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T0801

ID: 1401910739 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 376 (374)
Sequences: 1913 (1492.2)
Seq/Len: 5.115
Nf(neff/√len): 77.2

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: 5.115).

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
113_E144_K3.4051.00
267_A368_I3.3381.00
136_D162_K3.1921.00
265_Y293_F3.1661.00
40_L191_A3.0171.00
11_G15_D2.8031.00
43_R251_D2.7261.00
39_W244_W2.6401.00
263_N365_R2.6091.00
134_E137_T2.5111.00
53_P57_A2.4991.00
139_M149_V2.4931.00
19_S32_F2.4421.00
112_I138_I2.4301.00
123_I142_A2.4011.00
160_T165_A2.3991.00
263_N364_Q2.2691.00
313_A373_N2.2691.00
192_T203_A2.2621.00
43_R165_A2.2251.00
345_K349_R2.2011.00
171_H196_D2.1981.00
256_Q259_A2.1971.00
48_K197_K2.1461.00
13_E245_A2.1231.00
32_F244_W2.1231.00
139_M143_K2.1231.00
47_A195_N2.1161.00
268_L371_L2.1151.00
185_A243_L2.0811.00
73_E120_T2.0661.00
60_E233_Y2.0621.00
58_S174_C2.0511.00
306_L371_L2.0301.00
296_K349_R1.9961.00
110_T137_T1.9911.00
127_H135_M1.9691.00
98_V115_A1.9681.00
140_A144_K1.9281.00
256_Q361_P1.9271.00
111_L114_A1.9231.00
117_T120_T1.8491.00
35_R39_W1.8391.00
142_A149_V1.8381.00
360_S363_N1.8321.00
236_S239_Q1.8321.00
12_T248_E1.8321.00
138_I149_V1.8281.00
366_T370_T1.8111.00
18_Q22_G1.8051.00
270_P372_L1.8041.00
197_K201_E1.7981.00
80_T324_L1.7951.00
39_W248_E1.7901.00
47_A197_K1.7841.00
313_A370_T1.7781.00
109_E141_L1.7701.00
194_I200_I1.7471.00
14_L18_Q1.7111.00
306_L374_Y1.6961.00
136_D161_Y1.6901.00
73_E119_K1.6780.99
108_D111_L1.6570.99
66_L148_F1.6370.99
309_F374_Y1.6270.99
107_I112_I1.6260.99
127_H170_G1.6260.99
72_D121_R1.6180.99
306_L351_L1.6030.99
143_K171_H1.5920.99
116_I141_L1.5800.99
364_Q368_I1.5720.99
16_Y245_A1.5550.99
38_Q42_Q1.5490.99
310_L317_A1.5480.99
309_F312_E1.5280.99
49_V191_A1.5280.99
14_L22_G1.5260.99
73_E117_T1.5220.99
41_E49_V1.4950.99
132_A166_L1.4860.98
11_G22_G1.4850.98
101_R104_T1.4850.98
32_F35_R1.4850.98
68_I122_V1.4750.98
125_P149_V1.4690.98
156_G166_L1.4630.98
200_I204_E1.4430.98
256_Q260_L1.4350.98
175_F193_L1.4130.98
68_I74_V1.4060.98
196_D199_L1.4030.98
262_Q266_D1.3950.97
100_V346_E1.3890.97
142_A147_L1.3890.97
10_V249_A1.3880.97
267_A372_L1.3870.97
249_A252_R1.3840.97
326_G344_T1.3820.97
111_L115_A1.3770.97
16_Y248_E1.3710.97
68_I93_A1.3700.97
35_R244_W1.3690.97
259_A361_P1.3490.97
10_V13_E1.3430.97
297_L306_L1.3410.97
302_D305_A1.3380.96
365_R369_A1.3310.96
267_A365_R1.3270.96
76_M88_F1.3240.96
127_H151_E1.3200.96
141_L145_H1.3170.96
78_S343_T1.3160.96
86_N330_G1.3140.96
258_L287_V1.3120.96
105_M346_E1.3020.96
235_M240_A1.3010.96
182_N291_H1.3010.96
160_T287_V1.2950.96
255_Q259_A1.2930.95
137_T140_A1.2900.95
307_I317_A1.2900.95
36_C243_L1.2870.95
62_A150_V1.2830.95
48_K200_I1.2730.95
66_L150_V1.2730.95
41_E44_F1.2690.95
177_F191_A1.2610.95
135_M149_V1.2600.95
50_L200_I1.2500.94
308_N312_E1.2470.94
84_T87_A1.2450.94
263_N361_P1.2380.94
169_I173_G1.2300.94
338_G344_T1.2270.94
49_V193_L1.2180.93
295_I371_L1.2160.93
245_A248_E1.2150.93
260_L355_L1.1960.92
113_E141_L1.1930.92
222_D226_W1.1910.92
65_L203_A1.1740.91
16_Y20_A1.1640.91
123_I147_L1.1630.91
73_E94_K1.1590.91
102_P342_Y1.1580.91
277_I295_I1.1540.90
78_S325_H1.1400.90
88_F95_I1.1390.90
73_E116_I1.1320.89
148_F171_H1.1310.89
116_I123_I1.1290.89
13_E246_Q1.1230.89
291_H320_H1.1160.88
263_N267_A1.1100.88
54_S57_A1.1030.88
309_F313_A1.1010.87
77_P88_F1.1010.87
122_V150_V1.0990.87
66_L172_I1.0960.87
55_C58_S1.0960.87
25_K237_D1.0960.87
279_L293_F1.0950.87
125_P142_A1.0890.87
140_A143_K1.0760.86
58_S192_T1.0740.86
359_L367_V1.0720.86
63_A124_V1.0710.85
313_A366_T1.0710.85
172_I203_A1.0700.85
172_I199_L1.0680.85
306_L310_L1.0610.85
113_E137_T1.0540.84
139_M169_I1.0440.83
40_L157_V1.0420.83
20_A32_F1.0350.83
75_I112_I1.0350.83
170_G173_G1.0320.82
60_E90_L1.0300.82
15_D19_S1.0250.82
26_L237_D1.0200.81
72_D93_A1.0190.81
98_V111_L1.0150.81
263_N368_I1.0080.80
75_I120_T1.0030.80
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: (29May14)
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  
2c81A10.97871000.519Contact Map
3b8xA20.97071000.527Contact Map
3bb8A20.97871000.529Contact Map
1b9hA10.97071000.538Contact Map
3frkA20.95211000.541Contact Map
1o69A20.93091000.566Contact Map
4lc3A20.97071000.567Contact Map
1mdoA10.96011000.575Contact Map
3dr4A40.96811000.582Contact Map
3nytA10.93881000.582Contact 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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