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OPENSEQ.org
a8a9_heterodimer
Genes: A B A+B
Length: 93 93 154
Sequences: 2502 4905 56
Seq/Len: 26.9 52.74 0.36
MirrorTree (Pazo et al. 2001) 0.06
Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.

[Show Jackhmmer results] - Maybe useful in deciding what regions to trim.
Δgene Ratio of paralogs Joined
A B Seq/Len
1 0.10 0.13 0.05
2 0.11 0.13 0.05
5 0.11 0.14 0.07
10 0.11 0.14 0.09
20 0.12 0.14 0.13
100 0.14 0.17 0.30
∞ 0.17 0.20 0.67
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
66_V 84_A 1.35 0.36 0.00
11_S 37_F 1.33 0.35 0.00
26_F 75_S 1.31 0.34 0.00
45_Y 71_D 1.28 0.32 0.00
47_R 33_N 1.18 0.26 0.00
63_D 27_G 1.10 0.22 0.00
30_Y 42_R 1.10 0.22 0.00
68_F 76_F 1.10 0.22 0.00
66_V 53_N 1.09 0.21 0.00
46_I 38_K 1.08 0.21 0.00
70_E 19_F 1.08 0.21 0.00
63_D 12_I 1.05 0.20 0.00
64_G 79_F 1.04 0.19 0.00
84_K 80_I 1.02 0.19 0.00
84_K 22_Y 1.01 0.18 0.00
69_Q 12_I 1.01 0.18 0.00
38_L 33_N 1.00 0.17 0.00
79_G 8_L 0.99 0.17 0.00
47_R 13_E 0.98 0.17 0.00
61_N 61_H 0.97 0.17 0.00
26_F 55_N 0.97 0.16 0.00
46_I 32_L 0.96 0.16 0.00
8_A 23_S 0.96 0.16 0.00
38_L 63_M 0.96 0.16 0.00
47_R 38_K 0.96 0.16 0.00
7_K 41_V 0.94 0.15 0.00
69_Q 55_N 0.94 0.15 0.00
6_E 74_L 0.93 0.15 0.00
38_L 67_D 0.93 0.15 0.00
37_L 31_T 0.92 0.14 0.00
15_V 29_P 0.92 0.14 0.00
53_V 74_L 0.92 0.14 0.00
69_Q 11_N 0.92 0.14 0.00
84_K 15_I 0.91 0.14 0.00
20_S 19_F 0.91 0.14 0.00
67_N 11_N 0.91 0.14 0.00
33_D 49_L 0.90 0.14 0.00
30_Y 56_E 0.90 0.14 0.00
52_D 74_L 0.89 0.13 0.00
71_F 74_L 0.89 0.13 0.00
66_V 73_Q 0.88 0.13 0.00
25_N 82_L 0.88 0.13 0.00
77_K 41_V 0.88 0.13 0.00
70_E 31_T 0.86 0.13 0.00
33_D 23_S 0.86 0.12 0.00
24_G 57_K 0.86 0.12 0.00
67_N 63_M 0.85 0.12 0.00
16_Y 30_D 0.85 0.12 0.00
27_H 35_G 0.84 0.12 0.00
32_D 82_L 0.84 0.12 0.00
83_H 69_N 0.84 0.12 0.00
50_G 15_I 0.84 0.12 0.00
13_I 74_L 0.84 0.12 0.00
19_Y 48_F 0.84 0.12 0.00
65_A 57_K 0.84 0.12 0.00
57_E 63_M 0.84 0.12 0.00
50_G 53_N 0.82 0.11 0.00
83_H 70_A 0.81 0.11 0.00
62_T 18_T 0.81 0.11 0.00
33_D 35_G 0.81 0.11 0.00
39_E 60_E 0.81 0.11 0.00
67_N 45_L 0.80 0.11 0.00
34_L 19_F 0.80 0.11 0.00
51_A 72_K 0.79 0.10 0.00
15_V 28_H 0.79 0.10 0.00
9_L 27_G 0.79 0.10 0.00
42_C 58_V 0.78 0.10 0.00
61_N 80_I 0.78 0.10 0.00
55_F 28_H 0.78 0.10 0.00
43_P 41_V 0.77 0.10 0.00
81_A 80_I 0.77 0.10 0.00
71_F 79_F 0.77 0.10 0.00
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
10373 0.36 a8a9_heterodimer Δgene:(1, 100) A:(1E-10, 8) B:(1E-10, 8) msa: Jackhmmer (r132) 0.00 Done - Shared
8326 0.07 a8a9_heterodimer (B, 1-93) Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (r132) Killed - Shared
8325 0.01 a8a9_heterodimer (B, 1-93) Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
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