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syx munc18

Genes: A B A+B
Length: 288 594 864
Sequences: 1274 1324 200
Seq/Len: 4.42 2.23 0.23
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 0.04 0.04 0.00
2 0.04 0.04 0.00
5 0.04 0.04 0.00
10 0.04 0.05 0.00
20 0.04 0.05 0.01
100 0.10 0.10 0.05
0.13 0.13 0.23
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
216_F 480_P 1.65 0.44 0.00
271_C 201_L 1.46 0.33 0.00
197_T 61_I 1.21 0.21 0.00
78_L 176_I 1.20 0.20 0.00
39_E 232_I 1.15 0.18 0.00
123_L 144_V 1.14 0.18 0.00
130_V 104_V 1.13 0.18 0.00
237_V 74_V 1.12 0.17 0.00
250_D 176_I 1.11 0.17 0.00
271_C 19_I 1.09 0.16 0.00
223_V 230_L 1.08 0.16 0.00
212_L 570_T 1.08 0.16 0.00
197_T 553_A 1.07 0.15 0.00
250_D 248_T 1.07 0.15 0.00
68_D 350_L 1.06 0.15 0.00
223_V 331_L 1.06 0.15 0.00
247_A 219_M 1.03 0.14 0.00
74_E 443_M 1.03 0.14 0.00
216_F 443_M 1.03 0.14 0.00
230_I 61_I 1.03 0.14 0.00
251_T 249_F 1.02 0.14 0.00
146_K 545_V 1.00 0.13 0.00
46_K 565_V 0.98 0.13 0.00
50_N 189_V 0.98 0.13 0.00
212_L 540_F 0.97 0.13 0.00
241_V 413_F 0.97 0.12 0.00
32_E 486_M 0.97 0.12 0.00
238_E 267_E 0.96 0.12 0.00
230_I 176_I 0.96 0.12 0.00
247_A 399_V 0.95 0.12 0.00
82_I 394_L 0.95 0.12 0.00
9_R 423_L 0.95 0.12 0.00
230_I 58_V 0.93 0.12 0.00
82_I 390_I 0.93 0.11 0.00
244_V 253_S 0.92 0.11 0.00
136_A 323_T 0.92 0.11 0.00
271_C 482_I 0.92 0.11 0.00
60_A 559_A 0.92 0.11 0.00
205_L 238_D 0.91 0.11 0.00
260_K 243_V 0.91 0.11 0.00
270_I 259_I 0.91 0.11 0.00
212_L 257_L 0.91 0.11 0.00
133_E 74_V 0.91 0.11 0.00
198_R 480_P 0.91 0.11 0.00
272_C 567_I 0.90 0.11 0.00
54_V 202_A 0.90 0.11 0.00
226_Q 480_P 0.90 0.11 0.00
208_S 582_L 0.90 0.11 0.00
238_E 538_I 0.90 0.11 0.00
45_D 179_L 0.90 0.11 0.00
127_F 234_D 0.89 0.11 0.00
205_L 84_V 0.89 0.10 0.00
223_V 235_R 0.89 0.10 0.00
98_Q 156_F 0.89 0.10 0.00
223_V 492_D 0.88 0.10 0.00
98_Q 140_Y 0.88 0.10 0.00
60_A 539_I 0.88 0.10 0.00
270_I 497_K 0.88 0.10 0.00
233_I 285_D 0.87 0.10 0.00
179_S 558_Q 0.87 0.10 0.00
195_I 558_Q 0.87 0.10 0.00
211_E 169_L 0.87 0.10 0.00
221_M 305_R 0.87 0.10 0.00
211_E 286_D 0.86 0.10 0.00
205_L 312_S 0.86 0.10 0.00
48_A 559_A 0.86 0.10 0.00
223_V 550_M 0.86 0.10 0.00
172_G 256_L 0.86 0.10 0.00
52_E 179_L 0.86 0.10 0.00
223_V 539_I 0.85 0.10 0.00
241_V 502_I 0.85 0.10 0.00
74_E 488_D 0.85 0.10 0.00
236_N 285_D 0.85 0.10 0.00
55_K 565_V 0.85 0.10 0.00
51_V 539_I 0.85 0.10 0.00
81_D 453_D 0.85 0.10 0.00
226_Q 234_D 0.85 0.10 0.00
140_D 104_V 0.84 0.10 0.00
219_M 142_S 0.84 0.09 0.00
226_Q 235_R 0.84 0.09 0.00
221_M 579_L 0.84 0.09 0.00
251_T 347_H 0.84 0.09 0.00
87_N 33_V 0.83 0.09 0.00
44_I 146_S 0.83 0.09 0.00
200_S 580_D 0.83 0.09 0.00
201_E 286_D 0.83 0.09 0.00
200_S 486_M 0.83 0.09 0.00
42_G 189_V 0.83 0.09 0.00
108_R 230_L 0.83 0.09 0.00
216_F 333_K 0.82 0.09 0.00
150_Q 538_I 0.82 0.09 0.00
161_T 41_L 0.82 0.09 0.00
243_Y 76_L 0.82 0.09 0.00
269_I 229_Q 0.82 0.09 0.00
268_I 542_L 0.82 0.09 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
7276 0.23 syx munc18 Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.00 Done - Shared
7275 0.01 human Δgene:(1, ∞) A:(1E-80, 8) B:(1E-80, 8) msa: HHblits (2015_06) Killed - Shared
7272 0.01 syx munc18 Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared

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