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JULY30_eIF2B_human_delta 168-523

ID: 1501533709 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 356 (345)
Sequences: 1279 (741.8)
Seq/Len: 3.707
Nf(neff/√len): 39.9

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: 3.707).

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
164_D233_K3.0831.00
167_L231_V2.8851.00
180_Q212_A2.8191.00
236_L267_V2.7391.00
234_V260_A2.6001.00
253_T325_T2.2471.00
167_L256_L2.1821.00
178_I270_C2.0761.00
152_I270_C2.0641.00
246_S327_P1.9871.00
190_R217_S1.9831.00
201_E250_R1.9741.00
176_S208_S1.9631.00
172_S275_K1.8811.00
175_V179_L1.7940.99
165_V190_R1.7890.99
231_V234_V1.7540.99
167_L234_V1.7170.99
169_Y194_V1.7080.99
100_R109_A1.6940.99
236_L257_A1.6430.99
266_P331_D1.6380.99
165_V231_V1.5750.98
219_L227_V1.5740.98
190_R215_P1.5700.98
195_D221_I1.5440.98
240_A277_C1.5120.97
283_D288_N1.4970.97
164_D232_S1.4690.97
165_V232_S1.4530.96
193_V205_T1.4430.96
247_V330_V1.4400.96
247_V269_V1.4230.96
55_S239_H1.4140.96
241_L271_C1.4130.96
268_L332_L1.4120.96
167_L224_A1.4030.95
290_L318_L1.3750.95
9_K21_R1.3620.94
67_Q138_D1.3610.94
12_L18_Q1.3320.93
236_L269_V1.3270.93
193_V206_L1.3260.93
162_N188_R1.3250.93
198_P221_I1.3180.93
160_I189_F1.3170.93
170_G201_E1.3130.93
239_H250_R1.3080.93
47_Y106_M1.2980.92
44_G99_C1.2890.92
64_R67_Q1.2880.92
156_A178_I1.2870.92
258_L329_L1.2830.92
239_H322_Y1.2790.91
198_P202_G1.2770.91
58_R61_A1.2720.91
7_G24_S1.2680.91
23_N30_S1.2680.91
291_D321_V1.2640.91
343_S346_P1.2560.90
202_G206_L1.2460.90
169_Y256_L1.2440.90
84_D88_K1.2410.90
176_S205_T1.2370.89
296_L319_N1.2340.89
166_I192_V1.2330.89
107_H111_K1.2270.89
47_Y58_R1.2210.89
332_L339_M1.2180.89
58_R272_E1.2170.88
246_S324_V1.2160.88
8_S14_S1.2100.88
50_G53_S1.2090.88
156_A270_C1.2090.88
323_D333_V1.2020.88
9_K20_S1.1940.87
89_L110_I1.1920.87
160_I163_G1.1910.87
17_P20_S1.1890.87
220_L223_A1.1880.87
195_D198_P1.1770.86
276_F348_V1.1740.86
184_T330_V1.1710.86
7_G18_Q1.1700.86
162_N187_R1.1680.86
6_Y22_Q1.1650.85
170_G250_R1.1630.85
85_L130_K1.1630.85
294_D310_Q1.1600.85
198_P319_N1.1530.85
170_G249_S1.1490.84
236_L253_T1.1470.84
239_H249_S1.1260.83
160_I182_A1.1230.82
6_Y9_K1.1190.82
57_A61_A1.1170.82
86_V118_T1.1150.82
347_V350_R1.1120.82
40_M43_L1.1070.81
70_I133_L1.1050.81
93_M113_L1.1010.81
20_S23_N1.0980.80
93_M110_I1.0960.80
10_V21_R1.0950.80
46_Q51_L1.0940.80
32_P35_V1.0940.80
156_A325_T1.0930.80
90_K114_N1.0880.80
228_L234_V1.0860.79
238_A247_V1.0820.79
346_P350_R1.0810.79
63_L109_A1.0810.79
227_V318_L1.0800.79
283_D286_V1.0800.79
11_S21_R1.0790.79
261_R264_N1.0750.78
154_R158_Q1.0720.78
235_L268_L1.0690.78
22_Q25_L1.0690.78
19_Y30_S1.0680.78
11_S14_S1.0670.78
150_Q181_E1.0650.77
179_L189_F1.0640.77
21_R25_L1.0600.77
100_R336_E1.0550.77
197_R319_N1.0540.76
54_G104_A1.0540.76
43_L47_Y1.0490.76
116_E136_A1.0480.76
7_G33_S1.0470.76
170_G288_N1.0460.76
159_K341_P1.0450.76
257_A267_V1.0450.76
344_S347_V1.0450.76
198_P201_E1.0410.75
41_V95_F1.0400.75
195_D218_Y1.0400.75
20_S25_L1.0390.75
123_S214_V1.0390.75
237_G249_S1.0370.75
11_S31_I1.0350.75
8_S20_S1.0340.74
241_L247_V1.0340.74
182_A189_F1.0330.74
14_S23_N1.0310.74
206_L216_A1.0280.74
50_G58_R1.0270.74
187_R235_L1.0270.74
166_I210_V1.0240.73
295_D322_Y1.0240.73
287_S334_I1.0240.73
20_S30_S1.0210.73
8_S19_Y1.0210.73
160_I166_I1.0210.73
238_A331_D1.0110.72
262_A329_L1.0110.72
10_V18_Q1.0110.72
207_R211_H1.0100.72
10_V31_I1.0090.72
334_I339_M1.0070.72
164_D235_L1.0060.72
293_P317_L1.0050.71
306_L309_W1.0050.71
42_R46_Q1.0040.71
19_Y23_N1.0010.71
14_S21_R1.0010.71
341_P344_S1.0000.71
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  
3a11A60.88481000.219Contact Map
2yvkA40.9271000.246Contact Map
2a0uA20.95791000.251Contact Map
1t5oA40.91851000.255Contact Map
1t9kA40.91571000.262Contact Map
4ldrA20.93541000.263Contact Map
3ecsA80.83431000.31Contact Map
1vb5A20.76971000.366Contact Map
1w2wB40.47471000.509Contact Map
1w2wA40.599.80.777Contact 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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