GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
GTP1_OBG - GTP1OBG
Pfam: PF01018 (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. )
Length: 156
Sequences: 1701
Seq/Len: 10.9
HH_delta: 0.011 (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
46_V112_R1.128484.387
44_Y114_L1.062944.133
20_S33_D0.829483.225
104_A113_F0.818783.183
47_A106_L0.817293.178
47_A90_V0.769352.991
49_E109_P0.753082.928
96_D148_R0.698672.716
48_D87_K0.686132.668
123_L140_T0.681882.651
13_N67_N0.678922.640
57_L86_I0.672852.616
95_Y151_E0.641212.493
72_K76_C0.633462.463
10_R147_E0.620092.411
95_Y102_L0.617092.399
120_R143_E0.615772.394
36_N127_H0.614132.388
46_V87_K0.608062.364
46_V85_I0.588112.286
107_T111_Q0.53782.091
67_N70_N0.534252.077
8_K149_K0.514622.001
45_L94_V0.498821.939
66_E82_K0.497711.935
75_N126_A0.493341.918
19_V139_A0.488151.898
133_N138_F0.475791.850
10_R13_N0.45531.770
108_E111_Q0.451531.755
22_R27_V0.45081.753
39_N80_N0.44991.749
66_E81_G0.434361.689
85_I112_R0.433151.684
9_V150_L0.428171.665
69_E72_K0.421561.639
13_N16_N0.419811.632
98_D149_K0.414841.613
93_V102_L0.414491.611
44_Y112_R0.394341.533
39_N42_D0.383421.491
42_D114_L0.378221.470
45_L115_V0.361531.406
6_R149_K0.355111.381
96_D99_T0.354151.377
18_C73_S0.352851.372
10_R64_K0.340891.325
13_N144_P0.32391.259
8_K147_E0.322971.256
9_V43_V0.317321.234
96_D101_E0.313051.217
16_N70_N0.304911.185
42_D83_D0.303021.178
42_D117_R0.296781.154
57_L63_Y0.295251.148
129_K134_R0.293181.140
97_A151_E0.28911.124
44_Y85_I0.279591.087
66_E79_K0.277141.077
8_K62_H0.275841.072
24_E27_V0.272771.060
131_S134_R0.272491.059
11_G43_V0.26891.045
56_D59_N0.265511.032
123_L127_H0.261451.016
140_T143_E0.260581.013
93_V155_K0.260081.011
45_L86_I0.257941.003
52_N55_L0.257161.000
6_R97_A0.256130.996
18_C72_K0.252370.981
41_G65_A0.250720.975
4_R151_E0.250210.973
77_H127_H0.245730.955
39_N121_G0.243370.946
120_R140_T0.240120.934
63_Y84_L0.239710.932
7_I63_Y0.236720.920
95_Y100_G0.234230.911
115_V150_L0.233230.907
90_V108_E0.232320.903
126_A129_K0.230310.895
16_N140_T0.230040.894
11_G116_A0.228660.889
95_Y153_E0.228650.889
57_L152_L0.228110.887
77_H80_N0.226940.882
60_K63_Y0.225440.876
96_D103_L0.225370.876
138_F143_E0.220260.856
45_L152_L0.219830.855
45_L113_F0.219180.852
48_D109_P0.218820.851
22_R28_P0.218050.848
71_G124_G0.216520.842
93_V153_E0.216320.841
13_N145_G0.215990.840
21_F33_D0.215210.837
47_A110_G0.21390.832
103_L150_L0.213640.831
117_R146_E0.20970.815
10_R62_H0.207590.807
75_N127_H0.206520.803
37_G40_G0.204450.795
51_V56_D0.202010.785
83_D112_R0.198830.773
120_R123_L0.198830.773
5_V57_L0.192920.750
138_F141_P0.191420.744
121_G155_K0.190830.742
2_V5_V0.190230.740
6_R151_E0.1890.735
104_A111_Q0.188650.733
97_A149_K0.188050.731
43_V65_A0.184240.716
11_G148_R0.183910.715
66_E69_E0.182860.711
39_N120_R0.179720.699
41_G83_D0.179470.698
116_A146_E0.177360.690
69_E76_C0.176860.688
45_L150_L0.174760.679
52_N90_V0.174610.679
9_V148_R0.173760.676
82_K85_I0.172150.669
104_A115_V0.171820.668
46_V110_G0.17020.662
60_K66_E0.169910.661
105_D155_K0.169630.659
11_G115_V0.169370.658
16_N141_P0.169180.658
69_E79_K0.16910.657
53_S59_N0.168580.655
45_L88_V0.168490.655
121_G139_A0.167070.650
8_K63_Y0.165320.643
29_K135_A0.165080.642
55_L59_N0.164280.639
106_L111_Q0.163830.637
12_G15_G0.162790.633
52_N63_Y0.161510.628
70_N73_S0.160290.623
80_N83_D0.15970.621
9_V116_A0.159560.620
116_A148_R0.159460.620
24_E30_G0.159450.620
23_R27_V0.159090.619
34_G124_G0.158230.615
14_G17_G0.158150.615
71_G125_N0.157710.613
42_D80_N0.157040.611
24_E31_G0.156980.610
63_Y86_I0.156470.608
34_G125_N0.156320.608
13_N70_N0.1560.607
22_R75_N0.155510.605
125_N142_G0.154240.600
12_G17_G0.153910.598
29_K137_R0.15240.593
33_D75_N0.152320.592
22_R26_Y0.151550.589
21_F128_F0.15080.586
45_L84_L0.150510.585
106_L113_F0.150490.585
51_V87_K0.150310.584
25_K53_S0.149780.582
47_A108_E0.148440.577
62_H147_E0.14790.575
39_N127_H0.147480.573
31_G136_P0.147360.573
129_K133_N0.146680.570
7_I152_L0.146130.568
8_K98_D0.146010.568
90_V106_L0.145880.567
24_E135_A0.145870.567
18_C33_D0.145860.567
23_R28_P0.145720.567
121_G127_H0.145250.565
90_V109_P0.145240.565
43_V116_A0.144920.563
38_G41_G0.144850.563
88_V92_T0.144620.562
9_V63_Y0.144540.562
44_Y83_D0.144050.560
34_G71_G0.14370.559
134_R138_F0.142840.555
33_D73_S0.142420.554
128_F138_F0.142080.552
39_N143_E0.14160.551
93_V156_T0.1410.548
128_F140_T0.140350.546
2_V55_L0.139770.543
114_L117_R0.139690.543
101_E148_R0.139220.541
41_G81_G0.139140.541
22_R30_G0.13910.541
129_K132_T0.138970.540
11_G117_R0.138830.540
132_T152_L0.138710.539
110_G115_V0.137630.535
70_N79_K0.135410.526
104_A156_T0.134440.523
120_R138_F0.134170.522
70_N77_H0.134090.521
29_K140_T0.134020.521
59_N63_Y0.133860.520
104_A116_A0.133520.519
134_R141_P0.132480.515
23_R30_G0.132470.515
78_G81_G0.13210.514
69_E109_P0.1310.509
69_E77_H0.130730.508
88_V115_V0.130510.507
20_S74_R0.130410.507
21_F137_R0.129690.504
12_G35_G0.129210.502
1_F53_S0.128510.500
18_C108_E0.127750.497
11_G145_G0.126370.491
62_H155_K0.126280.491
51_V63_Y0.126160.490
92_T152_L0.125730.489
4_R52_N0.125610.488
18_C70_N0.125470.488
86_I101_E0.125360.487
37_G41_G0.125020.486
100_G151_E0.124570.484
25_K146_E0.124060.482
20_S73_S0.124020.482
4_R29_K0.1240.482
29_K134_R0.123270.479
4_R55_L0.12290.478
35_G40_G0.122860.478
21_F73_S0.122610.477
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
1lnzA11000.011
1udxA0.99361000.02
1xzpA0.788598.90.778
2l6fA0.35919.60.949
2v2fA0.166712.60.953
1ypwA0.33338.30.956
3lz8A0.82058.20.956
3hshA0.3593.80.963
3ky8A0.32693.40.963
3e1yE0.48083.10.964

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