BioMed Research International / 2010 / Article / Tab 4 / Methodology Report
Development of a Novel Bioinformatics Tool for In Silico Validation of Protein Interactions Table 4 Overview of the scores used to rank the putative GRB2 interactors. NCBI protein accession number, Score1 , Score2 , the sequence and the structure configuration of the best motif, Score3 and Score4 , were reported. The last column showed the final score assigned to each interactor.
Access number Score1 Score2 Best motif of sequence Best struct. motif Score3 Number int. sites Score4 Final score NP_001306 344.7 2378 PPP[IVL] LLLL 148.1 27 181.2 2.52 NP_003014 4 2177 PPP[IVL] LLLL 95 12 168 2.33 NP_060910 −11.3 1774 PPP[IVL]P LLLLL 2469.1 18 8.9 2.21 NP_004432 1688.3 3910 [ED]D[ED] LLL 2 31 14.5 2.08 NP_004407 −43.3 2468 PPP[IVL] LLLL 86 22 92.2 2.02 NP_003713 −40.3 2417 PPP[IVL] LLLL 78.4 24 87 1.99 NP_005145 −52.3 3370 [ED]N[IVL] LLL 1.2 34 15.1 1.98 NP_002030 −2.3 2269 PPP[IVL] LLLL 76.8 21 83.3 1.95 NP_002511 −3.7 1220 [ED]ED[ED] LLLL 136 20 151.8 1.9 NP_005148 29.3 3261 [ED]N[IVL] LLL 1.2 24 4.9 1.88 NP_003311 −25 2204 [ED]ED[ED] LLLL 71.3 26 81.6 1.86 NP_003362 1032.3 3399 [ED]D[ED] LLL 2.4 24 7 1.86 NP_006566 798 3359 [ED]D[ED] LLL 2.4 27 9.9 1.84 NP_149129 −24.7 3141 [HQN][KR]S[GTSWYP][GTSWYP] HLLLL 18.7 11 20.1 1.82 NP_005556 93.7 2141 [ED]ED[ED] LLLL 75 12 77 1.8 NP_036252 11.3 2472 PPP[IVL] LLLL 83.5 26 94.1 1.76 NP_003806 516.3 3112 [IVL]N[IVL] LLL 1 22 8.3 1.76 NP_001973 955.7 1960 [ED]ED[ED] LLLL 29.8 31 40.6 1.75 NP_004439 1297.3 2468 [ED]D[ED] LLL 1.6 32 11.7 1.73 NP_612401 −50.3 2223 PPP[IVL] LLLL 75.4 11 77 1.73 NP_542179 −19.3 2370 PPP[IVL] LLLL 91 27 103.9 1.72 NP_004680 −47.7 2296 RR[KR] LLL 5.6 23 8.2 1.57 NP_002244 1179 1981 [HQN]Q[HQN] LLL 0.6 30 6.7 1.55 NP_002960 297.7 2304 [ED]D[ED] LLL 5.4 14 20.5 1.55 NP_000689 −36.3 2377 [KR]D[GTSWYP] ELL 1 25 8.6 1.5 NP_005875 258.7 2345 RR[KR] LLL 6.8 13 12.6 1.5 NP_114098 −10.7 2370 [ED]D[ED] LLL 3 20 8.9 1.49 NP_036428 −14.7 2471 G[GTSWYP]F LLL 2 18 4.8 1.48 NP_066189 237.7 2526 [GTSWYP]E[IVL] LLE 0.7 9 1.1 1.48 NP_000869 −4.7 2251 RR[KR] LLL 7.2 26 11.7 1.44 NP_005222 −22.3 2246 [ED]D[ED] LLL 3.6 21 7.9 1.42 NP_055413 −20.7 2313 [KR]D[GTSWYP] ELL 1.1 8 0.6 1.42 NP_065795 −33.3 2166 RR[KR] LLL 7.8 18 6.1 1.35 NP_000732 106.7 1894 [IVL]N[HQN] LLL 1.8 16 4.9 1.28 NP_002637 −144.7 186 PPP[IVL] LLLL 32.6 31 40.8 1.27 NP_000675 347.7 1831 [ED]D[ED] LLL 4.2 10 1.2 1.25 NP_001773 −28.7 1520 [ED]N[IVL] LLL 3.7 13 22 1.23 NP_003170 −24.3 1300 [ED]N[IVL] LLL 4.2 21 31.6 1.21 NP_006454 −18.7 1727 [GTSWYP]K[ED] HLL 1.6 17 6.5 1.19 NP_000013 −26.7 1523 [GTSWYP]E[KR] LLE 1.8 19 10.2 1.17 NP_057627 −28 1540 [GTSWYP]S[IVL] LLL 1.2 13 4.2 1.12 NP_689901 219.3 1436 [GTSWYP]E[KR] LLE 1.9 17 8.9 1.1 NP_004030 −34.3 1448 [GTSWYP]S[IVL] LLL 1.3 9 1.3 1.09 NP_955359 376 1292 [ED]D[ED] LLL 6.3 10 7.9 1.06 NP_542417 −207.7 −4169 [GTSWYP]RP[IVL]P LLLLL 82.4 26 110.2 1.03 NP_002342 591 538 [KR]D[GTSWYP] ELL 5.2 6 3.4 0.77
