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ID: 1504547517 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 407 (395)
Sequences: 570 (384.3)
Seq/Len: 1.443
Nf(neff/√len): 19.3

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: 1.443).

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
394_Q405_G3.1621.00
113_S151_E2.9761.00
357_K366_T2.9751.00
44_L280_Y2.7751.00
99_N107_M2.7541.00
391_Q394_Q2.4541.00
273_E288_F2.3040.99
144_Y347_D2.2740.99
390_H394_Q2.2380.99
18_D104_R2.2020.99
281_D309_K2.1490.99
379_R385_E2.0710.98
87_I93_S2.0240.98
45_I275_L1.9590.97
195_V264_I1.9570.97
218_R234_E1.8790.97
79_W84_S1.8610.96
116_Q250_M1.8550.96
152_A268_F1.7870.95
390_H405_G1.7800.95
112_T151_E1.7720.95
80_Q118_D1.7670.95
195_V249_V1.7520.94
341_V349_V1.7520.94
341_V345_G1.7380.94
155_L265_G1.7160.93
43_W47_E1.6760.92
52_H205_R1.6420.91
235_I244_V1.6030.90
323_I372_I1.5810.89
313_L380_T1.5500.88
396_A400_L1.5270.87
369_C373_T1.4980.85
220_V232_E1.4970.85
310_F313_L1.4790.84
355_I369_C1.4670.84
142_Q242_L1.4630.83
216_E236_N1.4540.83
116_Q226_F1.4460.82
374_Y390_H1.4380.82
81_N85_L1.4230.81
386_V390_H1.4110.80
367_S371_R1.3990.79
321_N383_Q1.3980.79
367_S370_Y1.3940.79
88_P223_Y1.3890.79
356_D367_S1.3880.79
120_L153_V1.3610.77
116_Q129_V1.3570.77
294_R315_K1.3380.75
377_M380_T1.3350.75
233_M244_V1.3340.75
116_Q337_F1.3240.74
46_K50_K1.3230.74
403_V406_R1.3200.74
341_V369_C1.3150.73
169_E172_Q1.3050.72
164_G167_D1.2950.72
376_H383_Q1.2890.71
345_G349_V1.2840.71
177_S180_S1.2710.70
323_I397_A1.2660.69
139_I270_L1.2650.69
29_R146_I1.2550.68
365_K404_E1.2550.68
373_T383_Q1.2540.68
145_P299_F1.2510.68
294_R310_F1.2500.68
392_A395_E1.2420.67
36_N46_K1.2390.67
319_V383_Q1.2300.66
193_K196_E1.2280.66
377_M390_H1.2270.66
103_N106_H1.2270.66
179_R185_E1.2190.65
294_R313_L1.2150.65
176_Q180_S1.2140.64
167_D175_E1.2100.64
70_D130_V1.2090.64
258_A312_P1.2080.64
116_Q138_Q1.2040.64
93_S110_A1.1990.63
374_Y406_R1.1980.63
8_E11_G1.1940.63
290_C313_L1.1930.62
179_R251_E1.1910.62
300_C324_S1.1900.62
321_N332_Y1.1880.62
290_C296_L1.1830.61
169_E186_T1.1810.61
358_F367_S1.1770.61
392_A396_A1.1750.61
183_K188_T1.1740.61
45_I377_M1.1710.60
300_C306_Q1.1590.59
395_E399_Q1.1560.59
204_T217_I1.1530.59
294_R318_A1.1480.58
291_E327_L1.1420.57
345_G386_V1.1420.57
30_V33_N1.1400.57
101_Y225_P1.1370.57
39_H44_L1.1280.56
171_L175_E1.1280.56
297_K316_Y1.1260.56
77_T106_H1.1250.56
89_A206_L1.1250.56
200_K279_L1.1220.55
66_F168_G1.1220.55
169_E213_D1.1210.55
350_E375_R1.1180.55
165_I169_E1.1160.55
19_H106_H1.1150.55
6_V185_E1.1090.54
332_Y368_H1.1080.54
332_Y337_F1.1070.54
310_F315_K1.1050.54
9_L102_L1.1040.54
183_K189_M1.1020.53
171_L174_F1.0990.53
388_H392_A1.0990.53
4_G8_E1.0980.53
198_D339_D1.0960.53
120_L131_G1.0930.52
267_A274_R1.0900.52
131_G153_V1.0900.52
226_F375_R1.0840.52
146_I354_L1.0840.52
9_L27_L1.0830.51
86_L251_E1.0830.51
166_K169_E1.0790.51
45_I378_E1.0790.51
141_S240_E1.0760.51
272_L366_T1.0740.51
38_Q43_W1.0720.50
94_R243_E1.0700.50
207_M233_M1.0690.50
367_S406_R1.0680.50
358_F361_P1.0660.50
217_I233_M1.0640.50
381_L390_H1.0600.49
188_T343_T1.0590.49
252_Q256_N1.0570.49
184_Q187_H1.0560.49
42_L351_K1.0560.49
310_F318_A1.0560.49
318_A378_E1.0560.49
349_V393_L1.0530.48
72_L119_L1.0520.48
196_E231_F1.0510.48
391_Q405_G1.0500.48
163_A167_D1.0490.48
118_D122_A1.0470.48
358_F371_R1.0470.48
82_F91_H1.0450.48
4_G9_L1.0420.47
176_Q183_K1.0410.47
112_T249_V1.0410.47
94_R225_P1.0400.47
114_A241_W1.0340.46
19_H176_Q1.0290.46
165_I171_L1.0250.46
116_Q254_L1.0240.45
73_S254_L1.0240.45
164_G305_N1.0230.45
183_K228_H1.0230.45
206_L209_H1.0200.45
130_V150_L1.0190.45
170_S173_L1.0190.45
186_T331_N1.0170.45
132_D151_E1.0140.44
155_L255_V1.0130.44
240_E341_V1.0130.44
180_S183_K1.0120.44
38_Q352_V1.0100.44
17_D104_R1.0090.44
250_M265_G1.0090.44
334_E368_H1.0060.44
178_S183_K1.0040.43
337_F340_L1.0030.43
66_F257_S1.0030.43
330_E344_I1.0030.43
154_R235_I1.0020.43
177_S183_K1.0010.43
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  
3cmqA10.99511000.417Contact Map
1b7yA10.57491000.702Contact Map
4p72C20.57741000.709Contact Map
3pcoB20.81081000.712Contact Map
3pcoA20.61671000.713Contact Map
2rhqB10.79361000.717Contact Map
2du7A40.80841000.722Contact Map
4p72A20.79851000.722Contact Map
1b7yB10.76171000.725Contact Map
3l4gA80.67081000.728Contact 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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