GREMLIN.BAKERLAB.org
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Secondtry -force run

ID: 1504629414 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 995 (989)
Sequences: 727 (626.6)
Seq/Len: 0.735
Nf(neff/√len): 19.9

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: 0.735).

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
162_P179_V3.5361.00
348_V411_I2.8260.99
102_F111_R2.7900.99
349_L365_Y2.5830.99
60_V91_G2.4970.98
364_L403_G2.3870.98
924_L960_L2.3870.98
181_S373_E2.3640.98
258_V286_S2.3560.98
404_R412_E2.3520.98
927_V956_V2.3140.97
214_L256_N2.3060.97
117_Q167_Y2.2830.97
951_L954_A2.2760.97
214_L257_S2.2570.97
29_V54_V2.2360.96
184_A317_S2.1980.96
48_M87_T2.1790.96
202_D281_R2.1770.96
203_R228_A2.1760.96
286_S317_S2.1530.95
214_L319_W2.1360.95
951_L960_L2.1110.94
949_D954_A2.1000.94
60_V87_T2.0800.94
72_Q373_E2.0750.94
260_A288_D2.0630.94
187_N343_N2.0340.93
345_G367_T2.0300.93
256_N319_W2.0150.93
348_V403_G1.9540.91
208_A214_L1.9380.90
256_N259_P1.9280.90
353_M365_Y1.9280.90
72_Q161_L1.9040.89
165_I376_A1.8980.89
69_C97_A1.8930.89
31_Q35_N1.8690.88
930_E959_K1.8640.88
256_N286_S1.8620.88
321_N346_F1.8580.88
310_L319_W1.8480.87
207_L319_W1.8170.86
221_G319_W1.7920.85
378_D381_L1.7920.85
258_V310_L1.7910.85
256_N310_L1.7860.85
91_G95_A1.7850.85
262_M319_W1.7720.84
188_T214_L1.7690.84
221_G256_N1.7630.84
74_R100_V1.7560.84
208_A222_P1.7460.83
440_H863_F1.7420.83
208_A257_S1.7410.83
193_N217_Y1.7400.83
434_E448_V1.7380.83
257_S319_W1.7270.82
208_A261_L1.7260.82
286_S319_W1.7100.81
54_V57_A1.7020.81
214_L313_A1.6980.81
367_T396_L1.6950.81
939_R988_V1.6870.80
214_L258_V1.6850.80
313_A344_Q1.6800.80
214_L220_F1.6640.79
365_Y396_L1.6630.79
214_L320_S1.6610.79
51_E55_K1.6540.78
31_Q34_A1.6530.78
202_D253_T1.6520.78
208_A310_L1.6420.78
188_T319_W1.6320.77
306_Q324_I1.6180.76
214_L286_S1.6050.75
353_M371_L1.5960.75
188_T256_N1.5910.74
944_Y948_A1.5900.74
924_L956_V1.5840.74
188_T318_I1.5830.74
126_T129_I1.5730.73
207_L257_S1.5730.73
189_I208_A1.5710.73
286_S310_L1.5680.73
208_A288_D1.5640.73
927_V960_L1.5620.72
949_D953_M1.5550.72
208_A256_N1.5510.72
208_A319_W1.5470.71
214_L310_L1.5460.71
214_L261_L1.5430.71
188_T286_S1.5380.71
951_L986_P1.5350.71
214_L285_L1.5300.70
76_A167_Y1.5290.70
956_V982_M1.5270.70
953_M960_L1.5230.70
58_F94_L1.5230.70
311_G337_Y1.5230.70
256_N285_L1.5170.69
261_L319_W1.5130.69
29_V94_L1.5110.69
216_V319_W1.5070.69
750_G753_E1.5040.68
188_T261_L1.4930.67
209_Q256_N1.4920.67
192_I208_A1.4810.67
257_S261_L1.4780.66
286_S316_A1.4780.66
54_V94_L1.4750.66
76_A120_V1.4730.66
187_N366_I1.4690.66
313_A319_W1.4640.65
24_L185_A1.4590.65
699_Y703_D1.4570.65
202_D254_V1.4540.64
217_Y261_L1.4510.64
367_T371_L1.4500.64
960_L995_I1.4490.64
217_Y319_W1.4470.64
350_D354_R1.4470.64
951_L964_L1.4470.64
284_L310_L1.4330.63
214_L217_Y1.4310.63
259_P319_W1.4310.63
189_I214_L1.4310.63
180_I229_L1.4300.63
257_S313_A1.4290.62
192_I286_S1.4250.62
69_C75_V1.4210.62
86_V219_I1.4170.62
25_H57_A1.4140.61
84_H126_T1.4130.61
259_P294_L1.4110.61
73_D97_A1.4090.61
205_L232_P1.4060.61
188_T217_Y1.4050.61
258_V319_W1.4050.61
99_Y215_S1.4040.60
262_M285_L1.4020.60
221_G257_S1.4010.60
288_D413_F1.4010.60
217_Y256_N1.4000.60
928_W948_A1.3990.60
928_W988_V1.3980.60
98_V162_P1.3950.60
256_N261_L1.3920.59
191_D342_A1.3910.59
286_S313_A1.3880.59
389_H394_E1.3860.59
184_A371_L1.3840.59
192_I221_G1.3840.59
949_D960_L1.3830.59
257_S310_L1.3830.59
310_L313_A1.3750.58
675_L678_G1.3750.58
245_E249_E1.3720.58
222_P229_L1.3720.58
282_L308_V1.3710.58
207_L258_V1.3700.58
74_R165_I1.3690.58
192_I214_L1.3690.58
361_T414_L1.3680.57
917_L989_A1.3680.57
208_A285_L1.3660.57
349_L396_L1.3660.57
294_L319_W1.3650.57
255_W319_W1.3650.57
381_L385_R1.3650.57
285_L310_L1.3640.57
313_A337_Y1.3630.57
363_E398_R1.3610.57
680_G751_V1.3600.57
919_M922_E1.3580.57
234_A237_Q1.3570.57
206_G319_W1.3510.56
951_L995_I1.3500.56
208_A221_G1.3490.56
221_G313_A1.3480.56
309_S321_N1.3470.56
221_G318_I1.3460.56
162_P373_E1.3440.55
872_M890_K1.3410.55
77_I89_V1.3390.55
448_V461_G1.3370.55
316_A319_W1.3360.55
188_T192_I1.3350.55
309_S337_Y1.3300.54
192_I310_L1.3280.54
162_P181_S1.3270.54
439_K867_H1.3270.54
221_G310_L1.3260.54
209_Q319_W1.3250.54
216_V256_N1.3250.54
953_M984_N1.3250.54
203_R252_I1.3240.54
220_F262_M1.3230.54
208_A313_A1.3180.53
188_T317_S1.3160.53
259_P262_M1.3120.53
191_D319_W1.3090.52
191_D290_I1.3090.52
914_E939_R1.3060.52
942_S945_K1.3060.52
79_M124_L1.3050.52
948_A953_M1.3020.52
951_L979_L1.3020.52
257_S320_S1.3000.52
208_A258_V1.2990.52
951_L955_Q1.2990.52
262_M310_L1.2970.51
430_L448_V1.2970.51
259_P318_I1.2940.51
949_D979_L1.2910.51
220_F319_W1.2910.51
220_F258_V1.2890.51
207_L284_L1.2860.51
953_M979_L1.2790.50
207_L320_S1.2790.50
106_Q114_M1.2750.50
943_F948_A1.2720.49
188_T218_D1.2670.49
188_T257_S1.2640.49
206_G229_L1.2610.48
216_V286_S1.2610.48
192_I319_W1.2570.48
216_V220_F1.2550.48
191_D258_V1.2530.48
188_T207_L1.2510.48
318_I344_Q1.2510.48
31_Q371_L1.2500.47
258_V262_M1.2500.47
207_L217_Y1.2490.47
208_A237_Q1.2490.47
208_A290_I1.2490.47
437_L446_A1.2490.47
188_T320_S1.2470.47
188_T208_A1.2460.47
346_F364_L1.2450.47
206_G214_L1.2430.47
925_A988_V1.2420.47
313_A335_I1.2390.47
285_L319_W1.2370.46
954_A979_L1.2370.46
988_V991_L1.2340.46
874_P890_K1.2310.46
310_L318_I1.2290.46
309_S313_A1.2280.46
80_D126_T1.2270.46
447_G450_L1.2250.45
187_N319_W1.2240.45
206_G320_S1.2210.45
207_L318_I1.2210.45
191_D195_R1.2210.45
940_T989_A1.2190.45
205_L211_S1.2180.45
54_V58_F1.2150.44
113_A167_Y1.2140.44
257_S262_M1.2130.44
57_A91_G1.2130.44
39_P49_T1.2120.44
71_A161_L1.2110.44
43_D83_A1.2090.44
56_R84_H1.2050.44
206_G257_S1.2050.44
285_L290_I1.2020.43
113_A174_Q1.2020.43
27_Q186_A1.2020.43
256_N313_A1.2010.43
192_I256_N1.2000.43
216_V318_I1.1990.43
404_R893_R1.1980.43
438_L446_A1.1970.43
28_I32_A1.1930.43
295_P313_A1.1880.42
864_L873_L1.1880.42
15_T343_N1.1870.42
885_L891_I1.1850.42
29_V57_A1.1830.42
256_N318_I1.1830.42
206_G227_G1.1830.42
73_D121_R1.1810.42
196_F308_V1.1800.42
238_T261_L1.1800.42
255_W313_A1.1800.42
255_W258_V1.1780.41
207_L261_L1.1780.41
292_L332_W1.1770.41
28_I50_Y1.1760.41
285_L313_A1.1760.41
286_S311_G1.1760.41
166_I318_I1.1750.41
180_I317_S1.1740.41
192_I257_S1.1740.41
289_W319_W1.1730.41
187_N318_I1.1710.41
69_C73_D1.1670.40
191_D207_L1.1660.40
682_G703_D1.1650.40
921_E992_A1.1650.40
209_Q222_P1.1630.40
323_H336_P1.1630.40
353_M396_L1.1630.40
953_M956_V1.1590.40
27_Q190_A1.1590.40
222_P256_N1.1580.40
192_I217_Y1.1570.40
214_L255_W1.1570.40
685_T689_L1.1560.40
924_L927_V1.1560.40
192_I207_L1.1560.40
256_N295_P1.1530.39
92_A875_S1.1520.39
389_H396_L1.1500.39
743_F773_G1.1490.39
202_D227_G1.1480.39
42_F49_T1.1480.39
214_L337_Y1.1470.39
947_G950_S1.1460.39
191_D310_L1.1460.39
954_A958_G1.1450.39
125_T129_I1.1400.38
221_G288_D1.1370.38
185_A221_G1.1360.38
29_V58_F1.1350.38
188_T316_A1.1350.38
960_L979_L1.1350.38
184_A372_A1.1340.38
208_A344_Q1.1340.38
209_Q285_L1.1340.38
286_S344_Q1.1300.37
198_V254_V1.1300.37
206_G298_M1.1290.37
256_N290_I1.1290.37
205_L254_V1.1270.37
221_G262_M1.1270.37
75_V97_A1.1270.37
288_D311_G1.1260.37
365_Y390_H1.1250.37
189_I310_L1.1250.37
207_L256_N1.1240.37
423_I450_L1.1240.37
28_I90_L1.1240.37
220_F286_S1.1240.37
198_V227_G1.1230.37
203_R208_A1.1220.37
218_D337_Y1.1220.37
22_Y30_K1.1200.37
221_G227_G1.1200.37
207_L286_S1.1190.37
257_S285_L1.1180.37
204_V214_L1.1170.36
188_T221_G1.1160.36
229_L262_M1.1160.36
256_N262_M1.1160.36
214_L316_A1.1160.36
238_T310_L1.1140.36
217_Y257_S1.1140.36
220_F256_N1.1130.36
208_A217_Y1.1130.36
387_L396_L1.1120.36
357_P360_V1.1120.36
676_E699_Y1.1090.36
221_G308_V1.1080.36
925_A937_I1.1070.36
918_D922_E1.1060.36
207_L214_L1.1050.35
957_A982_M1.1050.35
207_L310_L1.1050.35
421_V430_L1.1040.35
462_V896_L1.1040.35
918_D939_R1.1030.35
255_W337_Y1.1020.35
13_N343_N1.1020.35
890_K896_L1.1020.35
215_S295_P1.1000.35
48_M162_P1.0980.35
347_R355_D1.0970.35
23_C26_E1.0950.35
217_Y288_D1.0940.35
257_S265_L1.0940.35
35_N38_R1.0940.35
166_I216_V1.0920.34
191_D222_P1.0920.34
256_N320_S1.0910.34
166_I211_S1.0910.34
189_I192_I1.0890.34
204_V258_V1.0870.34
104_I167_Y1.0870.34
204_V319_W1.0870.34
221_G344_Q1.0860.34
220_F294_L1.0850.34
2_P5_Q1.0830.34
987_T990_A1.0810.34
88_A124_L1.0810.34
321_N411_I1.0800.34
291_P319_W1.0790.33
230_V252_I1.0780.33
39_P47_H1.0780.33
371_L394_E1.0780.33
860_L864_L1.0760.33
218_D311_G1.0760.33
256_N294_L1.0760.33
884_P890_K1.0750.33
198_V202_D1.0750.33
413_F440_H1.0740.33
289_W311_G1.0730.33
214_L335_I1.0690.33
214_L344_Q1.0690.33
230_V246_L1.0690.33
99_Y216_V1.0680.33
117_Q378_D1.0670.33
211_S220_F1.0670.33
448_V459_L1.0660.33
79_M126_T1.0660.33
255_W311_G1.0650.32
321_N337_Y1.0640.32
214_L283_A1.0630.32
188_T310_L1.0630.32
88_A118_A1.0620.32
218_D316_A1.0620.32
433_I860_L1.0620.32
310_L316_A1.0610.32
224_S396_L1.0590.32
232_P236_R1.0590.32
247_M265_L1.0570.32
319_W344_Q1.0560.32
954_A960_L1.0560.32
261_L335_I1.0550.32
311_G344_Q1.0540.32
387_L449_V1.0530.32
214_L221_G1.0510.31
191_D217_Y1.0510.31
216_V259_P1.0510.31
114_M211_S1.0500.31
214_L289_W1.0500.31
404_R414_L1.0490.31
192_I318_I1.0480.31
311_G321_N1.0480.31
678_G682_G1.0460.31
204_V286_S1.0460.31
390_H396_L1.0440.31
318_I366_I1.0440.31
203_R310_L1.0430.31
917_L939_R1.0430.31
677_V703_D1.0430.31
676_E703_D1.0420.31
207_L232_P1.0400.31
189_I257_S1.0390.31
25_H32_A1.0390.31
255_W320_S1.0370.30
284_L319_W1.0370.30
791_Q794_M1.0360.30
462_V897_A1.0350.30
184_A262_M1.0340.30
438_L445_A1.0340.30
202_D239_D1.0340.30
214_L262_M1.0330.30
286_S337_Y1.0330.30
260_A289_W1.0310.30
871_Y890_K1.0300.30
750_G791_Q1.0300.30
85_Q210_L1.0290.30
298_M320_S1.0260.30
261_L298_M1.0250.30
295_P319_W1.0250.30
100_V118_A1.0240.29
289_W413_F1.0240.29
944_Y983_L1.0230.29
191_D208_A1.0220.29
920_L964_L1.0220.29
949_D986_P1.0220.29
188_T258_V1.0210.29
346_F366_I1.0200.29
949_D952_I1.0200.29
188_T220_F1.0190.29
210_L215_S1.0190.29
874_P892_D1.0180.29
308_V322_Y1.0170.29
319_W335_I1.0170.29
938_G941_Q1.0170.29
232_P243_W1.0170.29
285_L320_S1.0160.29
445_A928_W1.0140.29
207_L298_M1.0120.29
953_M986_P1.0120.29
236_R242_H1.0110.29
184_A210_L1.0100.28
261_L318_I1.0090.28
217_Y318_I1.0090.28
192_I220_F1.0090.28
221_G258_V1.0090.28
257_S308_V1.0080.28
737_G742_S1.0080.28
349_L355_D1.0070.28
928_W932_L1.0070.28
217_Y320_S1.0060.28
262_M316_A1.0060.28
95_A988_V1.0050.28
953_M964_L1.0050.28
202_D286_S1.0030.28
220_F259_P1.0030.28
221_G285_L1.0030.28
262_M291_P1.0020.28
217_Y308_V1.0020.28
365_Y417_E1.0010.28
216_V310_L1.0010.28
198_V217_Y1.0000.28
880_V938_G1.0000.28
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  
2vsqA10.5931000.429Contact Map
4dg8A10.49351000.457Contact Map
4iz6A20.58091000.5Contact Map
4r0mB20.5931000.512Contact Map
4d4iA101000.561Contact Map
1amuA20.50351000.568Contact Map
3tsyA10.48341000.591Contact Map
4gr5A40.4081000.612Contact Map
3wvnA20.37991000.613Contact Map
3vnrA10.48941000.614Contact 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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