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ID: 1502207942 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 457 (378)
Sequences: 19236 (10453)
Seq/Len: 50.889
Nf(neff/√len): 537.6

HHblits Results: (2016_02)
Sequences per length for each position, BEFORE the coverage/gap filter was applied

Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 50.889).

Sequences per length for each position, AFTER the coverage/gap filter was applied
Legend: If visible, the positions blocked in grey are regions that have > 75% gaps and were automatically trimmed and excluded in the GREMLIN analysis.

Trim query Generate MSA using: Filter MSA GREMLIN
Start: End: E-value: Iterations: Coverage: Remove gaps: Prior:

GREMLIN Results:
Residue pairs sorted by coevolution strength:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.

ij Scaled score Prob
58_G91_L4.7141.00
61_L74_A4.1241.00
11_P63_Q3.8691.00
37_I181_L3.6971.00
78_C87_V3.6291.00
128_A133_L3.3881.00
41_K203_L3.0721.00
29_V45_V3.0301.00
285_V289_N3.0041.00
286_R291_S2.8041.00
20_E97_F2.7301.00
88_A92_R2.5251.00
269_L292_A2.5191.00
248_C254_C2.4721.00
136_H141_T2.4591.00
88_A103_I2.4471.00
312_L342_I2.3881.00
329_I341_A2.3841.00
138_Q169_D2.3471.00
12_P16_T2.3271.00
90_E93_R2.3211.00
23_Y55_A2.2341.00
251_K274_D2.2261.00
318_L343_S2.2121.00
88_A105_T2.1451.00
5_S19_N2.1261.00
309_S337_N2.1241.00
104_L123_P2.0761.00
61_L151_V2.0761.00
217_E340_L2.0671.00
282_Q286_R2.0301.00
73_Q148_N2.0231.00
258_C270_S2.0181.00
168_D197_R1.9931.00
218_Q325_H1.9901.00
61_L149_T1.9871.00
248_C257_V1.9821.00
3_A6_T1.9711.00
64_Q149_T1.9601.00
164_S168_D1.9571.00
233_Q264_V1.9521.00
113_G117_D1.9511.00
157_R160_D1.9471.00
21_L93_R1.9441.00
150_L171_I1.9371.00
17_N97_F1.9251.00
134_L169_D1.9211.00
192_A204_A1.9081.00
20_E96_R1.8881.00
258_C268_A1.8771.00
255_Q270_S1.8741.00
315_N343_S1.8251.00
218_Q329_I1.8171.00
269_L286_R1.8031.00
267_S293_R1.7961.00
71_Q146_A1.7921.00
216_I333_A1.7861.00
73_Q124_H1.7741.00
219_Q340_L1.7661.00
248_C296_V1.7641.00
14_Q63_Q1.7331.00
75_L147_L1.7251.00
253_D317_E1.7191.00
36_A203_L1.6961.00
64_Q148_N1.6931.00
45_V183_F1.6851.00
215_P338_S1.6791.00
77_L133_L1.6591.00
254_C270_S1.6571.00
91_L103_I1.6501.00
36_A39_A1.6371.00
16_T97_F1.6351.00
85_D281_D1.6251.00
261_L296_V1.6131.00
192_A196_G1.6121.00
229_I260_A1.5931.00
246_V294_V1.5711.00
10_L59_L1.5701.00
7_L10_L1.5621.00
244_C314_V1.5281.00
243_S309_S1.5271.00
137_L173_F1.5241.00
37_I43_V1.5241.00
254_C272_H1.5121.00
301_A305_L1.5101.00
91_L125_I1.5031.00
258_C262_N1.4821.00
89_G93_R1.4181.00
18_L23_Y1.4151.00
63_Q67_A1.4040.99
269_L283_T1.4010.99
4_F26_M1.3960.99
134_L166_A1.3840.99
57_F87_V1.3810.99
297_A301_A1.3800.99
266_Q294_V1.3790.99
38_L63_Q1.3660.99
9_V15_L1.3630.99
16_T19_N1.3500.99
144_L147_L1.3420.99
319_A325_H1.3400.99
217_E338_S1.3290.99
135_D139_K1.3270.99
16_T20_E1.3260.99
281_D285_V1.3220.99
315_N329_I1.3070.99
40_G179_Q1.3060.99
78_C84_A1.3060.99
84_A105_T1.2960.99
28_P32_A1.2920.99
235_L342_I1.2910.99
111_P114_M1.2890.99
219_Q367_Q1.2830.99
134_L138_Q1.2810.99
42_D200_R1.2790.99
321_D324_V1.2760.99
228_K317_E1.2760.99
286_R292_A1.2740.99
76_V91_L1.2680.99
357_S363_K1.2680.99
77_L128_A1.2660.99
104_L118_S1.2490.99
112_F139_K1.2480.99
287_F295_L1.2440.98
241_P244_C1.2430.98
46_Q206_E1.2370.98
242_S311_E1.2190.98
74_A149_T1.2050.98
116_R136_H1.2020.98
3_A25_T1.1990.98
169_D173_F1.1950.98
2_T6_T1.1920.98
275_L283_T1.1810.98
68_S148_N1.1790.98
312_L340_L1.1790.98
19_N24_L1.1780.98
3_A26_M1.1730.98
166_A169_D1.1620.97
189_E193_A1.1590.97
244_C294_V1.1570.97
112_F116_R1.1560.97
276_E279_D1.1550.97
117_D120_Q1.1500.97
62_L95_A1.1450.97
91_L127_V1.1240.97
117_D121_H1.1240.97
315_N341_A1.1180.96
25_T31_A1.1180.96
116_R141_T1.1170.96
40_G64_Q1.1150.96
72_T126_I1.1090.96
4_F7_L1.1060.96
255_Q272_H1.0990.96
65_I74_A1.0970.96
102_K124_H1.0960.96
250_T253_D1.0960.96
123_P126_I1.0950.96
283_T292_A1.0920.96
224_S227_G1.0860.96
89_G92_R1.0830.96
128_A142_V1.0800.95
5_S15_L1.0700.95
115_Q136_H1.0680.95
36_A43_V1.0640.95
213_L216_I1.0610.95
18_L59_L1.0550.95
253_D256_A1.0540.95
14_Q59_L1.0490.94
104_L126_I1.0490.94
243_S290_G1.0440.94
55_A94_L1.0420.94
13_A16_T1.0400.94
57_F78_C1.0390.94
41_K201_D1.0330.94
284_L307_I1.0310.94
2_T31_A1.0270.94
74_A125_I1.0150.93
318_L356_I1.0100.93
233_Q237_S1.0080.93
64_Q179_Q1.0040.93
36_A205_I1.0030.93
277_Q281_D1.0020.92
Legend: Only predictions with Scaled Score > 1 are listed. For all 3L/2 predictions, click on one of the links below.
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
NEW Features
HHsearch Results: (06Aug15)
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
PDB M Cov P(%) HHΔ  
3sqwA10.96721000.335Contact Map
4pxaA10.81841000.337Contact Map
3i5xA10.97161000.338Contact Map
2db3A40.80741000.345Contact Map
3fmpB20.44641000.35Contact Map
4nhoA10.80311000.361Contact Map
4ljyA10.84461000.361Contact Map
4d25A10.80961000.363Contact Map
4w7sA20.85121000.366Contact Map
4c9bA10.81181000.367Contact Map
M = number of chains, if homo-oligomer
Cov = coverage of hit
P(%) = probability

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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