GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Filamin - FilaminABP280 repeat
Pfam: PF00630 (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: CL0159
Length: 101
Sequences: 1170
Seq/Len: 11.58
HH_delta: 0.027 (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
25_F74_V0.433732.529
48_I86_I0.432712.523
67_N73_T0.431722.518
9_V95_I0.415682.424
11_G76_Y0.41022.392
29_T44_F0.333731.946
89_K94_P0.332931.942
13_G76_Y0.317321.851
66_D70_G0.317221.850
27_V44_F0.316861.848
66_D69_D0.315321.839
31_D34_G0.287761.678
8_K28_D0.287121.674
67_N71_T0.267331.559
94_P98_S0.258111.505
31_D35_N0.257971.504
44_F90_I0.252451.472
11_G14_L0.252131.470
25_F88_V0.252031.470
17_A23_A0.243581.420
27_V74_V0.241321.407
27_V90_I0.237881.387
46_V86_I0.236331.378
9_V14_L0.227921.329
7_C90_I0.223581.304
25_F84_Y0.218571.275
31_D72_Y0.217221.267
45_Q89_K0.19171.118
54_K72_Y0.186711.089
86_I97_G0.183451.070
12_P16_P0.18191.061
63_E75_S0.180881.055
79_T84_Y0.180431.052
20_G23_A0.179851.049
32_A35_N0.179141.045
51_P82_G0.175841.025
64_V74_V0.174511.018
66_D71_T0.172481.006
54_K60_V0.170080.992
24_T75_S0.16910.986
26_T67_N0.167260.975
88_V95_I0.165640.966
17_A48_I0.165250.964
50_S53_G0.164120.957
87_S94_P0.163210.952
47_T87_S0.162540.948
81_P84_Y0.161030.939
16_P85_K0.159670.931
28_D35_N0.1580.921
28_D34_G0.15720.917
11_G25_F0.157050.916
50_S84_Y0.15640.912
8_K30_R0.154810.903
54_K80_E0.153370.894
66_D72_Y0.153250.894
35_N90_I0.149730.873
23_A78_P0.14890.868
67_N87_S0.148850.868
5_S96_P0.148180.864
28_D36_P0.148020.863
12_P24_T0.147150.858
10_S28_D0.147140.858
20_G81_P0.142280.830
21_E65_I0.141710.826
12_P15_E0.140390.819
61_P64_V0.140020.817
28_D68_G0.138770.809
30_R93_Q0.138550.808
22_P75_S0.137430.801
17_A25_F0.1370.799
95_I98_S0.136220.794
52_D63_E0.136170.794
95_I99_P0.1360.793
29_T35_N0.13530.789
65_I75_S0.133820.780
5_S15_E0.133790.780
78_P84_Y0.133630.779
67_N72_Y0.133560.779
25_F76_Y0.132770.774
49_T52_D0.131880.769
33_G90_I0.131640.768
18_V31_D0.131140.765
46_V64_V0.131020.764
24_T73_T0.130230.759
32_A91_N0.129480.755
8_K95_I0.129130.753
5_S8_K0.12830.748
59_P62_V0.127890.746
22_P77_T0.127450.743
11_G99_P0.127130.741
4_P85_K0.127040.741
45_Q64_V0.125220.730
5_S82_G0.124880.728
10_S26_T0.124670.727
63_E71_T0.124620.727
6_K96_P0.124080.724
51_P81_P0.123940.723
63_E87_S0.123670.721
29_T93_Q0.123320.719
14_L76_Y0.123190.718
35_N81_P0.122990.717
69_D79_T0.12140.708
24_T48_I0.120520.703
33_G91_N0.119850.699
49_T87_S0.119550.697
78_P82_G0.118190.689
34_G92_G0.11710.683
16_P24_T0.11690.682
10_S15_E0.116680.680
65_I93_Q0.116270.678
7_C33_G0.115920.676
5_S9_V0.115670.675
78_P81_P0.115630.674
9_V99_P0.115590.674
11_G98_S0.115280.672
63_E79_T0.114410.667
68_G71_T0.114160.666
14_L25_F0.113880.664
7_C78_P0.11380.664
15_E80_E0.113530.662
10_S16_P0.113250.660
43_E52_D0.112850.658
49_T53_G0.112660.657
17_A86_I0.111950.653
29_T50_S0.11170.651
4_P7_C0.111460.650
25_F46_V0.110460.644
23_A85_K0.110240.643
45_Q87_S0.109820.640
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
2ds4A0.980299.80.027
1qfhA0.960499.80.047
1wlhA0.940699.80.079
3rghA0.891199.80.081
1wlhA0.960499.80.091
2diaA0.891199.80.096
1v05A0.891199.80.099
2dmbA0.891199.80.101
4b7lA0.891199.80.103
2di7A0.980299.70.106

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