GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
TIR - TIR domain
Pfam: PF01582 (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: CL0173
Length: 141
Sequences: 1997
Seq/Len: 14.16
HH_delta: 0.053 (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
53_E78_E0.440832.822
78_E81_E0.40722.607
58_T90_K0.362822.323
10_D15_V0.331192.120
64_R98_D0.314232.012
20_P24_E0.292881.875
1_V31_L0.275071.761
16_S33_L0.273841.753
69_S72_C0.272151.742
2_F69_S0.266951.709
69_S75_E0.260331.667
4_S75_E0.260331.667
132_S136_K0.260181.666
65_N68_S0.249241.596
3_I19_L0.236841.516
48_I71_W0.234291.500
50_E54_R0.234051.498
42_E47_N0.233421.494
9_D65_N0.229721.471
133_W137_K0.227291.455
62_L94_P0.226561.450
30_K37_D0.225951.447
34_D38_F0.224211.435
4_S60_V0.224111.435
4_S66_Y0.221671.419
64_R103_D0.215611.380
66_Y72_C0.214241.372
3_I31_L0.206381.321
94_P97_Y0.204221.307
5_Y11_R0.20111.287
110_L116_F0.197891.267
122_W134_F0.196121.256
74_F77_Q0.194561.246
19_L23_E0.194131.243
37_D40_P0.188671.208
51_A55_S0.187841.203
58_T93_L0.187691.202
14_F61_V0.185431.187
82_R90_K0.184141.179
34_D75_E0.183381.174
113_L117_L0.182161.166
81_E134_F0.182121.166
38_F47_N0.180521.156
44_I71_W0.179441.149
71_W75_E0.17931.148
134_F137_K0.174861.119
103_D111_R0.173991.114
21_E25_R0.172351.103
34_D71_W0.171811.100
25_R30_K0.17111.095
17_H21_E0.16871.080
1_V59_I0.168551.079
111_R114_L0.167971.075
40_P74_F0.167821.074
7_G11_R0.167471.072
73_L76_L0.165031.057
86_E134_F0.160811.030
38_F51_A0.158841.017
64_R111_R0.156581.002
81_E85_E0.156551.002
70_E107_D0.156020.999
43_S46_D0.15550.996
96_F116_F0.155050.993
120_L132_S0.15390.985
136_K139_R0.153850.985
19_L31_L0.153720.984
7_G34_D0.153460.982
36_R61_V0.153450.982
23_E37_D0.15160.971
86_E90_K0.150490.963
102_S105_R0.149540.957
34_D48_I0.149070.954
133_W136_K0.148610.951
42_E50_E0.147650.945
29_Y54_R0.146080.935
134_F138_L0.145970.935
77_Q80_L0.145790.933
23_E30_K0.145120.929
98_D137_K0.144860.927
23_E33_L0.144460.925
91_L122_W0.144190.923
17_H20_P0.143710.920
86_E91_L0.142690.914
77_Q84_L0.14230.911
48_I59_I0.142130.910
23_E36_R0.141030.903
34_D44_I0.140760.901
3_I33_L0.140570.900
50_E134_F0.139740.895
21_E24_E0.139290.892
6_S71_W0.139280.892
19_L33_L0.138260.885
21_E76_L0.138190.885
6_S9_D0.137830.882
80_L83_L0.137040.877
44_I55_S0.137020.877
19_L36_R0.137010.877
63_S66_Y0.135420.867
94_P138_L0.135370.867
2_F7_G0.134320.860
125_D133_W0.133870.857
1_V57_R0.133830.857
20_P59_I0.13230.847
1_V55_S0.132150.846
107_D122_W0.131790.844
45_L71_W0.131750.843
70_E122_W0.131730.843
11_R35_E0.131640.843
57_R90_K0.130490.835
60_V98_D0.13040.835
11_R34_D0.130320.834
72_C97_Y0.130210.834
5_Y77_Q0.129990.832
37_D56_R0.129740.831
83_L91_L0.129720.830
83_L92_I0.129410.828
57_R84_L0.128080.820
32_C38_F0.127660.817
20_P23_E0.127630.817
117_L137_K0.127590.817
120_L136_K0.127310.815
57_R91_L0.126780.812
11_R17_H0.126690.811
48_I133_W0.126130.807
47_N50_E0.125610.804
60_V79_A0.124960.800
119_Y132_S0.124610.798
12_E47_N0.124370.796
96_F105_R0.12390.793
74_F124_D0.123840.793
100_S103_D0.123590.791
23_E134_F0.123580.791
18_L61_V0.123320.790
95_V114_L0.121490.778
95_V105_R0.121360.777
39_L42_E0.121290.777
52_I66_Y0.121230.776
10_D14_F0.121180.776
19_L22_L0.120850.774
38_F132_S0.12060.772
124_D133_W0.120370.771
31_L80_L0.120360.771
54_R134_F0.120220.770
113_L116_F0.119980.768
33_L50_E0.119780.767
34_D69_S0.119540.765
114_L119_Y0.118610.759
72_C75_E0.118590.759
62_L104_V0.118470.758
58_T83_L0.118130.756
32_C36_R0.117990.755
5_Y63_S0.117350.751
13_W55_S0.117230.751
90_K133_W0.116810.748
28_G80_L0.116620.747
3_I41_G0.116510.746
51_A58_T0.115950.742
16_S95_V0.115870.742
83_L122_W0.115850.742
25_R29_Y0.115590.740
4_S44_I0.115470.739
47_N134_F0.11540.739
38_F72_C0.115130.737
84_L92_I0.115110.737
30_K56_R0.115070.737
36_R92_I0.114940.736
10_D38_F0.114570.733
44_I75_E0.114510.733
123_P137_K0.114440.733
132_S135_W0.114160.731
47_N118_T0.113940.729
3_I62_L0.11360.727
63_S69_S0.113210.725
115_R119_Y0.112640.721
57_R62_L0.112590.721
3_I68_S0.111930.717
117_L136_K0.111440.713
18_L31_L0.111210.712
13_W98_D0.110990.711
117_L120_L0.110920.710
20_P91_L0.110180.705
20_P98_D0.109950.704
18_L22_L0.109750.703
15_V61_V0.109170.699
66_Y79_A0.109150.699
32_C51_A0.108970.698
50_E53_E0.108710.696
63_S72_C0.108310.693
70_E123_P0.107720.690
4_S72_C0.107570.689
122_W125_D0.107250.687
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
3j0aA0.978799.90.053
2j67A0.978799.90.095
1fyxA0.971699.90.104
1t3gA0.978799.90.151
4eo7A0.914999.90.174
2js7A0.914999.90.178
3jrnA0.936299.80.247
3oziA0.936299.80.251
3ub2A0.886599.80.263
3h16A0.914999.80.315

Page generated in 0.0172 seconds.