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OPENSEQ.org
3G50_ab
Genes: A B A+B
Length: 92 81 171
Sequences: 978 1373 99
Seq/Len: 10.63 16.95 0.58
MirrorTree (Pazo et al. 2001) 0.79
Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.

[Show HHblits results] - Maybe useful in deciding what regions to trim.
Δgene Ratio of paralogs Joined
A B Seq/Len
1 0.01 0.00 0.44
2 0.01 0.01 0.46
5 0.01 0.01 0.50
10 0.01 0.01 0.55
20 0.02 0.02 0.57
100 0.03 0.04 0.74
∞ 0.07 0.10 1.42
Paired alignment generation
0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20
Sequence A E-value:
Iterations:
Sequence B E-value:
Iterations:
Δgene MSA
Figure 1: The effect of Δgene on ratio of paralogs in the genome for each gene, and the number of sequences in the resulting joined alignment. Figure 2: Distribution of Δgene across all genomes. Figure 3: Current parameters. You can use the form to adjust the parameters and resubmit the job!
GREMLIN results (Scaled_score > 1):
Figure 4: The darker and larger the blue dots, the higher strength in coevolution. 		Inter Residue pairs sorted by strength in coevolution signal:
i j Scaled Score Prob I_Prob
55_W 63_L 2.07 0.91 0.45
41_V 78_V 1.53 0.63 0.13
44_D 28_E 1.41 0.54 0.09
65_I 76_L 1.35 0.49 0.08
48_S 77_R 1.31 0.46 0.07
27_Q 42_G 1.30 0.45 0.06
32_K 14_D 1.30 0.45 0.06
69_D 52_T 1.28 0.44 0.06
26_D 5_V 1.22 0.39 0.05
60_G 7_F 1.22 0.38 0.05
33_N 39_L 1.21 0.38 0.05
81_D 72_T 1.20 0.37 0.04
83_I 72_T 1.20 0.37 0.04
28_I 69_E 1.19 0.37 0.04
88_G 26_V 1.18 0.36 0.04
55_W 54_S 1.16 0.34 0.04
30_I 21_R 1.14 0.33 0.04
69_D 65_R 1.13 0.32 0.04
20_A 5_V 1.10 0.30 0.03
86_E 30_A 1.10 0.30 0.03
80_E 31_F 1.09 0.29 0.03
81_D 15_L 1.07 0.28 0.03
76_R 63_L 1.04 0.26 0.02
41_V 69_E 1.03 0.26 0.02
49_L 65_R 1.03 0.26 0.02
82_E 30_A 1.03 0.25 0.02
49_L 5_V 1.01 0.25 0.02
51_E 43_K 1.01 0.24 0.02
53_L 51_G 1.01 0.24 0.02
81_D 36_R 1.00 0.23 0.02
91_R 39_L 0.99 0.23 0.02
71_D 32_G 0.98 0.23 0.02
65_I 16_H 0.97 0.22 0.02
40_L 67_D 0.97 0.22 0.02
5_L 78_V 0.96 0.22 0.02
46_W 62_L 0.96 0.21 0.02
34_G 25_A 0.95 0.21 0.02
21_V 62_L 0.95 0.21 0.02
81_D 78_V 0.95 0.21 0.02
53_L 30_A 0.94 0.20 0.02
27_Q 64_Y 0.94 0.20 0.02
28_I 65_R 0.94 0.20 0.02
8_S 79_D 0.93 0.20 0.01
72_I 75_I 0.93 0.20 0.01
57_A 6_R 0.93 0.20 0.01
60_G 9_T 0.93 0.20 0.01
67_E 8_T 0.93 0.20 0.01
27_Q 20_P 0.92 0.20 0.01
18_V 43_K 0.92 0.20 0.01
29_T 13_R 0.92 0.19 0.01
15_N 25_A 0.91 0.19 0.01
39_V 38_P 0.91 0.19 0.01
39_V 32_G 0.91 0.19 0.01
40_L 63_L 0.91 0.19 0.01
46_W 17_K 0.90 0.18 0.01
72_I 78_V 0.90 0.18 0.01
83_I 71_T 0.89 0.18 0.01
78_Y 71_T 0.89 0.18 0.01
31_T 25_A 0.88 0.17 0.01
70_A 5_V 0.88 0.17 0.01
6_P 76_L 0.88 0.17 0.01
35_A 7_F 0.87 0.17 0.01
67_E 46_R 0.86 0.17 0.01
44_D 21_R 0.86 0.17 0.01
66_A 64_Y 0.86 0.17 0.01
29_T 12_R 0.86 0.17 0.01
31_T 38_P 0.86 0.17 0.01
12_G 66_I 0.85 0.16 0.01
22_S 70_H 0.85 0.16 0.01
2_M 29_F 0.85 0.16 0.01
2_M 63_L 0.85 0.16 0.01
55_W 64_Y 0.85 0.16 0.01
90_P 30_A 0.85 0.16 0.01
25_Q 75_I 0.85 0.16 0.01
79_G 16_H 0.85 0.16 0.01
91_R 44_P 0.85 0.16 0.01
87_F 47_R 0.84 0.16 0.01
68_A 74_V 0.84 0.16 0.01
57_A 80_H 0.84 0.16 0.01
9_T 78_V 0.84 0.16 0.01
13_K 73_V 0.84 0.16 0.01
68_A 53_F 0.84 0.16 0.01
52_T 45_L 0.84 0.15 0.01
78_Y 74_V 0.83 0.15 0.01
71_D 75_I 0.83 0.15 0.01
82_E 5_V 0.83 0.15 0.01
85_A 67_D 0.83 0.15 0.01
42_G 62_L 0.83 0.15 0.01
83_I 22_I 0.83 0.15 0.01
72_I 22_I 0.82 0.15 0.01
48_S 11_A 0.81 0.15 0.01
71_D 10_T 0.81 0.14 0.01
24_T 25_A 0.81 0.14 0.01
78_Y 73_V 0.81 0.14 0.01
34_G 13_R 0.80 0.14 0.01
55_W 68_D 0.80 0.14 0.01
40_L 31_F 0.80 0.14 0.01
73_A 8_T 0.80 0.14 0.01
3_R 63_L 0.79 0.14 0.01
86_E 12_R 0.79 0.14 0.01
68_A 7_F 0.79 0.14 0.01
Figure 5: The i (protein A) and j (protein B) are positions as given in the query sequences.

Scaled Score = raw_score/average(raw_scores)
Prob = P(contact | scaled_score, seq/len)
I_Prob = P(contact | scaled_score, seq/len, top_inter_score)
ID Seq/Len Name Options I_Prob Status
10440 0.58 3G50_ab Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.45 Done - Shared
0320 4.78 3G5O Δgene:(1, 20) A:(1E-04, 4) B:(1E-04, 4) msa: Jackhmmer (2014_03) 0.99 Done - Shared
0318 0.22 3G5O Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2014_03) Killed - Shared
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