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ID: 1474448741 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 475 (437)
Sequences: 453 (247.1)
Seq/Len: 1.037
Nf(neff/√len): 11.8

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: 1.037).

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
422_V452_S3.4351.00
422_V454_E3.1161.00
411_W457_A2.9181.00
224_A228_A2.9081.00
38_A135_L2.7021.00
187_R191_E2.4950.99
190_Y228_A2.3260.99
297_M309_M2.0240.96
448_A452_S2.0170.96
190_Y227_K1.9030.94
456_A460_E1.8880.94
271_T297_M1.8820.94
191_E414_A1.8730.93
137_D316_K1.8470.93
116_M144_Y1.7890.91
447_E450_K1.7640.90
190_Y231_E1.7630.90
152_P281_S1.7460.90
50_P97_Y1.6830.87
459_C466_K1.6810.87
145_V320_L1.6770.87
155_I365_T1.6440.86
35_D102_A1.6350.85
40_F57_V1.6270.85
170_L424_L1.6200.85
193_L236_K1.5680.82
412_G416_G1.5610.81
154_G217_R1.5590.81
256_F260_L1.5460.81
407_L413_N1.5460.81
426_A449_T1.5370.80
190_Y224_A1.5320.80
86_H100_Y1.5220.79
183_K220_F1.5120.78
404_G408_G1.5060.78
183_K216_D1.5010.78
419_A462_W1.4920.77
202_D217_R1.4900.77
458_A462_W1.4810.76
329_G378_A1.4790.76
422_V448_A1.4750.76
418_V454_E1.4630.75
291_L310_H1.4430.74
426_A448_A1.4330.73
227_K231_E1.4300.73
167_R198_D1.4180.72
194_R228_A1.3870.69
156_Q373_G1.3830.69
270_L274_F1.3720.68
150_G195_G1.3650.68
384_V419_A1.3650.68
295_R327_H1.3630.68
169_L375_L1.3630.68
281_S286_D1.3560.67
61_S176_P1.3550.67
375_L399_V1.3530.67
274_F297_M1.3320.65
189_V225_L1.3190.64
191_E194_R1.3180.64
36_I320_L1.3160.64
150_G319_R1.3080.63
450_K456_A1.3020.62
116_M120_I1.2980.62
216_D219_L1.2820.61
193_L225_L1.2820.61
116_M320_L1.2750.60
75_T78_D1.2680.59
234_E421_R1.2590.58
149_Q285_R1.2560.58
37_L102_A1.2540.58
145_V369_V1.2530.58
249_D252_K1.2440.57
224_A227_K1.2430.57
295_R329_G1.2430.57
115_N118_T1.2400.57
156_Q166_G1.2360.56
216_D460_E1.2340.56
114_T137_D1.2260.55
185_Y221_C1.2250.55
443_T446_R1.2240.55
66_W241_N1.2200.55
160_D165_Y1.2190.55
387_M407_L1.2100.54
62_S82_G1.2080.54
126_G295_R1.2030.53
66_W202_D1.1940.52
176_P186_G1.1920.52
160_D227_K1.1780.51
418_V446_R1.1780.51
216_D441_G1.1720.50
164_K252_K1.1710.50
39_A139_R1.1680.50
314_L323_G1.1680.50
268_D298_H1.1660.50
251_M254_A1.1660.50
173_T401_Q1.1610.49
381_G404_G1.1570.49
113_V399_V1.1530.49
409_H416_G1.1530.49
442_N448_A1.1500.48
154_G202_D1.1470.48
217_R324_D1.1460.48
209_Q212_M1.1450.48
169_L387_M1.1450.48
161_K425_E1.1440.48
109_E209_Q1.1420.48
173_T239_Y1.1340.47
292_H327_H1.1340.47
125_F295_R1.1330.47
156_Q160_D1.1270.46
367_S373_G1.1250.46
426_A442_N1.1250.46
177_K211_F1.1240.46
252_K259_E1.1220.46
37_L148_F1.1220.46
85_Y102_A1.1220.46
225_L263_P1.1170.45
62_S315_A1.1160.45
426_A452_S1.1160.45
150_G404_G1.1150.45
41_R136_E1.1110.45
319_R404_G1.1060.44
59_A221_C1.1060.44
171_G295_R1.1050.44
409_H412_G1.1050.44
264_I325_H1.1040.44
163_N200_T1.1020.44
266_M329_G1.1020.44
385_W463_K1.1000.44
267_H277_N1.0980.44
339_R460_E1.0960.43
154_G324_D1.0920.43
173_T379_S1.0910.43
143_A367_S1.0900.43
228_A243_T1.0830.42
146_K149_Q1.0830.42
440_E447_E1.0800.42
453_P457_A1.0790.42
109_E212_M1.0760.42
105_L141_P1.0760.42
421_R425_E1.0720.41
258_R413_N1.0710.41
442_N454_E1.0710.41
156_Q372_P1.0700.41
293_I323_G1.0670.41
56_A170_L1.0650.41
143_A220_F1.0640.40
152_P288_G1.0590.40
113_V210_P1.0590.40
136_E140_I1.0590.40
116_M140_I1.0580.40
157_V324_D1.0570.40
177_K292_H1.0550.40
295_R378_A1.0540.40
361_G456_A1.0530.39
258_R264_I1.0530.39
325_H399_V1.0510.39
43_S138_L1.0500.39
182_A212_M1.0470.39
159_R202_D1.0470.39
123_N333_G1.0460.39
172_C401_Q1.0450.39
227_K442_N1.0450.39
58_A65_T1.0410.38
142_V442_N1.0400.38
454_E460_E1.0390.38
224_A321_S1.0390.38
440_E460_E1.0380.38
176_P380_G1.0360.38
266_M378_A1.0360.38
141_P208_S1.0340.38
320_L371_T1.0330.38
266_M314_L1.0320.38
57_V133_L1.0310.37
257_A262_V1.0310.37
54_G387_M1.0280.37
442_N452_S1.0270.37
405_G409_H1.0250.37
205_N302_D1.0240.37
351_D358_R1.0230.37
292_H295_R1.0220.37
64_G104_P1.0210.37
155_I364_F1.0180.36
327_H383_H1.0170.36
62_S393_I1.0140.36
161_K259_E1.0130.36
426_A455_L1.0110.36
125_F378_A1.0110.36
77_L81_K1.0100.36
66_W243_T1.0050.35
126_G177_K1.0050.35
333_G380_G1.0050.35
169_L347_D1.0050.35
281_S342_T1.0050.35
442_N447_E1.0030.35
67_T408_G1.0010.35
281_S288_G1.0000.35
411_W421_R1.0000.35
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  
1wddA20.97681000.111Contact Map
4f0hA10.93681000.133Contact Map
3kdnA100.91161000.177Contact Map
2d69A40.89471000.189Contact Map
1ykwA20.83581000.213Contact Map
2qygA40.86951000.215Contact Map
3nwrA10.80421000.218Contact Map
2oemA20.84211000.218Contact Map
4nasA40.83581000.218Contact Map
2zviA40.83581000.218Contact 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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