GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Tom37 - Outer mitochondrial membrane transport complex protein
Pfam: PF10568 (v27) Consensus Sequence
Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )
Clan: CL0172
Length: 72
Sequences: 9441
Seq/Len: 131.12
HH_delta: 0.165 (20Jul13)
GREMLIN Results:
Residue pairs sorted by strength in covariance:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

ij Raw Score Scaled Score
54_I60_W2.146983.214
24_L34_F2.123673.179
23_Y68_V1.666352.495
27_A72_R1.648472.468
55_D70_Y1.561972.338
25_K34_F1.498472.243
42_P48_G1.404942.103
55_D59_T1.236051.850
23_Y27_A1.228551.839
20_V68_V1.200231.797
14_D17_C1.143351.712
19_A64_F1.025451.535
16_E19_A0.981941.470
21_I25_K0.978881.465
44_L52_A0.924461.384
54_I58_G0.908481.360
30_P34_F0.902771.351
45_S52_A0.871271.304
17_C50_L0.869011.301
20_V67_I0.8591.286
47_T62_S0.851.272
49_E63_G0.845441.266
44_L54_I0.844261.264
21_I36_V0.809921.212
52_A60_W0.790181.183
44_L60_W0.732041.096
22_A26_F0.723311.083
24_L71_L0.714511.070
19_A65_R0.706631.058
66_N69_E0.701231.050
18_L22_A0.692381.037
30_P35_K0.641630.961
17_C36_V0.628920.942
52_A62_S0.623290.933
18_L21_I0.585030.876
53_L67_I0.578520.866
61_V70_Y0.567110.849
61_V67_I0.5420.811
29_A34_F0.524360.785
45_S62_S0.508060.761
53_L71_L0.488190.731
16_E64_F0.480650.720
65_R69_E0.476340.713
21_I38_P0.475560.712
18_L26_F0.469740.703
45_S48_G0.46830.701
53_L70_Y0.463250.694
69_E72_R0.458540.686
16_E63_G0.457430.685
16_E49_E0.454830.681
17_C21_I0.449760.673
13_I38_P0.447620.670
23_Y71_L0.445330.667
25_K28_G0.432830.648
30_P57_G0.431580.646
35_K38_P0.431050.645
20_V64_F0.423870.635
14_D19_A0.405770.607
22_A25_K0.40220.602
19_A68_V0.395930.593
22_A46_P0.394110.590
13_I21_I0.376850.564
20_V24_L0.369420.553
28_G35_K0.369010.552
14_D18_L0.368530.552
24_L27_A0.366450.549
13_I50_L0.365960.548
14_D50_L0.363510.544
23_Y72_R0.35930.538
21_I34_F0.357310.535
39_S50_L0.351370.526
59_T70_Y0.351040.526
16_E47_T0.344070.515
65_R68_V0.342660.513
39_S44_L0.341440.511
63_G69_E0.33970.509
15_P18_L0.334680.501
63_G66_N0.333470.499
29_A71_L0.330780.495
49_E62_S0.328730.492
15_P65_R0.324010.485
13_I41_N0.319780.479
19_A63_G0.315670.473
49_E66_N0.314540.471
Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.
HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits:

Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)
PDB Cov Prob HH_delta
4jbbA0.902899.30.165
4f03A0.958399.20.175
4gltA0.958399.20.18
4hojA0.87599.20.181
4isdA0.87599.20.202
4jedA0.888999.20.202
2yv9A0.958399.20.213
3fy7A0.944499.10.215
2c3nA0.944499.10.222
4hi7A0.87599.10.223

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