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C7_1E-04

ID: 1501519967 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 481 (437)
Sequences: 1208 (832.7)
Seq/Len: 2.764
Nf(neff/√len): 39.8

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: 2.764).

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
321_R337_D4.4541.00
98_N101_A4.0741.00
30_D33_E3.9551.00
296_K299_D3.4131.00
308_V318_Y3.3881.00
204_G220_F3.1801.00
258_N261_L3.0441.00
89_E105_S3.0351.00
178_R181_E2.9151.00
55_R71_D2.8931.00
330_Q333_E2.7541.00
90_G106_F2.5771.00
287_R303_D2.5321.00
380_S383_E2.4351.00
332_E336_R2.3021.00
305_T321_R2.2801.00
64_R67_E2.2751.00
333_E336_R2.1591.00
318_Y337_D2.1161.00
73_Q89_E2.1111.00
144_D147_K2.0891.00
301_I328_T1.9120.99
74_Q77_R1.8850.99
332_E335_V1.8820.99
35_Y58_T1.8750.99
339_E358_Q1.8570.99
263_Y290_V1.8470.99
361_L364_S1.8130.99
93_H98_N1.7590.99
325_Y337_D1.7360.98
59_L67_E1.6730.98
54_N57_A1.6680.98
391_R394_M1.6660.98
76_V86_H1.6420.97
439_D442_E1.6390.97
33_E36_N1.6300.97
103_C107_Q1.6090.97
322_A338_Y1.6080.97
325_Y330_Q1.5850.97
86_H105_S1.5520.96
260_K294_L1.5470.96
270_L284_Y1.5330.96
212_C215_K1.5180.95
332_E361_L1.5140.95
39_T55_R1.5090.95
221_V225_R1.5060.95
361_L365_K1.5040.95
305_T337_D1.4770.94
291_N296_K1.4710.94
335_V354_L1.4710.94
39_T71_D1.4680.94
250_G286_N1.4670.94
306_N309_K1.4630.94
18_F37_Y1.4610.94
422_F426_S1.4570.94
224_L228_P1.4430.93
260_K264_E1.4400.93
266_Y286_N1.4310.93
222_Q225_R1.4280.93
367_K420_E1.4060.92
56_A72_A1.3910.92
322_A341_V1.3800.91
431_K435_D1.3730.91
298_D328_T1.3710.91
415_F419_G1.3650.91
267_T287_R1.3630.91
140_F168_L1.3620.91
216_A240_A1.3620.91
18_F40_K1.3480.90
433_R438_Q1.3480.90
291_N299_D1.3440.90
169_K173_L1.3350.89
251_N266_Y1.3300.89
106_F122_E1.3250.89
267_T303_D1.3230.89
325_Y333_E1.3220.89
391_R395_H1.3060.88
110_L119_A1.3060.88
170_A431_K1.3050.88
126_A130_M1.3020.88
174_A182_A1.3000.88
251_N286_N1.3000.88
360_E366_R1.2910.87
408_Q412_E1.2890.87
359_L363_K1.2640.86
204_G219_F1.2600.85
93_H101_A1.2600.85
319_L350_H1.2600.85
208_Y273_D1.2570.85
253_A265_L1.2560.85
263_Y291_N1.2500.85
340_K343_Q1.2480.85
263_Y294_L1.2450.84
385_K422_F1.2450.84
299_D302_E1.2450.84
289_T320_R1.2350.84
127_N131_E1.2270.83
388_Y396_H1.2150.82
215_K218_Q1.2120.82
360_E363_K1.2110.82
103_C130_M1.2100.82
247_K251_N1.2090.82
35_Y59_L1.2080.82
14_E18_F1.2050.82
392_A396_H1.2000.81
204_G223_A1.1860.80
412_E416_K1.1790.80
264_E268_E1.1660.79
119_A122_E1.1560.78
13_R17_T1.1510.77
288_G303_D1.1470.77
285_C314_Y1.1460.77
15_A44_M1.1440.77
21_Q25_Y1.1430.77
89_E93_H1.1430.77
336_R339_E1.1420.77
90_G109_A1.1390.76
152_M168_L1.1390.76
395_H418_V1.1260.75
21_Q24_A1.1230.75
170_A189_I1.1190.75
314_Y317_A1.1180.74
38_Y41_A1.1180.74
34_A38_Y1.1120.74
289_T316_K1.1100.74
372_I417_E1.1100.74
384_I388_Y1.1080.74
443_E446_N1.1070.73
432_T436_S1.1060.73
26_Y89_E1.1050.73
100_M130_M1.1050.73
93_H105_S1.1030.73
38_Y266_Y1.1020.73
162_C165_F1.1000.73
301_I324_C1.0960.72
422_F425_L1.0940.72
305_T309_K1.0930.72
216_A220_F1.0910.72
262_A266_Y1.0910.72
308_V317_A1.0870.71
339_E343_Q1.0870.71
401_S411_E1.0850.71
54_N286_N1.0840.71
72_A88_R1.0840.71
257_G293_K1.0810.71
286_N316_K1.0800.71
107_Q111_E1.0790.71
410_E414_K1.0750.70
249_D265_L1.0710.70
440_L443_E1.0660.69
134_K138_T1.0660.69
26_Y31_Y1.0650.69
376_D379_A1.0630.69
106_F300_A1.0610.69
171_E232_K1.0590.69
323_Q338_Y1.0570.68
292_S324_C1.0550.68
250_G262_A1.0540.68
427_D430_K1.0530.68
223_A233_A1.0530.68
15_A18_F1.0520.68
301_I305_T1.0500.68
38_Y72_A1.0470.67
194_S228_P1.0460.67
396_H399_R1.0450.67
342_Y354_L1.0450.67
75_S85_G1.0450.67
398_D415_F1.0440.67
395_H400_H1.0430.67
373_L418_V1.0420.67
409_K412_E1.0420.67
221_V237_C1.0410.67
16_E19_K1.0410.67
402_G412_E1.0370.66
113_D116_N1.0360.66
250_G266_Y1.0360.66
247_K286_N1.0350.66
353_L356_N1.0350.66
389_R398_D1.0320.66
35_Y62_L1.0300.66
294_L348_K1.0240.65
221_V249_D1.0210.65
193_D196_N1.0180.64
103_C127_N1.0170.64
375_V379_A1.0100.63
305_T325_Y1.0080.63
332_E364_S1.0080.63
385_K399_R1.0080.63
182_A206_C1.0070.63
396_H425_L1.0050.63
25_Y37_Y1.0040.63
136_A168_L1.0020.62
121_Q125_N1.0010.62
123_F130_M1.0000.62
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  
2y4tA30.8691000.431Contact Map
3iegA20.7381000.592Contact Map
1w3bA20.76091000.592Contact Map
4ui9C201000.616Contact Map
3fp2A10.72771000.625Contact Map
4ui9J101000.628Contact Map
2gw1A20.86491000.634Contact Map
2xpiA20.69441000.64Contact Map
4rg9A20.57171000.643Contact Map
4ui9X201000.646Contact 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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