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momp_camje

ID: 1507552095 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 424 (383)
Sequences: 2794 (1707.3)
Seq/Len: 7.295
Nf(neff/√len): 87.2

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: 7.295).

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
121_V155_S3.6921.00
32_V72_F3.4061.00
108_F170_M3.2841.00
394_A416_V3.2241.00
280_S287_D3.2011.00
40_Y64_H3.1841.00
250_T280_S3.1611.00
127_A149_V2.9821.00
80_F116_Y2.8321.00
123_T153_N2.7931.00
27_E30_K2.7741.00
392_F420_A2.7031.00
355_A380_A2.6621.00
161_L206_A2.6491.00
274_L295_Y2.5161.00
81_K115_T2.4481.00
398_Y414_S2.4151.00
165_A202_Y2.3801.00
247_I281_I2.3571.00
394_A418_L2.3181.00
223_L231_F2.2161.00
289_S342_T2.1801.00
159_L208_G2.1521.00
148_G166_V2.1291.00
123_T151_V2.1011.00
219_P237_A2.0851.00
294_Y337_I2.0621.00
38_L68_A2.0561.00
223_L233_Y2.0341.00
255_Y273_N2.0231.00
239_Y251_L2.0091.00
36_G424_F1.9201.00
88_Y107_L1.9031.00
292_G337_I1.8741.00
34_V72_F1.8701.00
251_L279_G1.8671.00
45_G415_T1.8621.00
390_L422_Y1.8571.00
39_R143_G1.8451.00
357_F376_L1.8351.00
347_F382_V1.8341.00
250_T282_E1.8171.00
130_Q150_K1.8141.00
278_K289_S1.8101.00
351_V384_Y1.8091.00
324_T358_V1.8001.00
129_K147_T1.7801.00
163_A202_Y1.7741.00
241_T251_L1.7661.00
225_Y231_F1.7551.00
286_W343_G1.7461.00
221_L233_Y1.7461.00
42_Y62_Q1.7391.00
150_K162_A1.7171.00
84_V112_L1.7151.00
257_G273_N1.7071.00
353_V382_V1.7061.00
37_V423_K1.7041.00
40_Y66_Y1.7041.00
68_A88_Y1.6671.00
32_V74_A1.6471.00
83_F113_Y1.6201.00
132_L166_V1.6041.00
325_T397_S1.5981.00
322_F338_F1.5931.00
253_G277_L1.5901.00
147_T167_D1.5801.00
207_V218_N1.5761.00
381_R393_S1.5691.00
91_A104_Q1.5561.00
35_S71_N1.5381.00
38_L66_Y1.5331.00
44_T62_Q1.5260.99
283_V288_A1.5210.99
396_Y416_V1.5070.99
121_V153_N1.5040.99
291_G340_Y1.4920.99
342_T354_G1.4860.99
222_W254_A1.4830.99
24_P27_E1.4790.99
231_F261_D1.4580.99
156_I159_L1.4410.99
36_G70_V1.4360.99
257_G271_N1.4270.99
221_L235_V1.4240.99
338_F358_V1.4180.99
288_A343_G1.4170.99
87_D108_F1.4090.99
168_S189_N1.4070.99
125_V151_V1.4040.99
260_L264_L1.3960.99
86_F109_V1.3930.99
211_D216_Q1.3910.99
123_T155_S1.3880.99
87_D110_R1.3800.99
217_F239_Y1.3800.99
164_F203_G1.3790.99
343_G355_A1.3760.99
76_I124_S1.3720.99
240_S248_N1.3430.98
131_Q139_N1.3310.98
83_F111_Q1.3190.98
373_G402_D1.3100.98
29_I32_V1.3100.98
232_F258_N1.3050.98
354_G381_R1.3030.98
351_V382_V1.3010.98
377_E397_S1.2970.98
374_K402_D1.2970.98
96_G101_K1.2950.98
293_L338_F1.2870.98
25_L30_K1.2840.98
159_L206_A1.2840.98
352_R383_D1.2790.98
220_Q236_D1.2790.98
150_K164_F1.2750.98
236_D254_A1.2740.98
125_V149_V1.2730.97
150_K203_G1.2630.97
32_V75_A1.2610.97
176_A188_S1.2560.97
248_N282_E1.2490.97
385_K391_N1.2480.97
115_T126_I1.2470.97
250_T287_D1.2450.97
339_G363_K1.2400.97
37_V69_Q1.2390.97
152_V160_T1.2360.97
189_N197_S1.2290.97
233_Y259_S1.2190.97
285_G349_E1.2170.96
132_L148_G1.2110.96
225_Y261_D1.2100.96
201_L226_W1.2100.96
344_G354_G1.2070.96
80_F114_L1.1980.96
154_N160_T1.1980.96
375_K399_V1.1930.96
207_V220_Q1.1920.96
391_N421_L1.1900.96
110_R131_Q1.1840.96
350_T384_Y1.1720.95
352_R385_K1.1710.95
274_L320_E1.1680.95
85_Q111_Q1.1660.95
290_L341_V1.1650.95
396_Y414_S1.1630.95
287_D344_G1.1460.95
165_A200_N1.1430.94
137_T307_E1.1400.94
334_G366_A1.1350.94
41_R419_Q1.1320.94
217_F237_A1.1310.94
253_G279_G1.1240.94
286_W345_Y1.1210.94
122_A155_S1.1170.94
347_F353_V1.0980.93
236_D252_E1.0970.93
48_D414_S1.0780.92
393_S419_Q1.0740.92
209_S218_N1.0730.92
144_L323_Y1.0720.92
292_G339_G1.0680.91
31_D75_A1.0650.91
345_Y349_E1.0630.91
76_I117_T1.0530.91
27_E78_D1.0520.91
300_K335_R1.0460.90
249_W281_I1.0450.90
74_A77_A1.0410.90
152_V162_A1.0410.90
357_F378_A1.0340.90
238_A252_E1.0310.89
123_T156_I1.0290.89
356_D381_R1.0290.89
129_K177_D1.0280.89
395_F417_R1.0280.89
383_D391_N1.0270.89
275_F294_Y1.0180.89
28_A72_F1.0180.89
147_T177_D1.0160.88
222_W234_A1.0140.88
143_G421_L1.0050.88
276_A321_I1.0010.87
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  
3sybA10.86081000.361Contact Map
2y0lA10.80661000.388Contact Map
3sy9A40.79721000.39Contact Map
3sy7A10.81131000.393Contact Map
2y0hA10.79481000.393Contact Map
3t24A30.83961000.397Contact Map
3szdB20.82311000.403Contact Map
2y2xA20.82311000.403Contact Map
4frtA20.82551000.404Contact Map
3szvA10.8091000.407Contact 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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