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OPENSEQ.org
DRD1_GNAI3
Genes: A B A+B
Length: 446 354 742
Sequences: 629 2583 91
Seq/Len: 1.41 7.3 0.12
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 0.06 0.01 0.00
2 0.07 0.01 0.00
5 0.08 0.01 0.00
10 0.08 0.01 0.01
20 0.09 0.01 0.02
100 0.11 0.01 0.05
∞ 0.14 0.02 0.11
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
125_I 54_K 1.29 0.16 0.00
32_L 21_R 1.17 0.13 0.00
384_E 283_L 1.12 0.12 0.00
117_I 21_R 1.05 0.10 0.00
157_I 17_K 1.01 0.10 0.00
269_K 105_R 0.99 0.09 0.00
75_V 24_R 0.94 0.08 0.00
62_F 146_Y 0.94 0.08 0.00
331_Y 156_L 0.92 0.08 0.00
294_I 157_N 0.92 0.08 0.00
331_Y 55_I 0.91 0.08 0.00
319_F 150_D 0.91 0.08 0.00
200_V 56_I 0.90 0.08 0.00
160_Q 136_V 0.90 0.08 0.00
125_I 36_L 0.89 0.08 0.00
213_T 246_S 0.89 0.07 0.00
33_L 61_Y 0.88 0.07 0.00
140_A 163_S 0.88 0.07 0.00
296_P 333_Q 0.88 0.07 0.00
98_I 127_I 0.88 0.07 0.00
278_M 278_I 0.87 0.07 0.00
264_F 162_I 0.87 0.07 0.00
345_L 334_F 0.86 0.07 0.00
276_V 77_T 0.85 0.07 0.00
325_S 162_I 0.85 0.07 0.00
121_R 21_R 0.84 0.07 0.00
381_I 159_L 0.84 0.07 0.00
212_V 184_I 0.83 0.07 0.00
56_S 275_E 0.83 0.07 0.00
271_L 73_V 0.83 0.07 0.00
215_T 264_I 0.83 0.07 0.00
331_Y 278_I 0.82 0.07 0.00
152_V 155_Y 0.82 0.07 0.00
101_A 73_V 0.82 0.07 0.00
66_L 331_N 0.82 0.07 0.00
375_H 226_A 0.81 0.07 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
6274 0.12 DRD1_GNAI3 Δgene:(1, ∞) A:(1E-02, 8) B:(1E-02, 8) msa: Jackhmmer (2016_06b) 0.00 Done - Shared
6273 0.18 DRD1_GNAI3 Δgene:(1, ∞) A:(1E-20, 8) B:(1E-80, 8) msa: Jackhmmer (2016_06b) 0.00 Done - Shared
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