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galectin 8

ID: 1501849233 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 316 (303)
Sequences: 500 (350.7)
Seq/Len: 1.650
Nf(neff/√len): 20.1

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: 1.650).

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
242_S289_Y3.6591.00
113_F134_I3.4431.00
63_F115_V3.1651.00
49_L106_I2.5081.00
64_H68_R2.4481.00
79_T125_Y2.3701.00
77_C123_L2.2370.99
47_V104_I2.2330.99
10_I14_P2.1460.99
11_I14_P2.1340.99
227_L279_V2.1100.99
228_H232_R2.1000.99
22_I25_Q2.0560.99
32_I49_L2.0190.99
48_D64_H1.9420.98
210_A262_P1.8740.97
116_A121_H1.8650.97
75_I122_T1.8540.97
64_H76_V1.7860.96
62_A66_N1.7470.95
232_R251_E1.7280.95
44_R70_K1.7090.95
22_I32_I1.6870.94
241_N248_W1.6590.93
184_L308_I1.6320.93
232_R241_N1.5860.91
228_H241_N1.5520.90
204_G266_F1.5430.90
212_S234_N1.5300.89
240_R252_E1.4850.87
62_A67_P1.4790.87
240_R258_F1.4740.87
200_V217_L1.4520.86
235_I253_R1.4430.85
252_E259_P1.4390.85
68_R90_I1.4320.85
63_F77_C1.4050.83
107_M116_A1.4010.83
232_R253_R1.3940.82
64_H228_H1.3930.82
49_L63_F1.3770.81
271_Y280_A1.3710.81
216_D303_E1.3540.80
29_G36_G1.3520.80
71_R90_I1.3520.80
145_I299_I1.3440.79
213_F231_P1.3430.79
217_L270_I1.3400.79
78_N85_W1.3370.79
280_A288_E1.3280.78
310_L313_V1.3140.77
139_I145_I1.3020.76
226_A277_F1.2990.76
45_F60_D1.2930.75
285_H288_E1.2930.75
68_R76_V1.2670.73
258_F280_A1.2550.72
63_F96_F1.2530.72
216_D228_H1.2490.72
266_F282_N1.2460.71
258_F267_E1.2440.71
277_F299_I1.2250.69
270_I277_F1.2250.69
89_E251_E1.2220.69
228_H231_P1.2180.69
229_L286_S1.2160.69
85_W102_F1.2160.69
66_N76_V1.2120.68
77_C94_T1.2110.68
260_F281_V1.2060.68
232_R249_G1.2030.67
206_V286_S1.2000.67
118_N313_V1.1920.66
148_I300_D1.1920.66
76_V253_R1.1810.65
17_P29_G1.1790.65
202_V310_L1.1670.64
69_F98_R1.1650.64
86_G102_F1.1630.64
106_I202_V1.1590.63
104_I117_V1.1580.63
204_G248_W1.1470.62
52_G59_A1.1370.61
11_I18_Y1.1360.61
96_F241_N1.1360.61
13_N147_S1.1340.61
16_I22_I1.1330.61
47_V106_I1.1320.61
241_N251_E1.1310.60
241_N249_G1.1290.60
143_V211_K1.1270.60
26_L32_I1.1210.59
113_F270_I1.1200.59
202_V313_V1.1150.59
17_P36_G1.1140.59
125_Y128_R1.1130.59
200_V315_S1.1130.59
232_R239_V1.1120.59
216_D263_G1.1120.59
17_P22_I1.1100.58
277_F291_H1.1090.58
179_T182_L1.1090.58
212_S232_R1.1000.57
302_L307_D1.1000.57
66_N78_N1.0930.57
30_T233_L1.0870.56
249_G292_R1.0830.55
211_K304_I1.0810.55
194_M272_C1.0780.55
76_V251_E1.0760.55
45_F213_F1.0740.55
34_I191_N1.0690.54
90_I253_R1.0680.54
85_W89_E1.0660.54
76_V239_V1.0570.53
157_Q161_A1.0560.53
239_V253_R1.0540.52
139_I143_V1.0500.52
228_H251_E1.0460.52
88_E102_F1.0460.52
86_G125_Y1.0450.51
64_H251_E1.0440.51
171_R178_G1.0430.51
31_L105_V1.0380.51
65_F68_R1.0380.51
225_I232_R1.0380.51
112_K124_L1.0370.51
229_L270_I1.0290.50
63_F130_G1.0270.50
238_F286_S1.0270.50
87_R304_I1.0260.49
225_I230_N1.0170.49
89_E252_E1.0160.48
69_F283_G1.0110.48
214_N231_P1.0090.48
65_F117_V1.0060.47
46_Q122_T1.0050.47
47_V139_I1.0040.47
77_C122_T1.0040.47
279_V287_L1.0020.47
206_V308_I1.0000.47
68_R78_N1.0000.47
117_V122_T1.0000.47
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  
3vklA20.91461000.123Contact Map
3wv6A201000.141Contact Map
4hl0A20.87661000.169Contact Map
2wsuA40.91461000.175Contact Map
2d6mA20.47471000.538Contact Map
3ap9A10.47781000.538Contact Map
2zhnA10.45571000.552Contact Map
3i8tA10.4431000.561Contact Map
4xbqA201000.564Contact Map
4ym3A401000.571Contact 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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