GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Sua5_yciO_yrdC - Telomere recombination
Pfam: PF01300 (v26) Consensus Sequence
Length: 179
Sequences: 3295
Seq/Len: 18.41
HH_delta: -0.012 (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
2_I7_G1.42085.394
11_Y20_G0.919353.490
7_G149_D0.877653.332
22_D25_N0.865443.286
1_E5_A0.663142.518
6_G25_N0.642052.438
26_P90_P0.637872.422
10_I148_V0.544912.069
49_S53_Q0.540112.051
42_K129_S0.535872.034
2_I150_L0.528472.006
11_Y110_L0.510271.937
3_L117_L0.509831.936
31_R34_R0.508091.929
131_E143_R0.508031.929
20_G123_S0.504071.914
22_D119_E0.489021.857
49_S114_L0.468471.779
55_E67_L0.45941.744
26_P92_Y0.452041.716
8_V35_I0.431421.638
50_S115_R0.429021.629
53_Q56_D0.427391.623
14_D107_H0.426741.620
48_V54_L0.426411.619
24_F119_E0.422111.603
23_A46_V0.416081.580
141_E145_K0.402781.529
30_E34_R0.398891.514
136_S139_E0.396231.504
137_F153_D0.394261.497
47_L110_L0.380511.445
109_L154_G0.380121.443
128_L143_R0.377451.433
10_I140_I0.373461.418
20_G121_L0.365741.389
167_D173_P0.359351.364
21_C28_A0.350731.332
112_E115_R0.350091.329
99_T167_D0.345791.313
167_D170_N0.344931.310
17_Y137_F0.343631.305
57_Y102_V0.341551.297
38_R127_N0.340671.293
109_L152_I0.339841.290
2_I149_D0.339651.290
47_L123_S0.336211.276
11_Y113_L0.332751.263
26_P30_E0.326761.241
111_R115_R0.326621.240
67_L71_E0.326161.238
70_A80_L0.323991.230
108_P112_E0.323421.228
31_R35_I0.322361.224
54_L102_V0.318561.209
51_I71_E0.3161.200
51_I104_V0.313391.190
58_A100_I0.311621.183
35_I147_K0.307131.166
49_S115_R0.306061.162
33_Y40_P0.304441.156
6_G22_D0.300581.141
138_E142_E0.299891.139
21_C32_I0.299331.136
58_A82_L0.29871.134
10_I137_F0.297931.131
9_I150_L0.297581.130
35_I144_F0.297481.129
63_P66_A0.293281.113
168_L173_P0.29271.111
11_Y123_S0.289691.100
47_L114_L0.287861.093
128_L147_K0.286941.089
66_A70_A0.28261.073
32_I122_V0.281011.067
55_E64_P0.279841.062
64_P67_L0.279051.059
50_S53_Q0.276021.048
62_L70_A0.274921.044
136_S156_E0.274761.043
140_I151_I0.274591.043
169_T173_P0.274481.042
36_K42_K0.273841.040
30_E92_Y0.271031.029
38_R125_S0.270111.025
170_N174_K0.269821.024
126_A140_I0.26981.024
112_E116_K0.266851.013
104_V111_R0.265951.010
24_F90_P0.264591.005
7_G31_R0.26260.997
113_L121_L0.260960.991
8_V149_D0.260840.990
167_D174_K0.259680.986
63_P82_L0.259570.985
134_A140_I0.255320.969
22_D117_L0.254860.968
25_N28_A0.254850.968
27_E30_E0.253920.964
58_A102_V0.251450.955
9_I20_G0.250830.952
15_T135_T0.24850.943
59_E83_P0.247160.938
81_I176_L0.246690.937
45_I101_G0.245180.931
3_L121_L0.24430.928
141_E151_I0.241220.916
52_E55_E0.240890.915
1_E4_K0.240860.914
84_A94_T0.236890.899
30_E40_P0.236450.898
69_L78_L0.23370.887
51_I67_L0.232720.884
79_T101_G0.230130.874
51_I70_A0.229920.873
29_V93_L0.229870.873
104_V114_L0.229760.872
36_K129_S0.229220.870
37_G128_L0.229130.870
53_Q114_L0.227530.864
105_P111_R0.226580.860
66_A168_L0.225710.857
113_L152_I0.225630.857
31_R149_D0.225180.855
89_L92_Y0.223340.848
48_V102_V0.220640.838
10_I19_L0.220290.836
48_V57_Y0.218950.831
58_A62_L0.217910.827
33_Y95_G0.217730.827
108_P111_R0.217570.826
80_L166_V0.216920.824
126_A134_A0.216530.822
2_I5_A0.216030.820
59_E85_K0.214070.813
133_P162_P0.21360.811
49_S118_G0.212860.808
53_Q120_P0.212730.808
48_V53_Q0.206930.786
3_L119_E0.206550.784
56_D85_K0.206270.783
37_G147_K0.205560.780
27_E31_R0.202660.769
15_T163_S0.202340.768
137_F156_E0.202290.768
48_V104_V0.199530.758
41_N132_P0.198810.755
106_D158_P0.198560.754
38_R124_T0.198540.754
20_G113_L0.197320.749
142_E145_K0.197260.749
36_K127_N0.197090.748
21_C29_V0.196420.746
3_L113_L0.196280.745
33_Y44_L0.196250.745
65_E68_R0.195230.741
16_V162_P0.194650.739
29_V92_Y0.194630.739
16_V163_S0.192410.731
33_Y42_K0.192360.730
137_F151_I0.192190.730
79_T103_R0.191890.729
32_I123_S0.190940.725
21_C122_V0.19070.724
5_A52_E0.190090.722
51_I55_E0.189780.721
35_I148_V0.189620.720
20_G110_L0.189220.718
23_A29_V0.18910.718
137_F140_I0.189050.718
35_I149_D0.188960.717
148_V151_I0.18860.716
144_F149_D0.188260.715
4_K116_K0.18810.714
124_T127_N0.18790.713
36_K124_T0.187590.712
175_I178_E0.187520.712
68_R72_R0.186720.709
166_V175_I0.186330.707
46_V57_Y0.185410.704
19_L148_V0.184960.702
135_T139_E0.184770.701
63_P70_A0.184060.699
127_N130_G0.184040.699
4_K119_E0.183390.696
29_V122_V0.18240.692
128_L144_F0.182020.691
67_L70_A0.181640.690
83_P98_G0.181290.688
10_I144_F0.18120.688
58_A85_K0.179880.683
134_A139_E0.179710.682
84_A91_K0.179450.681
161_V178_E0.178910.679
107_H110_L0.177490.674
49_S111_R0.177390.673
117_L121_L0.177210.673
106_D111_R0.176950.672
53_Q104_V0.176280.669
84_A89_L0.175830.668
8_V31_R0.174690.663
161_V166_V0.174080.661
89_L100_I0.173320.658
105_P110_L0.173220.658
91_K98_G0.172860.656
46_V93_L0.172270.654
18_G103_R0.172170.654
82_L168_L0.172170.654
32_I44_L0.171830.652
103_R163_S0.170830.649
6_G27_E0.170490.647
54_L58_A0.170290.647
42_K124_T0.170110.646
101_G105_P0.169010.642
3_L20_G0.168640.640
44_L122_V0.168620.640
40_P95_G0.16810.638
18_G106_D0.167930.638
81_I99_T0.167880.637
78_L164_T0.167660.637
70_A168_L0.166820.633
42_K132_P0.166510.632
54_L62_L0.166480.632
12_P17_Y0.165650.629
17_Y153_D0.165240.627
16_V127_N0.165110.627
63_P171_G0.164410.624
89_L93_L0.163430.620
51_I54_L0.16330.620
33_Y157_I0.162620.617
64_P68_R0.162220.616
75_P105_P0.162220.616
70_A104_V0.160130.608
87_E90_P0.158730.603
139_E143_R0.158050.600
59_E86_K0.1580.600
82_L102_V0.157970.600
54_L82_L0.157850.599
76_G164_T0.157770.599
126_A151_I0.15760.598
78_L166_V0.157560.598
50_S101_G0.157180.597
133_P161_V0.15680.595
33_Y38_R0.156750.595
13_T20_G0.156710.595
87_E91_K0.156630.595
137_F155_G0.156070.593
165_I178_E0.155660.591
66_A69_L0.155520.590
117_L165_I0.155330.590
56_D118_G0.155170.589
18_G38_R0.15480.588
4_K117_L0.154290.586
22_D29_V0.153880.584
124_T162_P0.153870.584
18_G123_S0.153660.583
10_I151_I0.150880.573
7_G150_L0.15020.570
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
2eqaA0.9888100-0.012
1jcuA0.96651000.031
1k7jA0.97771000.035
1hruA0.96651000.062
3vthA0.97211000.068
3ttcA0.92741000.126
3l7vA0.97771000.166
4g9iA0.97771000.233
3venA0.832499.80.563
3uksA0.357545.80.933

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