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JULY30_eIF2B_human_beta

ID: 1501460548 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 351 (334)
Sequences: 1558 (910.5)
Seq/Len: 4.665
Nf(neff/√len): 49.8

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: 4.665).

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
234_I265_L3.7611.00
163_E231_K3.1921.00
179_K210_A2.9881.00
166_M229_V2.9391.00
188_H215_T2.8721.00
177_F268_C2.7501.00
166_M254_L2.6801.00
251_T316_V2.4341.00
232_V258_A2.3611.00
244_A315_Y2.1781.00
168_I192_A2.1751.00
164_V230_N2.1091.00
174_V178_L2.0881.00
175_E206_N2.0731.00
164_V229_V2.0611.00
171_S273_K2.0321.00
193_E219_D1.9771.00
244_A318_P1.8651.00
155_A177_F1.8541.00
166_M232_V1.8531.00
238_T275_S1.8031.00
151_I268_C1.7841.00
204_A214_T1.7781.00
217_M225_V1.7741.00
181_A187_F1.7401.00
164_V188_H1.7271.00
234_I251_T1.7100.99
196_P219_D1.7070.99
256_L320_L1.7020.99
56_E60_L1.6840.99
239_I269_A1.6790.99
199_Q248_V1.6670.99
168_I254_L1.6600.99
193_E196_P1.6190.99
175_E203_M1.6120.99
266_I323_L1.5730.99
195_A310_C1.5560.99
234_I255_A1.5500.99
193_E216_V1.5460.99
264_P322_T1.5270.98
155_A268_C1.5120.98
315_Y318_P1.5010.98
229_V232_V1.4770.98
31_S237_K1.4740.98
53_N56_E1.4510.98
163_E230_N1.4490.98
339_L342_E1.4290.97
159_I165_I1.4270.97
252_H317_P1.4150.97
245_L267_V1.4090.97
161_S186_K1.4010.97
274_L339_L1.3910.97
289_V312_V1.3820.97
234_I267_V1.3790.97
337_Y341_S1.3740.97
13_E16_E1.3610.96
149_E153_A1.3450.96
187_F212_I1.3440.96
219_D311_P1.3350.96
245_L321_I1.3240.95
226_M232_V1.3200.95
294_V304_E1.3190.95
334_S337_Y1.3100.95
43_R138_N1.2990.95
61_I82_V1.2770.94
335_Y338_R1.2740.94
40_G43_R1.2720.94
204_A208_S1.2700.94
15_I20_E1.2600.94
65_G82_V1.2540.93
288_F309_H1.2490.93
191_V204_A1.2440.93
338_R341_S1.2430.93
205_V209_K1.2390.93
152_A180_E1.2320.93
23_K78_V1.2310.93
165_I190_I1.2270.92
58_M90_R1.2250.92
226_M229_V1.2190.92
202_E205_V1.2140.92
167_T339_L1.2140.92
216_V219_D1.2040.91
13_E17_S1.2000.91
182_A212_I1.1900.91
45_I64_E1.1840.91
170_F175_E1.1810.90
281_E286_H1.1750.90
259_K262_S1.1720.90
189_V214_T1.1690.90
222_I226_M1.1680.90
26_G29_R1.1640.90
237_K247_A1.1630.89
110_H114_T1.1540.89
190_I229_V1.1510.89
45_I60_L1.1470.89
236_T245_L1.1430.88
198_C201_H1.1350.88
69_T79_G1.1260.87
314_D324_F1.1220.87
108_S111_K1.1220.87
158_H332_A1.1220.87
159_I187_F1.1180.87
165_I231_K1.1140.87
169_G194_C1.1120.86
189_V210_A1.1110.86
322_T334_S1.1090.86
339_L343_L1.1090.86
79_G83_R1.1050.86
23_K26_G1.1020.86
293_E310_C1.0970.85
191_V245_L1.0960.85
226_M263_T1.0860.85
18_F31_S1.0820.84
225_V229_V1.0790.84
200_G204_A1.0780.84
151_I269_A1.0770.84
188_H213_E1.0760.84
84_R140_L1.0760.84
66_R70_A1.0710.84
236_T269_A1.0690.83
255_A265_L1.0660.83
194_C248_V1.0620.83
15_I18_F1.0620.83
72_Q327_N1.0590.83
158_H266_I1.0590.83
168_I219_D1.0580.83
241_A261_H1.0580.83
345_H348_D1.0570.82
226_M258_A1.0550.82
169_G199_Q1.0520.82
235_G247_A1.0490.82
340_M343_L1.0480.82
14_R20_E1.0470.82
204_A216_V1.0450.81
233_I268_C1.0430.81
196_P310_C1.0350.81
182_A186_K1.0300.80
38_T42_L1.0260.80
16_E20_E1.0250.80
162_N187_F1.0250.80
160_H163_E1.0220.79
222_I254_L1.0190.79
178_L187_F1.0170.79
166_M225_V1.0170.79
239_I335_Y1.0130.79
84_R136_A1.0120.78
274_L336_I1.0030.78
218_T221_A1.0000.77
291_P294_V1.0000.77
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  
3a11A60.90311000.206Contact Map
4ldrA20.89741000.255Contact Map
2yvkA40.8861000.265Contact Map
1t5oA40.88031000.272Contact Map
2a0uA20.90031000.28Contact Map
1t9kA40.88031000.284Contact Map
3ecsA80.84621000.291Contact Map
1vb5A20.77781000.382Contact Map
1w2wB40.46441000.5Contact Map
1w2wA40.447399.50.817Contact 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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