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OPENSEQ.org

c2

ID: 1487713269 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 768 (727)
Sequences: 1110 (622)
Seq/Len: 1.527
Nf(neff/√len): 23.1

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: 1.527).

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
161_T169_H4.2701.00
34_G531_L4.1481.00
109_T505_T3.8671.00
372_T383_S2.9151.00
125_F158_G2.8931.00
145_I243_E2.8791.00
13_R524_D2.8281.00
380_F384_Y2.5971.00
34_G457_A2.5811.00
66_N81_P2.4061.00
629_L643_L2.3811.00
629_L656_L2.3641.00
15_T34_G2.2940.99
633_S652_T2.2330.99
63_S82_I2.2140.99
80_C83_C2.1630.99
451_S454_H2.1610.99
457_A531_L2.1480.99
235_E239_N2.1330.99
343_V361_L2.1190.99
342_T449_S2.1150.99
56_C61_C2.0590.98
283_R344_D2.0280.98
269_A284_I2.0110.98
149_S235_E1.9810.98
347_A355_M1.9770.98
14_F35_C1.9750.98
412_L485_A1.9710.98
753_Q760_Q1.9600.98
140_L287_F1.9600.98
406_V458_I1.9590.98
407_K490_I1.9580.98
523_F528_A1.9480.98
78_W87_N1.9310.97
263_G328_F1.9280.97
19_F33_V1.9190.97
40_L491_T1.9010.97
404_M458_I1.8990.97
409_S486_Y1.8940.97
653_I666_H1.8880.97
560_C563_Y1.8860.97
14_F509_N1.8520.97
140_L380_F1.8230.96
16_W26_A1.8220.96
665_Y716_A1.8170.96
69_C78_W1.8000.96
61_C83_C1.7890.96
127_V284_I1.7230.94
160_I269_A1.7180.94
291_P299_I1.7140.94
651_N667_G1.6990.94
524_D527_A1.6970.94
56_C80_C1.6930.93
495_H501_R1.6900.93
61_C80_C1.6860.93
29_N515_G1.6710.93
532_M583_Y1.6660.93
399_A450_L1.6190.91
632_F653_I1.6120.91
578_P581_S1.6060.91
56_C83_C1.5990.91
490_I494_Q1.5840.90
159_L241_L1.5750.90
490_I502_I1.5680.89
192_A197_L1.5530.89
55_V490_I1.5200.87
711_F716_A1.5170.87
563_Y566_Y1.5090.87
399_A412_L1.4970.86
123_I228_F1.4860.86
114_T502_I1.4750.85
21_S511_L1.4750.85
523_F580_F1.4720.85
71_I89_L1.4710.85
362_T369_L1.4650.85
417_L421_A1.4560.84
35_C487_T1.4510.84
55_V64_I1.4480.84
55_V407_K1.4410.83
567_N570_D1.4400.83
752_L756_M1.4360.83
14_F19_F1.4260.83
673_W677_G1.4260.83
631_S652_T1.4240.82
566_Y570_D1.4200.82
12_V489_F1.4170.82
38_T455_S1.4160.82
760_Q763_A1.4130.82
355_M607_A1.4120.82
730_P752_L1.3910.80
18_V512_L1.3890.80
127_V265_A1.3800.80
204_G219_V1.3800.80
728_L751_S1.3770.79
75_N89_L1.3680.79
301_N306_D1.3570.78
41_K110_I1.3570.78
409_S414_V1.3570.78
379_I383_S1.3560.78
677_G680_D1.3380.77
98_Q102_P1.3350.76
297_G328_F1.3290.76
177_D181_V1.3260.76
604_D657_D1.3260.76
111_E527_A1.3240.76
119_T130_L1.3210.75
514_F518_A1.3210.75
656_L724_L1.3200.75
111_E501_R1.3200.75
15_T531_L1.3180.75
657_D662_I1.3170.75
127_V160_I1.3140.75
752_L760_Q1.2990.74
756_M760_Q1.2980.73
754_N760_Q1.2920.73
354_G357_E1.2870.73
53_P444_T1.2840.72
162_Y288_A1.2820.72
399_A493_Y1.2820.72
643_L656_L1.2780.72
36_L527_A1.2570.70
348_G380_F1.2560.70
329_Y332_I1.2550.70
15_T668_E1.2530.70
512_L519_I1.2530.70
64_I490_I1.2520.70
264_S296_P1.2510.70
263_G295_A1.2470.69
31_V580_F1.2440.69
549_I596_L1.2440.69
170_D234_V1.2420.69
390_K454_H1.2410.69
15_T646_I1.2350.68
138_D142_E1.2280.67
743_T746_L1.2260.67
16_W523_F1.2260.67
436_E439_I1.2230.67
66_N82_I1.2230.67
41_K108_T1.2220.67
741_G744_I1.2210.67
39_P56_C1.2200.67
494_Q500_N1.2190.67
623_I657_D1.2180.67
269_A281_P1.2160.66
584_P759_L1.2160.66
46_L111_E1.2090.66
557_I560_C1.2040.65
685_A688_K1.2020.65
36_L455_S1.2000.65
126_F157_I1.1990.65
724_L729_N1.1980.65
408_T487_T1.1980.65
657_D705_R1.1930.64
159_L245_L1.1930.64
330_N334_Q1.1860.64
530_V618_T1.1840.63
274_Q335_R1.1830.63
173_S176_I1.1810.63
530_V621_S1.1800.63
266_L655_L1.1780.63
160_I556_L1.1780.63
577_A581_S1.1740.62
226_R238_L1.1720.62
166_V265_A1.1720.62
737_M740_G1.1720.62
340_G401_N1.1710.62
314_I317_D1.1680.62
262_T286_L1.1640.61
201_K204_G1.1640.61
39_P61_C1.1640.61
723_F727_K1.1620.61
156_L230_P1.1580.61
582_L585_Q1.1580.61
38_T81_P1.1560.61
604_D705_R1.1540.60
261_A294_V1.1500.60
270_S335_R1.1490.60
269_A295_A1.1480.60
169_H491_T1.1470.60
263_G297_G1.1450.59
588_Y592_R1.1440.59
261_A383_S1.1420.59
416_G461_E1.1390.59
57_S63_S1.1370.59
82_I112_Y1.1360.59
36_L457_A1.1360.59
534_R658_T1.1340.58
93_Y122_P1.1340.58
586_F671_A1.1330.58
200_Q204_G1.1310.58
128_V144_I1.1300.58
170_D178_R1.1290.58
260_R290_G1.1280.58
602_S605_E1.1280.58
419_G604_D1.1260.58
563_Y567_N1.1250.57
553_D591_R1.1240.57
624_M660_F1.1220.57
81_P592_R1.1220.57
410_K512_L1.1170.57
228_F231_L1.1140.56
345_I362_T1.1110.56
307_P310_S1.1100.56
195_E201_K1.1100.56
234_V237_K1.1090.56
656_L663_L1.1060.56
684_Y715_E1.1060.56
188_Y566_Y1.1040.55
281_P295_A1.1030.55
418_I614_T1.1030.55
590_L624_M1.1020.55
266_L345_I1.1010.55
737_M744_I1.1010.55
286_L345_I1.1000.55
604_D627_P1.0990.55
565_D569_D1.0990.55
691_L705_R1.0990.55
521_A579_N1.0970.55
382_Q385_L1.0950.54
346_F372_T1.0940.54
19_F509_N1.0920.54
728_L745_V1.0920.54
644_D647_S1.0920.54
657_D709_P1.0920.54
511_L625_I1.0920.54
566_Y577_A1.0900.54
738_A745_V1.0880.54
163_G656_L1.0880.54
15_T610_R1.0880.54
403_N742_S1.0870.54
673_W678_Y1.0870.54
632_F655_L1.0850.53
363_D611_H1.0830.53
40_L111_E1.0760.52
412_L460_F1.0740.52
64_I407_K1.0740.52
737_M741_G1.0740.52
299_I406_V1.0700.52
757_T760_Q1.0690.52
200_Q507_V1.0670.51
332_I365_T1.0650.51
407_K492_T1.0630.51
616_E624_M1.0610.51
22_T25_D1.0610.51
297_G329_Y1.0590.51
140_L144_I1.0590.51
239_N258_P1.0570.50
158_G161_T1.0550.50
693_E697_E1.0550.50
533_A590_L1.0550.50
125_F591_R1.0540.50
123_I269_A1.0540.50
81_P163_G1.0520.50
185_D740_G1.0510.50
751_S755_F1.0510.50
90_P593_S1.0500.50
145_I239_N1.0500.50
347_A353_I1.0500.50
199_G220_T1.0490.50
124_F155_A1.0480.50
166_V598_V1.0480.50
573_S578_P1.0470.49
171_L229_L1.0470.49
54_V128_V1.0450.49
160_I458_I1.0440.49
429_A740_G1.0410.49
705_R717_G1.0400.49
620_N630_T1.0400.49
136_N348_G1.0390.49
492_T500_N1.0390.49
408_T414_V1.0390.49
574_F584_P1.0370.48
411_D463_A1.0360.48
292_G295_A1.0350.48
191_E195_E1.0330.48
247_P406_V1.0330.48
510_Q518_A1.0330.48
571_P629_L1.0320.48
406_V414_V1.0320.48
430_N744_I1.0310.48
732_D737_M1.0300.48
78_W263_G1.0290.48
733_N755_F1.0290.48
602_S629_L1.0290.48
513_P517_P1.0280.47
609_Y624_M1.0280.47
273_L340_G1.0270.47
531_L659_F1.0250.47
164_N259_L1.0220.47
552_L665_Y1.0220.47
270_S341_H1.0200.47
127_V590_L1.0200.47
629_L641_V1.0200.47
554_R558_K1.0190.47
550_R553_D1.0190.47
744_I760_Q1.0190.47
676_A681_D1.0190.47
419_G524_D1.0180.46
552_L587_T1.0180.46
597_S633_S1.0180.46
378_A552_L1.0160.46
485_A511_L1.0140.46
430_N439_I1.0140.46
35_C406_V1.0130.46
431_N521_A1.0120.46
447_M456_Y1.0100.46
447_M450_L1.0090.45
395_Y739_R1.0070.45
158_G250_W1.0070.45
141_K245_L1.0070.45
26_A33_V1.0060.45
735_Q754_N1.0060.45
249_Q411_D1.0050.45
12_V458_I1.0040.45
18_V266_L1.0010.45
429_A738_A1.0010.45
161_T491_T1.0010.45
436_E536_A1.0000.45
539_K551_W1.0000.45
113_I152_P1.0000.45
366_G375_F1.0000.45
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  
1m2oA20.92971000.08Contact Map
2nutA10.90891000.104Contact Map
1m2vB10.83721000.171Contact Map
1pcxA10.83721000.181Contact Map
3eh2A30.8751000.182Contact Map
3efoB10.87241000.185Contact Map
3eh1A10.86071000.187Contact Map
4fx5A10.52699.80.887Contact Map
2yrcA10.074299.50.916Contact Map
2x31A60.23798.50.945Contact 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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