Table SIV: Summary of interactions between B23 and each predicted kinase. The interactions were defined as direct or indirect according to the interaction database STRING 8.2 (Jensen et al., 2009) (http://string-db.org/).
Direct Interactions (DI): the experimentally determined physical contacts, including phosphorylation (von
Mering et al., 2005).
Phoshorylation column: each (+) symbol represents one experimentally verified phosphosite. Physical Interactions column: each (+) symbol represents one interaction site or region of B23 with the kinase. Indirect Interactions (IDI): considered the subcellular localization, the cellular processes and signaling pathways shared by B23 and each predicted kinase or the genes encoding these proteins (Jensen et al., 2009;von Mering et al., 2005;Ideker and Sharan, 2008), as well as the protein-protein interaction networks in which B23 and each kinase are connected by shared components (Gagneur et al., 2004).
Subcellular Localization column: each (+) symbol represents a subcellular localization. Cellular Processes,
Signaling Pathways and Networks columns: each (+) symbol refer to each one of these events that involve
B23 and each predicted kinase. The parameter P represents the probability that each predicted kinase interacts and phosphorylates B23 calculated as described in M&M. More detailed information concerning these interactions is available in Supplementary Material Table SIII.
Kinase
Symbols
CK2
CDK
PKC
PKA
MAPK
CK1
ATM
PLK
RSK
STK4
CHK1
GRK
PKG
PSK3
Aurora
PKB
PDK
IKK
MAPKAPK2
CaM
GSK3
FGR
RET
EPH
Direct Interaction (DI)
Phosphorylation Physical
Interactions
Indirect Interactions (IDI)
Subcellular
Localization
Cellular processes
Signaling
Pathways
+
++++
+
+
++
+++
++
+
+
+
Total of interactions
Networks Total (T)
T = DI +
IDI
+
+
8
13
(P)
P =T/13
0.62
1
++
+
+
+
+ ++
++
+++
+++
+++
+++
+
+++++
++++
+++
++++
++
+++
++
+
+
+
+
+
+
+
7
9
10
9
9
8
0.69
0.69
0.62
0.54
0.69
0.77
+
+++ + ++ 7 0.54
+
+
+
++
+++
++
+
+++
+++
++
++
++
+
+++
+++
+
+
+++
+
+
+
+
+
+
+
3
7
13
5
8
4
3
0.38
0.62
0.31
0.23
0.23
0.54
1
++
++
++
++
++
+++
+
++++
+
+
++++
+
+
++++
+++
+
++
+++
+
+
+
+
+
11
7
4
2
10
1
5
2
0.85
0.54
0.31
0.15
0.77
0.08
0.38
0.15

IRR
SRC
TYK2
INSR
FGFR1
ALK
PDGFR
+
++
+++
+
+
+
+
+
++
++
+
+
+
+
1
4
6
1
4
2
1
0.08
0.31
0.46
0.08
0.31
0.15
0.08
JAK2
IGFIR
ZAP70
BTK
++
+++
++
++
++
++
+
+
+
+
5
5
3
3
0.38
0.38
0.23
0.23
FES
Direct Interaction (DI)
++
Indirect Interactions (IDI)
3 0.23
Total interactions i Light grey rows represent kinases with a number of interactions higher than or equal to that of CK2, the kinase that has been experimentally verified to phosphorylate B23 with the lowest number of interactions (eigth). Therefore, P
CK2
(0.62) is the significant limit of P.
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