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iqgap1-1346-1657

ID: 1501022615 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 312 (307)
Sequences: 461 (261.1)
Seq/Len: 1.502
Nf(neff/√len): 14.9

Jackhmmer Results: (2016_04)
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: 1.502).

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
131_N135_E2.7141.00
40_L139_D2.6041.00
29_D32_A2.1620.99
226_K247_I1.9370.97
43_T117_G1.9350.97
51_I62_I1.8660.97
281_Q299_N1.8650.97
134_Q138_N1.8010.96
297_N300_L1.7290.94
87_A90_P1.7240.94
25_D30_E1.6670.93
122_T129_P1.6140.91
281_Q301_L1.5880.90
91_D94_K1.4640.84
227_G300_L1.4460.83
266_Q272_L1.4390.83
131_N177_E1.4240.82
299_N303_F1.4150.81
231_E295_K1.4020.81
16_V24_F1.4000.80
115_Q118_L1.3980.80
214_I250_T1.3970.80
229_L274_Y1.3920.80
228_V304_L1.3690.78
87_A93_M1.3620.78
53_F58_T1.3590.78
54_Q59_L1.3530.77
295_K299_N1.3330.76
90_P93_M1.3300.76
168_L308_K1.3210.75
16_V131_N1.3170.75
179_V306_N1.3050.74
84_I88_K1.2890.72
275_Q306_N1.2820.72
52_R114_I1.2770.71
199_V202_K1.2760.71
72_E134_Q1.2740.71
22_N219_T1.2720.71
110_K175_Y1.2710.71
247_I305_L1.2700.71
300_L303_F1.2680.71
230_L239_Q1.2610.70
295_K300_L1.2610.70
151_R231_E1.2570.70
174_F178_Q1.2570.70
301_L308_K1.2570.70
101_E229_L1.2520.69
109_E252_E1.2400.68
50_V62_I1.2340.68
203_P211_S1.2230.66
178_Q254_G1.2090.65
80_Q195_S1.1990.64
80_Q83_A1.1920.64
12_A24_F1.1910.63
217_K246_E1.1850.63
250_T274_Y1.1820.63
56_G62_I1.1810.63
294_A300_L1.1800.62
180_D184_S1.1750.62
232_I240_F1.1740.62
178_Q182_Y1.1690.61
185_Y254_G1.1680.61
258_V262_F1.1660.61
264_G284_G1.1660.61
189_C302_I1.1540.60
58_T132_K1.1530.60
107_L114_I1.1500.59
143_D154_R1.1500.59
87_A91_D1.1490.59
176_G295_K1.1480.59
154_R168_L1.1450.59
45_R54_Q1.1440.59
154_R308_K1.1360.58
218_Y295_K1.1350.58
54_Q145_R1.1350.58
50_V61_E1.1340.58
62_I144_I1.1320.58
63_L256_F1.1310.58
118_L132_K1.1300.57
16_V69_S1.1250.57
218_Y308_K1.1220.57
141_A144_I1.1200.56
157_E243_V1.1170.56
230_L294_A1.1170.56
178_Q279_Q1.1160.56
302_I306_N1.1160.56
52_R140_I1.1140.56
178_Q185_Y1.1130.56
22_N118_L1.1120.56
65_T71_Q1.1100.55
279_Q300_L1.1090.55
131_N240_F1.1090.55
209_K247_I1.1040.55
156_A180_D1.1040.55
125_G186_I1.1030.55
79_M83_A1.1030.55
228_V287_V1.1010.55
133_Y140_I1.0990.54
260_A265_V1.0980.54
207_K225_E1.0970.54
204_R211_S1.0950.54
36_A229_L1.0920.54
179_V183_K1.0890.53
199_V208_G1.0880.53
63_L152_Q1.0860.53
258_V284_G1.0860.53
246_E275_Q1.0840.53
141_A158_L1.0830.53
284_G304_L1.0830.53
245_F275_Q1.0830.53
201_K219_T1.0810.52
151_R178_Q1.0790.52
84_I305_L1.0730.52
153_R228_V1.0710.51
51_I54_Q1.0700.51
154_R220_A1.0700.51
247_I261_K1.0680.51
87_A94_K1.0670.51
73_A90_P1.0650.51
6_P9_E1.0640.51
178_Q236_Q1.0620.50
235_L261_K1.0610.50
47_I135_E1.0610.50
167_A243_V1.0590.50
88_K94_K1.0580.50
199_V211_S1.0540.50
173_T176_G1.0540.50
31_N124_L1.0510.49
143_D171_K1.0510.49
164_T228_V1.0500.49
143_D182_Y1.0490.49
59_L111_K1.0490.49
161_L189_C1.0470.49
235_L268_E1.0470.49
105_L109_E1.0440.49
54_Q111_K1.0440.49
187_K305_L1.0420.48
71_Q225_E1.0390.48
98_S136_L1.0390.48
88_K128_D1.0350.48
55_P75_H1.0350.48
50_V114_I1.0330.47
53_F140_I1.0290.47
89_T174_F1.0270.47
110_K304_L1.0250.47
283_E301_L1.0250.47
86_D92_K1.0250.47
32_A130_K1.0210.46
79_M105_L1.0210.46
157_E302_I1.0210.46
144_I171_K1.0160.46
177_E306_N1.0140.46
188_T263_M1.0090.45
199_V203_P1.0080.45
90_P156_A1.0070.45
81_R86_D1.0060.45
134_Q310_Y1.0050.45
81_R85_R1.0040.45
204_R207_K1.0030.44
45_R138_N1.0030.44
243_V282_Y1.0030.44
278_L306_N1.0020.44
175_Y216_L1.0010.44
179_V275_Q1.0000.44
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  
3isuA10.32691000.619Contact Map
1x0hA10.33971000.622Contact Map
3iezA20.30451000.644Contact Map
3j61U10.2308230.966Contact Map
3mtuE20.205119.80.967Contact Map
3htkA10.1923120.97Contact Map
3k2iA20.30779.80.972Contact Map
3okqA10.27247.10.973Contact Map
4bwdA30.18916.20.974Contact Map
4aj5A100.27565.60.975Contact 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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