputProcess">
<csml:connectorSimulationProperty>
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<csml:connectorKinetic>
<csml:parameter key="stoichiometry" value="1"/>
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</csml:connectorSimulationProperty>
<csml:viewProperty>
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Activation of cryopyrin by its proposed
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CARD8, and caspase-1, which activates the IKK complex and NF-KappaB signaling,
as well as induces maturation and secretion of pro-IL-1beta and pro-IL-18
through proteolytic cleavage by caspase-1.</csml:comment>
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Activation of cryopyrin by its proposed
ligand, MDP, causes the formation of a complex composed of cryopyrin, ASC,
CARD8, and caspase-1, which activates the IKK complex and NF-KappaB signaling,
as well as induces maturation and secretion of pro-IL-1beta and pro-IL-18
through proteolytic cleavage by caspase-1
 
PMID: 15802263
Figure 2
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Activation of cryopyrin by its proposed
ligand, MDP, causes the formation of a complex composed of cryopyrin, ASC,
CARD8, and caspase-1, which activates the IKK complex and NF-KappaB signaling,
as well as induces maturation and secretion of pro-IL-1beta and pro-IL-18
through proteolytic cleavage by caspase-1
</csml:comment>
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Activation of cryopyrin by its proposed
ligand, MDP, causes the formation of a complex composed of cryopyrin, ASC,
CARD8, and caspase-1, which activates the IKK complex and NF-KappaB signaling,
as well as induces maturation and secretion of pro-IL-1beta and pro-IL-18
through proteolytic cleavage by caspase-1
</csml:comment>
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<csml:comment type="text">PMID: 15802263,15359270
The results from this study demonstrated
that TLR2 is not a sensor for PGN but is activated by the lipoproteins
and lipoteichoic acids that are commonly present in these
commercial PGN preparations</csml:comment>
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<csml:processKinetic calcStyle="csml-calcStyle:speed" fast="false" kineticStyle="csml-kineticStyle:mass">
<csml:parameter key="coefficient2" value="1.0"/>
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</csml:processKinetic>
</csml:processSimulationProperty>
<csml:viewProperty>
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The results from this study demonstrated
that TLR2 is not a sensor for PGN but is activated by the lipoproteins
and lipoteichoic acids that are commonly present in these
commercial PGN preparations</csml:comment>
</csml:comments>
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<csml:connectorFiring connectorFiringStyle="csml-connectorFiringStyle:threshold" value="0"/>
<csml:connectorKinetic>
<csml:parameter key="stoichiometry" value="1"/>
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</csml:connectorSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="484.0" y="144.0"/>
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<figure xmlns="http://www.csml.org/csml/cigraphics">
<processConnector depth="0" points="551.0 144.0 484.0 144.0" visible="true"/>
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</csml:connector>
<csml:connector id="c212" name="c212" refID="e63" type="cso30:c:OutputProcess">
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<csml:connectorFiring connectorFiringStyle="csml-connectorFiringStyle:threshold" value="0"/>
<csml:connectorKinetic>
<csml:parameter key="stoichiometry" value="1"/>
</csml:connectorKinetic>
</csml:connectorSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="475.0" y="152.0"/>
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<csml:processKinetic calcStyle="csml-calcStyle:speed" fast="false" kineticStyle="csml-kineticStyle:mass">
<csml:parameter key="coefficient2" value="1.0"/>
<csml:parameter key="coefficient1" value="0.1"/>
</csml:processKinetic>
</csml:processSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="459.0" y="135.0"/>
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<csml:comments>
<csml:comment type="text">PMID: 15802263
All mammalian PGRPs have
been shown to be secreted proteins and to bind directly to PGN as
well as live bacteria.</csml:comment>
</csml:comments>
</csml:process>
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</csml:connector>
<csml:connector id="c214" name="c214" refID="e48" type="cso30:c:InputProcess">
<csml:connectorSimulationProperty>
<csml:connectorFiring connectorFiringStyle="csml-connectorFiringStyle:threshold" value="0"/>
<csml:connectorKinetic>
<csml:parameter key="stoichiometry" value="1"/>
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</csml:connectorSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="357.56916668859003" y="141.74320314760843"/>
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<figure xmlns="http://www.csml.org/csml/cigraphics">
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</csml:viewProperty>
</csml:connector>
<csml:connector id="c215" name="c215" refID="e65" type="cso30:c:OutputProcess">
<csml:connectorSimulationProperty>
<csml:connectorFiring connectorFiringStyle="csml-connectorFiringStyle:threshold" value="0"/>
<csml:connectorKinetic>
<csml:parameter key="stoichiometry" value="1"/>
</csml:connectorKinetic>
</csml:connectorSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="309.84217130815114" y="136.0"/>
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<csml:processKinetic calcStyle="csml-calcStyle:speed" fast="false" kineticStyle="csml-kineticStyle:mass">
<csml:parameter key="coefficient2" value="1.0"/>
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</csml:processKinetic>
</csml:processSimulationProperty>
<csml:viewProperty>
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<csml:comments>
<csml:comment type="text">PMID: 15802263
All mammalian PGRPs have
been shown to be secreted proteins and to bind directly to PGN as
well as live bacteria.</csml:comment>
</csml:comments>
</csml:process>
<csml:process id="p91" name="p91" type="cso30:c:ProcessBiological">
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</csml:connectorSimulationProperty>
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</csml:toolSpecificGraphics>
</csml:shape>
</csml:viewProperty>
</csml:connector>
<csml:connector id="c217" name="c217" refID="e66" type="cso30:c:InputProcess">
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<csml:connectorFiring connectorFiringStyle="csml-connectorFiringStyle:threshold" value="0"/>
<csml:connectorKinetic>
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</csml:connectorKinetic>
</csml:connectorSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="629.0" y="109.0"/>
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<targetArrow xmlns="http://www.csml.org/csml/cigraphics">
<processConnectorArrow points="0.0 0.0 0.0 6.0 8.0 3.0" pointsInAbsoluteCoordinate="637.0054296424662 149.69468531907924 631.0499113102937 150.42393246179424 635.0 158.0" size="8.0 6.0"/>
</targetArrow>
</csml:toolSpecificGraphics>
</csml:shape>
</csml:viewProperty>
</csml:connector>
<csml:connector id="c218" name="c218" refID="e67" type="cso30:c:OutputProcess">
<csml:connectorSimulationProperty>
<csml:connectorFiring connectorFiringStyle="csml-connectorFiringStyle:threshold" value="0"/>
<csml:connectorKinetic>
<csml:parameter key="stoichiometry" value="1"/>
</csml:connectorKinetic>
</csml:connectorSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="645.0" y="174.0"/>
<csml:shape shapeID="default" visible="true">
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</targetArrow>
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</csml:shape>
</csml:viewProperty>
</csml:connector>
<csml:processSimulationProperty>
<csml:priority value="0"/>
<csml:firing firingOnce="false" firingStyle="csml-firingStyle:and" type="csml-variable:Boolean" value="true"/>
<csml:delay delayStyle="nodelay" value="0.0"/>
<csml:processKinetic calcStyle="csml-calcStyle:speed" fast="false" kineticStyle="csml-kineticStyle:mass">
<csml:parameter key="coefficient2" value="1.0"/>
<csml:parameter key="coefficient1" value="0.1"/>
</csml:processKinetic>
</csml:processSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="626.0" y="158.0"/>
<csml:shape shapeID="default" visible="true">
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<csml:toolSpecificGraphics/>
</csml:shape>
</csml:viewProperty>
<csml:biologicalProperty refBiologicalEventID="cso30:i:ME_Binding" refCellComponentID="cso30:i:CC_Extracellular"/>
<csml:comments>
<csml:comment type="text">PMID: 15802263
PGRP-L binds to the muramyl
tripeptide moiety in PGN and cleaves between the muramic acid
and the first amino acid of the stem peptide chain, L-alanine

PMID: 15802263,6120007,8605233
This specificity is identical to the PGN degradation enzyme,
serum N-acetylmuramoyl-L-alanine amidase, leading investigators
to conclude that they are the same enzyme
</csml:comment>
</csml:comments>
</csml:process>
<csml:process id="p92" name="p92" type="cso30:c:ProcessBiological">
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<csml:connectorSimulationProperty>
<csml:connectorFiring connectorFiringStyle="csml-connectorFiringStyle:threshold" value="0"/>
<csml:connectorKinetic>
<csml:parameter key="stoichiometry" value="1"/>
</csml:connectorKinetic>
</csml:connectorSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="709.0" y="208.3688381328672"/>
<csml:shape shapeID="default" visible="true">
<csml:toolSpecificGraphics>
<figure xmlns="http://www.csml.org/csml/cigraphics">
<processConnector depth="0" points="709.0 211.0 766.0085071212105 208.3688381328672" visible="true"/>
</figure>
<targetArrow xmlns="http://www.csml.org/csml/cigraphics">
<processConnectorArrow points="0.0 0.0 0.0 6.0 8.0 3.0" pointsInAbsoluteCoordinate="765.8701928213853 205.37202830332114 766.1468214210357 211.36564796241325 774.0 208.0" size="8.0 6.0"/>
</targetArrow>
</csml:toolSpecificGraphics>
</csml:shape>
</csml:viewProperty>
</csml:connector>
<csml:connector id="c220" name="c220" refID="e68" type="cso30:c:OutputProcess">
<csml:connectorSimulationProperty>
<csml:connectorFiring connectorFiringStyle="csml-connectorFiringStyle:threshold" value="0"/>
<csml:connectorKinetic>
<csml:parameter key="stoichiometry" value="1"/>
</csml:connectorKinetic>
</csml:connectorSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="793.0" y="180.57770876399965"/>
<csml:shape shapeID="default" visible="true">
<csml:toolSpecificGraphics>
<figure xmlns="http://www.csml.org/csml/cigraphics">
<processConnector depth="0" points="793.0 203.0 837.8445824720006 180.57770876399965" visible="true"/>
</figure>
<targetArrow xmlns="http://www.csml.org/csml/cigraphics">
<processConnectorArrow points="0.0 0.0 0.0 6.0 8.0 3.0" pointsInAbsoluteCoordinate="836.5029416855008 177.8944271909999 839.1862232585005 183.26099033699938 845.0 176.99999999999997" size="8.0 6.0"/>
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</csml:toolSpecificGraphics>
</csml:shape>
</csml:viewProperty>
</csml:connector>
<csml:connector id="c221" name="c221" refID="e66" type="cso30:c:OutputProcess">
<csml:connectorSimulationProperty>
<csml:connectorFiring connectorFiringStyle="csml-connectorFiringStyle:threshold" value="0"/>
<csml:connectorKinetic>
<csml:parameter key="stoichiometry" value="1"/>
</csml:connectorKinetic>
</csml:connectorSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="646.5952062052854" y="113.52805202153921"/>
<csml:shape shapeID="default" visible="true">
<csml:toolSpecificGraphics>
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</csml:connector>
<csml:processSimulationProperty>
<csml:priority value="0"/>
<csml:firing firingOnce="false" firingStyle="csml-firingStyle:and" type="csml-variable:Boolean" value="true"/>
<csml:delay delayStyle="nodelay" value="0.0"/>
<csml:processKinetic calcStyle="csml-calcStyle:speed" fast="false" kineticStyle="csml-kineticStyle:mass">
<csml:parameter key="coefficient2" value="1.0"/>
<csml:parameter key="coefficient1" value="0.1"/>
</csml:processKinetic>
</csml:processSimulationProperty>
<csml:viewProperty>
<csml:position position="auto" positionID="default" x="774.0" y="198.0"/>
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<csml:biologicalProperty refBiologicalEventID="cso30:i:ME_Cleavage" refCellComponentID="cso30:i:CC_Extracellular"/>
<csml:comments>
<csml:comment type="text">PMID: 15802263
PGRP-L binds to the muramyl
tripeptide moiety in PGN and cleaves between the muramic acid
and the first amino acid of the stem peptide chain, L-alanine

PMID: 15802263,6120007,8605233
This specificity is identical to the PGN degradation enzyme,
serum N-acetylmuramoyl-L-alanine amidase, leading investigators
to conclude that they are the same enzyme
</csml:comment>
</csml:comments>
</csml:process>
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