GREMLIN.BAKERLAB.org
Powered by OPENSEQ.org
1B6C_AB

Genes: A B A+B
Length: 107 342 402
Sequences: 5387 15656 187
Seq/Len: 50.35 45.78 0.47
MirrorTree (Pazo et al. 2001) 0.20
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 0.10 0.07 0.03
2 0.10 0.08 0.06
5 0.11 0.09 0.12
10 0.11 0.11 0.24
20 0.11 0.12 0.42
100 0.12 0.16 1.21
0.21 0.22 2.68
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
62_G 327_I 1.28 0.38 0.00
17_K 87_I 1.20 0.32 0.00
95_A 51_G 1.02 0.22 0.00
49_M 328_K 1.02 0.22 0.00
38_S 151_G 1.02 0.22 0.00
100_D 154_H 1.00 0.21 0.00
19_G 309_I 0.99 0.20 0.00
32_D 178_I 0.97 0.19 0.00
22_C 56_G 0.96 0.19 0.00
62_G 180_V 0.95 0.18 0.00
73_K 194_A 0.95 0.18 0.00
61_E 245_L 0.95 0.18 0.00
81_A 99_L 0.94 0.18 0.00
69_G 190_D 0.92 0.17 0.00
69_G 194_A 0.92 0.17 0.00
34_K 144_L 0.91 0.17 0.00
100_D 182_K 0.90 0.16 0.00
19_G 156_H 0.89 0.16 0.00
57_R 126_S 0.89 0.16 0.00
25_H 194_A 0.88 0.15 0.00
93_P 47_Q 0.88 0.15 0.00
82_Y 71_K 0.86 0.15 0.00
82_Y 84_E 0.86 0.15 0.00
81_A 119_S 0.85 0.14 0.00
58_G 178_I 0.85 0.14 0.00
8_S 99_L 0.84 0.14 0.00
32_D 118_V 0.83 0.14 0.00
75_T 223_L 0.83 0.13 0.00
69_G 121_Y 0.83 0.13 0.00
63_V 86_E 0.82 0.13 0.00
67_S 250_I 0.82 0.13 0.00
7_I 136_V 0.82 0.13 0.00
78_P 136_V 0.81 0.13 0.00
49_M 312_E 0.81 0.13 0.00
77_S 251_A 0.81 0.13 0.00
24_V 251_A 0.81 0.13 0.00
105_K 60_R 0.80 0.12 0.00
35_K 310_M 0.80 0.12 0.00
95_A 119_S 0.79 0.12 0.00
81_A 48_E 0.79 0.12 0.00
7_I 55_F 0.79 0.12 0.00
84_A 70_V 0.79 0.12 0.00
92_P 155_L 0.79 0.12 0.00
81_A 168_I 0.79 0.12 0.00
24_V 86_E 0.79 0.12 0.00
24_V 327_I 0.79 0.12 0.00
89_G 118_V 0.78 0.12 0.00
62_G 330_T 0.78 0.12 0.00
80_Y 100_G 0.78 0.12 0.00
78_P 101_F 0.77 0.12 0.00
21_T 54_R 0.77 0.12 0.00
53_Q 148_T 0.76 0.11 0.00
32_D 50_I 0.76 0.11 0.00
98_V 166_P 0.76 0.11 0.00
104_L 250_I 0.76 0.11 0.00
98_V 283_V 0.76 0.11 0.00
59_W 145_A 0.76 0.11 0.00
22_C 58_V 0.75 0.11 0.00
105_K 318_G 0.75 0.11 0.00
39_S 266_P 0.75 0.11 0.00
86_G 195_V 0.74 0.11 0.00
93_P 61_G 0.74 0.11 0.00
22_C 50_I 0.74 0.11 0.00
74_L 327_I 0.74 0.11 0.00
84_A 250_I 0.74 0.10 0.00
58_G 85_A 0.73 0.10 0.00
99_F 298_Q 0.73 0.10 0.00
38_S 249_E 0.73 0.10 0.00
70_Q 155_L 0.73 0.10 0.00
42_R 309_I 0.73 0.10 0.00
103_L 306_M 0.72 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
7395 0.47 1B6C_AB Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.00 Done - Shared
0296 1.79 1B6C Complex Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2013_03) 0.00 Done - Shared
0295 0.21 1B6C Complex Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2013_03) Killed - Shared

Page generated in 0.0297 seconds.