GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
TPR_11 - TPR repeat
Pfam: PF13414 (v26) Consensus Sequence
Clan: CL0020
Length: 69
Sequences: 32486
Seq/Len: 470.81
HH_delta: -0.164 (11Mar13)
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
6_Y25_Y4.146522.392
43_R60_D4.105212.368
40_Y60_D4.044572.333
18_D21_E3.933762.269
53_D56_E3.873562.234
27_E43_R3.770942.175
9_L25_Y3.589062.070
10_G26_F3.48642.011
44_G61_F3.345471.930
47_Y56_E2.965891.711
13_Y21_E2.942681.697
47_Y60_D2.888031.666
13_Y25_Y2.836071.636
26_F42_N2.605331.503
23_I27_E2.49781.441
58_L62_E2.488941.436
23_I50_L2.257651.302
12_A16_Q2.214861.278
29_A39_A2.208951.274
51_G54_Y2.175031.255
13_Y18_D2.10041.212
47_Y53_D2.050251.183
23_I47_Y2.03021.171
30_L40_Y2.021091.166
36_N39_A1.993421.150
41_Y45_Q1.988911.147
37_A68_D1.892441.092
6_Y28_Q1.891291.091
40_Y63_K1.85511.070
11_Q42_N1.841041.062
20_E50_L1.806621.042
33_D36_N1.793731.035
63_K66_E1.779431.026
63_K67_L1.768311.020
50_L53_D1.756041.013
30_L39_A1.731240.999
19_Y46_C1.696220.978
23_I46_C1.667430.962
19_Y49_K1.651340.953
23_I43_R1.627390.939
9_L13_Y1.626310.938
48_Y54_Y1.609430.928
43_R47_Y1.53870.888
7_F11_Q1.529620.882
11_Q14_F1.517890.876
48_Y57_A1.498830.865
28_Q31_E1.484670.856
21_E24_E1.48350.856
48_Y61_F1.454430.839
7_F39_A1.437530.829
28_Q32_L1.422760.821
9_L12_A1.393610.804
40_Y67_L1.367370.789
14_F49_K1.365240.788
14_F46_C1.362480.786
45_Q48_Y1.34150.774
46_C50_L1.337230.771
40_Y64_A1.318860.761
6_Y29_A1.295870.748
37_A64_A1.273070.734
7_F42_N1.268330.732
23_I53_D1.245570.719
5_A9_L1.224970.707
60_D63_K1.223620.706
11_Q15_Q1.219930.704
57_A61_F1.214690.701
8_N11_Q1.206660.696
41_Y64_A1.164680.672
56_E59_E1.1640.671
19_Y50_L1.160670.670
14_F42_N1.136280.655
42_N45_Q1.125550.649
5_A12_A1.080940.624
25_Y28_Q1.075730.621
29_A32_L1.065240.614
22_A26_F1.057260.610
6_Y32_L1.055770.609
26_F46_C1.05150.607
14_F45_Q1.038040.599
27_E47_Y1.022760.590
22_A46_C1.016690.586
14_F26_F1.008670.582
45_Q49_K1.00230.578
44_G64_A1.000250.577
14_F19_Y0.996920.575
64_A67_L0.992540.573
64_A68_D0.983640.567
24_E28_Q0.979510.565
45_Q61_F0.976540.563
10_G29_A0.97640.563
30_L43_R0.972030.561
62_E65_L0.962660.555
56_E60_D0.959520.554
35_N67_L0.950630.548
7_F36_N0.935040.539
21_E25_Y0.927190.535
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
4gywA0.985598.8-0.164
4gywA0.985598.7-0.139
3gyzA0.985598.7-0.136
4gcnA0.985598.7-0.129
3gyzA0.985598.7-0.122
4gcoA0.985598.7-0.117
4ga2A0.985598.6-0.113
4gcoA0.985598.6-0.109
2h6fA0.985598.6-0.091
2hr2A0.985598.6-0.087

Page generated in 0.0149 seconds.