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OPENSEQ.org
CBM48-Catalytic domain
Genes: A B A+B
Length: 79 285 358
Sequences: 6152 13048 120
Seq/Len: 77.87 45.78 0.34
MirrorTree (Pazo et al. 2001) 0.59
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 0.15 0.15 0.13
2 0.17 0.18 0.19
5 0.21 0.23 0.27
10 0.23 0.25 0.29
20 0.24 0.26 0.33
100 0.27 0.29 0.51
∞ 0.32 0.32 0.86
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
22_V 32_S 1.69 0.58 0.00
63_Y 42_M 1.46 0.42 0.00
76_D 110_G 1.40 0.38 0.00
1_L 33_L 1.35 0.35 0.00
32_G 26_F 1.25 0.29 0.00
17_P 95_I 1.24 0.28 0.00
78_Y 194_G 1.23 0.28 0.00
24_V 31_L 1.22 0.27 0.00
16_A 175_L 1.21 0.27 0.00
7_K 141_Y 1.19 0.25 0.00
60_Y 36_D 1.13 0.23 0.00
2_G 271_G 1.12 0.22 0.00
77_P 110_G 1.10 0.21 0.00
40_M 257_A 1.08 0.20 0.00
49_E 34_H 1.07 0.20 0.00
39_P 21_T 1.07 0.20 0.00
63_Y 36_D 1.06 0.19 0.00
66_T 202_I 1.05 0.19 0.00
9_A 41_N 1.05 0.19 0.00
30_A 174_N 1.04 0.18 0.00
2_G 102_W 1.03 0.18 0.00
65_V 99_L 1.03 0.18 0.00
79_A 131_L 1.03 0.18 0.00
41_T 5_N 1.03 0.18 0.00
45_H 275_L 1.02 0.18 0.00
79_A 91_V 1.02 0.18 0.00
63_Y 56_D 1.02 0.17 0.00
47_V 149_T 1.02 0.17 0.00
13_K 272_E 1.01 0.17 0.00
65_V 97_D 1.00 0.17 0.00
61_Y 172_N 0.98 0.16 0.00
29_S 175_L 0.97 0.16 0.00
30_A 240_N 0.97 0.16 0.00
79_A 226_S 0.96 0.15 0.00
65_V 135_D 0.94 0.15 0.00
36_K 38_I 0.93 0.14 0.00
38_V 32_S 0.93 0.14 0.00
68_Q 245_E 0.93 0.14 0.00
38_V 224_V 0.92 0.14 0.00
63_Y 126_K 0.92 0.14 0.00
17_P 136_P 0.92 0.14 0.00
24_V 275_L 0.92 0.14 0.00
11_T 33_L 0.91 0.14 0.00
24_V 102_W 0.91 0.14 0.00
21_Q 169_A 0.91 0.14 0.00
52_V 206_V 0.91 0.14 0.00
38_V 105_E 0.91 0.14 0.00
41_T 232_L 0.91 0.14 0.00
2_G 27_K 0.90 0.13 0.00
23_N 232_L 0.90 0.13 0.00
77_P 112_R 0.89 0.13 0.00
55_D 37_H 0.89 0.13 0.00
62_M 229_N 0.88 0.13 0.00
52_V 39_G 0.88 0.13 0.00
63_Y 266_P 0.87 0.12 0.00
47_V 144_P 0.87 0.12 0.00
75_V 193_T 0.86 0.12 0.00
37_T 274_M 0.86 0.12 0.00
30_A 14_A 0.86 0.12 0.00
50_A 7_N 0.85 0.12 0.00
16_A 24_K 0.85 0.12 0.00
43_S 108_V 0.85 0.12 0.00
28_N 260_M 0.85 0.12 0.00
46_G 72_G 0.85 0.12 0.00
2_G 112_R 0.85 0.12 0.00
77_P 145_W 0.85 0.12 0.00
39_P 36_D 0.85 0.12 0.00
13_K 223_Y 0.85 0.12 0.00
4_T 194_G 0.84 0.12 0.00
79_A 40_V 0.84 0.12 0.00
79_A 274_M 0.84 0.12 0.00
30_A 136_P 0.84 0.12 0.00
22_V 275_L 0.84 0.12 0.00
38_V 25_E 0.84 0.12 0.00
21_Q 257_A 0.84 0.12 0.00
33_A 40_V 0.84 0.11 0.00
28_N 130_Q 0.83 0.11 0.00
17_P 24_K 0.83 0.11 0.00
12_F 260_M 0.83 0.11 0.00
46_G 212_D 0.83 0.11 0.00
77_P 271_G 0.83 0.11 0.00
21_Q 6_Y 0.83 0.11 0.00
15_W 271_G 0.82 0.11 0.00
24_V 101_F 0.82 0.11 0.00
13_K 259_V 0.82 0.11 0.00
14_V 261_T 0.82 0.11 0.00
58_N 45_V 0.82 0.11 0.00
40_M 51_A 0.81 0.11 0.00
49_E 235_K 0.81 0.11 0.00
47_V 93_K 0.81 0.11 0.00
53_N 100_K 0.81 0.11 0.00
49_E 65_Y 0.81 0.11 0.00
16_A 76_N 0.81 0.11 0.00
26_L 221_I 0.81 0.11 0.00
44_G 141_Y 0.81 0.11 0.00
39_P 38_I 0.81 0.11 0.00
69_G 57_F 0.81 0.11 0.00
15_W 102_W 0.81 0.11 0.00
78_Y 64_Y 0.81 0.11 0.00
61_Y 109_D 0.81 0.11 0.00
27_Y 189_Q 0.81 0.11 0.00
2_G 273_E 0.81 0.11 0.00
61_Y 110_G 0.80 0.10 0.00
35_T 77_G 0.80 0.10 0.00
9_A 40_V 0.80 0.10 0.00
1_L 263_Q 0.80 0.10 0.00
67_G 257_A 0.80 0.10 0.00
29_S 138_I 0.80 0.10 0.00
23_N 201_A 0.80 0.10 0.00
61_Y 119_L 0.80 0.10 0.00
16_A 43_D 0.79 0.10 0.00
20_T 37_H 0.79 0.10 0.00
22_V 112_R 0.79 0.10 0.00
26_L 274_M 0.79 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
8045 0.01 CBM48-Catalytic domain e 1020 Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
8044 0.34 CBM48-Catalytic domain Δgene:(1, 20) A:(1E-06, 4) B:(1E-06, 4) msa: HHblits (2015_06) 0.00 Done - Shared
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