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T0830

ID: 1403641432 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 575 (538)
Sequences: 662 (503.3)
Seq/Len: 1.230
Nf(neff/√len): 21.7

HHblits Results: (2013_03)
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: 1.230).

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
126_A355_I3.2651.00
207_G211_P2.6921.00
126_A138_T2.6281.00
197_G243_I2.3740.99
105_W109_L2.3580.99
62_I82_Y2.2440.99
61_E64_R2.2190.99
200_I240_M2.0190.97
271_Y334_F1.9690.97
121_V167_C1.9680.97
327_W352_A1.9430.96
199_A207_G1.9190.96
193_W236_G1.8480.95
85_K203_K1.8180.94
53_G489_T1.7740.93
126_A135_A1.7660.93
84_E266_E1.7550.92
142_L148_W1.7070.91
88_F202_T1.6980.91
85_K158_D1.6940.91
103_G106_Q1.6750.90
82_Y266_E1.6570.89
194_A239_V1.6330.88
46_L112_A1.6220.88
67_F98_E1.6120.88
467_A490_L1.5880.86
158_D203_K1.5780.86
82_Y336_S1.5470.84
117_L163_G1.5420.84
55_D342_L1.5260.83
555_V558_R1.5140.83
96_G100_F1.4860.81
203_K345_Y1.4670.80
134_A358_G1.4660.80
251_V342_L1.4540.79
90_M246_P1.4500.79
136_A422_A1.4490.79
71_D254_R1.4490.79
169_L323_M1.4390.78
164_V198_V1.4200.77
138_T358_G1.4080.76
271_Y338_S1.4080.76
53_G340_S1.3940.75
262_F266_E1.3930.75
86_P158_D1.3920.75
340_S488_H1.3890.75
74_T251_V1.3840.74
142_L207_G1.3830.74
308_R313_G1.3810.74
115_G152_A1.3780.74
161_L206_V1.3760.74
56_E247_W1.3750.73
203_K270_R1.3740.73
56_E341_K1.3690.73
152_A159_M1.3680.73
82_Y488_H1.3670.73
92_V245_V1.3650.73
196_M211_P1.3580.72
195_A198_V1.3560.72
226_G329_I1.3560.72
89_H93_T1.3450.71
96_G106_Q1.3350.70
55_D58_R1.3260.70
126_A129_W1.3170.69
205_L267_H1.3160.69
82_Y157_L1.3100.68
58_R77_Y1.3060.68
135_A138_T1.3050.68
196_M509_F1.3050.68
74_T83_F1.3010.67
109_L284_Y1.3000.67
280_G284_Y1.2800.66
77_Y488_H1.2780.65
56_E86_P1.2780.65
88_F198_V1.2740.65
85_K270_R1.2730.65
83_F264_I1.2710.65
104_E493_Y1.2680.65
113_L430_R1.2610.64
49_R53_G1.2600.64
82_Y340_S1.2600.64
246_P342_L1.2560.63
43_F116_L1.2550.63
158_D341_K1.2510.63
63_S93_T1.2510.63
122_S449_V1.2400.62
53_G110_A1.2350.62
127_R135_A1.2340.61
118_G148_W1.2330.61
558_R563_V1.2310.61
84_E262_F1.2270.61
42_W153_H1.2250.61
83_F342_L1.2250.61
89_H157_L1.2240.61
54_P344_G1.2210.60
226_G230_R1.2210.60
63_S94_V1.2200.60
85_K204_G1.2200.60
122_S142_L1.2180.60
462_S493_Y1.2140.60
556_V561_R1.2130.59
49_R340_S1.2110.59
215_L219_T1.2100.59
90_M157_L1.2090.59
144_A296_W1.2070.59
61_E65_E1.2070.59
211_P334_F1.2050.59
375_G384_L1.2040.59
218_Y493_Y1.2040.59
33_L36_A1.2020.58
75_I270_R1.2010.58
141_A357_A1.2000.58
251_V258_F1.1940.58
283_F341_K1.1930.58
158_D345_Y1.1880.57
47_D104_E1.1790.56
51_L336_S1.1790.56
77_Y82_Y1.1760.56
92_V160_T1.1750.56
54_P488_H1.1740.56
217_V330_A1.1740.56
151_A156_T1.1730.56
156_T266_E1.1720.56
55_D157_L1.1620.55
542_D547_L1.1610.54
281_S341_K1.1610.54
142_L240_M1.1590.54
121_V285_F1.1520.54
96_G109_L1.1520.54
72_W210_L1.1510.54
125_A173_L1.1490.53
58_R84_E1.1480.53
51_L493_Y1.1470.53
59_Y82_Y1.1460.53
158_D204_G1.1450.53
85_K345_Y1.1430.53
62_I266_E1.1410.53
138_T197_G1.1400.52
262_F267_H1.1340.52
140_L361_L1.1340.52
221_V322_L1.1320.52
54_P276_H1.1320.52
554_Y567_N1.1320.52
129_W324_A1.1300.51
156_T344_G1.1290.51
86_P345_Y1.1290.51
119_I139_G1.1280.51
74_T255_N1.1170.50
58_R348_P1.1160.50
210_L350_I1.1160.50
75_I90_M1.1150.50
82_Y267_H1.1130.50
57_G288_L1.1120.50
264_I340_S1.1110.50
344_G488_H1.1100.49
54_P157_L1.1080.49
278_R281_S1.1070.49
276_H340_S1.1070.49
542_D545_L1.1050.49
53_G153_H1.1040.49
293_F446_G1.1010.49
382_C471_A1.1010.49
62_I488_H1.1000.49
122_S126_A1.0970.48
58_R340_S1.0970.48
54_P82_Y1.0940.48
174_M197_G1.0930.48
114_S160_T1.0930.48
285_F341_K1.0920.48
189_M193_W1.0910.48
47_D112_A1.0910.48
61_E327_W1.0880.47
157_L344_G1.0860.47
130_F199_A1.0860.47
248_F267_H1.0840.47
288_L292_G1.0830.47
266_E270_R1.0820.47
248_F340_S1.0820.47
536_M543_T1.0790.46
56_E158_D1.0790.46
262_F335_F1.0770.46
157_L266_E1.0770.46
340_S489_T1.0760.46
84_E331_I1.0760.46
193_W483_V1.0750.46
300_F477_E1.0740.46
123_M127_R1.0720.46
270_R338_S1.0720.46
278_R340_S1.0710.46
328_A353_L1.0700.46
270_R334_F1.0680.45
121_V188_W1.0670.45
366_P382_C1.0660.45
342_L346_I1.0650.45
90_M262_F1.0650.45
160_T164_V1.0630.45
127_R133_R1.0620.45
97_Y107_A1.0620.45
541_P558_R1.0610.45
542_D558_R1.0610.45
201_L247_W1.0600.45
309_A426_L1.0600.45
54_P58_R1.0570.44
56_E285_F1.0570.44
554_Y557_A1.0550.44
171_F188_W1.0540.44
108_R201_L1.0540.44
387_S490_L1.0500.44
545_L549_P1.0490.44
118_G329_I1.0490.44
75_I247_W1.0490.44
508_T512_T1.0480.43
270_R336_S1.0480.43
515_P520_P1.0450.43
113_L167_C1.0430.43
261_F267_H1.0410.43
49_R153_H1.0400.43
533_Q548_A1.0400.43
41_V466_I1.0370.42
60_A85_K1.0340.42
202_T208_I1.0340.42
123_M139_G1.0310.42
60_A97_Y1.0300.42
540_S543_T1.0300.42
322_L326_I1.0290.42
528_L531_N1.0280.42
88_F197_G1.0280.42
557_A563_V1.0280.42
172_M188_W1.0280.42
90_M348_P1.0260.41
301_P308_R1.0260.41
523_D545_L1.0260.41
541_P567_N1.0250.41
152_A354_G1.0250.41
86_P341_K1.0250.41
151_A344_G1.0240.41
55_D343_P1.0220.41
78_N82_Y1.0210.41
126_A358_G1.0210.41
535_A567_N1.0190.41
66_M71_D1.0190.41
97_Y343_P1.0190.41
381_A408_V1.0180.41
352_A356_L1.0180.41
51_L346_I1.0180.41
54_P156_T1.0180.41
155_N278_R1.0150.40
77_Y278_R1.0150.40
299_I350_I1.0140.40
521_D531_N1.0140.40
261_F285_F1.0140.40
242_V363_R1.0130.40
266_E344_G1.0130.40
556_V563_V1.0100.40
86_P203_K1.0090.40
289_V332_F1.0090.40
85_K266_E1.0090.40
82_Y205_L1.0070.40
83_F262_F1.0070.40
72_W94_V1.0060.39
66_M91_W1.0050.39
247_W348_P1.0040.39
62_I84_E1.0040.39
545_L568_V1.0040.39
248_F262_F1.0000.39
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: (21Jun14)
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  
3wajA10.83831000.805Contact Map
3rceA10.810499.90.829Contact Map
4p02A10.415732.80.978Contact Map
2ycbA20.19314.70.981Contact Map
2xr1A20.173913.70.981Contact Map
3vgpA10.19138.80.983Contact Map
3af5A10.18968.70.983Contact Map
3dh4A40.08357.30.983Contact Map
3vu1A20.19835.20.985Contact Map
3s9zA10.18614.70.985Contact 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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