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FS_4

ID: 1499461841 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 612 (578)
Sequences: 1416 (1015.5)
Seq/Len: 2.450
Nf(neff/√len): 42.2

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: 2.450).

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
439_H442_S4.1831.00
383_D389_V3.9861.00
129_C189_C3.4601.00
385_F389_V3.4361.00
133_N139_A3.1401.00
510_C576_C3.0351.00
514_S519_G2.8791.00
544_R570_D2.8591.00
10_A73_V2.7451.00
16_V99_L2.7151.00
580_R583_S2.6621.00
261_I265_Y2.6011.00
251_L348_V2.5691.00
259_G265_Y2.5551.00
379_C435_C2.4801.00
379_C510_C2.4801.00
435_C576_C2.4301.00
135_Y139_A2.3911.00
255_C328_C2.3781.00
145_V187_Y2.3491.00
24_R87_D2.3101.00
87_D90_I2.2621.00
20_C379_C2.2301.00
193_H196_L2.2061.00
395_S433_Y2.2021.00
255_C379_C2.1661.00
271_R326_Y2.1621.00
20_C510_C2.1441.00
83_C129_C2.1361.00
143_W174_L2.1231.00
20_C83_C2.1101.00
18_I99_L2.0661.00
514_S517_P2.0511.00
332_F335_G1.8990.99
129_C379_C1.8930.99
56_R77_D1.8540.99
189_C328_C1.8490.99
524_F575_Y1.8350.99
299_R322_D1.8200.99
17_K69_T1.8180.99
122_S179_A1.7660.98
125_A204_F1.7630.98
519_G578_K1.7440.98
83_C576_C1.7330.98
22_G27_Y1.7300.98
131_L191_V1.7260.98
265_Y330_R1.7250.98
521_I578_K1.7040.97
127_V204_F1.6550.97
322_D326_Y1.6520.97
27_Y85_S1.6480.97
517_P580_R1.6390.97
267_M330_R1.6140.96
438_N443_N1.6070.96
20_C129_C1.6050.96
595_T599_V1.5800.96
332_F439_H1.5670.95
313_L326_Y1.5650.95
114_P200_V1.5560.95
261_I332_F1.5470.95
133_N193_H1.5360.95
30_Y84_G1.5260.94
394_N436_N1.5220.94
358_P439_H1.5120.94
22_G66_S1.5120.94
506_A597_L1.5070.94
506_A563_I1.5040.94
500_V506_A1.4990.94
405_F429_G1.4900.93
375_A450_V1.4810.93
523_W561_I1.4770.93
524_F529_P1.4770.93
33_R36_G1.4730.93
129_C435_C1.4680.93
500_V566_I1.4580.92
596_E599_V1.4460.92
512_A559_F1.4420.92
358_P442_S1.4410.92
394_N434_I1.4360.92
270_V329_A1.4320.92
261_I335_G1.4260.91
377_L450_V1.4190.91
139_A193_H1.4160.91
255_C510_C1.4050.90
257_A330_R1.4010.90
193_H439_H1.3940.90
487_E583_S1.3900.90
253_L348_V1.3830.90
129_C143_W1.3810.89
522_Q529_P1.3740.89
392_S399_T1.3740.89
375_A426_S1.3720.89
332_F580_R1.3670.89
129_C576_C1.3640.89
142_Q149_L1.3630.89
126_S175_T1.3630.89
189_C576_C1.3620.89
514_S580_R1.3610.89
108_P196_L1.3580.88
328_C435_C1.3450.88
595_T598_S1.3400.87
524_F577_V1.3340.87
257_A267_M1.3250.87
508_L574_Y1.3220.87
396_G400_S1.3210.86
525_R574_Y1.3180.86
29_W68_L1.3170.86
20_C255_C1.3150.86
392_S438_N1.3140.86
376_A422_T1.3080.86
385_F439_H1.3020.85
185_K196_L1.3010.85
153_N156_E1.2930.85
512_A578_K1.2890.85
183_K187_Y1.2890.85
83_C510_C1.2870.84
116_S377_L1.2850.84
79_S185_K1.2820.84
381_V500_V1.2750.84
22_G68_L1.2690.83
458_H464_M1.2690.83
326_Y574_Y1.2680.83
87_D196_L1.2610.83
374_T424_P1.2610.83
393_W421_V1.2470.82
372_G375_A1.2450.82
593_A596_E1.2430.82
421_V433_Y1.2380.81
155_Q183_K1.2370.81
148_A503_G1.2320.81
381_V437_V1.2310.81
144_K190_E1.2290.81
596_E600_R1.2280.80
593_A601_A1.2270.80
129_C255_C1.2250.80
519_G580_R1.2220.80
245_Q350_V1.2210.80
85_S89_S1.2190.80
395_S429_G1.2180.80
12_L78_E1.2120.79
166_S170_L1.2120.79
252_S314_Q1.2110.79
83_C435_C1.2110.79
265_Y519_G1.2070.79
272_Q275_G1.2020.78
592_G595_T1.1970.78
185_K324_G1.1940.78
311_V559_F1.1910.78
143_W393_W1.1910.78
187_Y275_G1.1890.77
394_N399_T1.1860.77
176_L185_K1.1830.77
397_A400_S1.1830.77
189_C510_C1.1790.77
141_V267_M1.1790.77
514_S583_S1.1770.76
83_C379_C1.1760.76
247_P320_A1.1760.76
505_T564_G1.1650.75
601_A605_T1.1610.75
383_D439_H1.1580.75
83_C103_R1.1570.75
375_A423_V1.1570.75
439_H580_R1.1550.74
269_W393_W1.1510.74
598_S602_K1.1500.74
332_F442_S1.1430.73
141_V381_V1.1420.73
62_S66_S1.1390.73
129_C510_C1.1380.73
323_T489_L1.1380.73
271_R322_D1.1370.73
66_S82_F1.1320.72
183_K322_D1.1320.72
511_T556_N1.1320.72
489_L585_D1.1280.72
77_D81_Y1.1270.72
431_Q435_C1.1240.72
434_I447_D1.1240.72
119_Q179_A1.1220.71
72_G182_E1.1210.71
328_C379_C1.1210.71
85_S191_V1.1190.71
110_V114_P1.1150.71
324_G572_G1.1150.71
456_H464_M1.1150.71
135_Y191_V1.1140.71
64_S83_C1.1140.71
381_V420_V1.1130.71
189_C435_C1.1130.71
364_A446_V1.1130.71
594_G599_V1.1110.70
176_L183_K1.1100.70
385_F442_S1.1050.70
507_T562_R1.1040.70
11_N14_G1.1020.69
579_F584_P1.1010.69
267_M434_I1.0950.69
196_L442_S1.0950.69
222_H225_N1.0950.69
85_S90_I1.0950.69
379_C576_C1.0930.69
29_W393_W1.0930.69
324_G431_Q1.0930.69
179_A382_K1.0920.68
238_D256_K1.0900.68
192_T197_S1.0890.68
596_E604_S1.0880.68
563_I574_Y1.0860.68
19_T127_V1.0850.68
489_L578_K1.0830.68
250_A314_Q1.0810.67
527_A578_K1.0770.67
392_S436_N1.0740.67
464_M467_S1.0730.66
525_R570_D1.0720.66
592_G596_E1.0720.66
517_P521_I1.0710.66
10_A16_V1.0700.66
458_H465_P1.0680.66
594_G598_S1.0680.66
21_S85_S1.0670.66
141_V191_V1.0640.66
561_I570_D1.0620.65
457_H465_P1.0610.65
178_K183_K1.0610.65
15_T71_T1.0590.65
80_V98_T1.0580.65
602_K605_T1.0580.65
377_L448_K1.0570.65
77_D183_K1.0570.65
330_R437_V1.0550.65
270_V277_G1.0540.64
179_A183_K1.0530.64
68_L81_Y1.0520.64
135_Y261_I1.0480.64
429_G433_Y1.0470.64
268_N277_G1.0460.64
598_S604_S1.0450.63
71_T316_N1.0430.63
530_G574_Y1.0410.63
599_V602_K1.0410.63
593_A598_S1.0400.63
471_I480_Q1.0400.63
29_W523_W1.0390.63
131_L189_C1.0350.62
507_T560_S1.0330.62
129_C191_V1.0330.62
10_A101_V1.0310.62
66_S311_V1.0310.62
68_L77_D1.0300.62
248_G367_S1.0300.62
429_G574_Y1.0290.62
15_T69_T1.0290.62
133_N578_K1.0280.62
65_T69_T1.0280.62
204_F597_L1.0280.62
226_S229_U1.0280.62
487_E580_R1.0270.61
144_K188_A1.0260.61
473_C480_Q1.0260.61
377_L574_Y1.0200.61
96_G377_L1.0200.61
597_L601_A1.0190.61
261_I330_R1.0170.60
20_C328_C1.0170.60
566_I572_G1.0160.60
70_I99_L1.0140.60
498_V506_A1.0140.60
193_H442_S1.0140.60
278_L326_Y1.0130.60
394_N402_V1.0110.60
367_S370_T1.0100.60
254_V312_K1.0090.59
10_A99_L1.0060.59
17_K67_T1.0060.59
135_Y196_L1.0030.59
131_L141_V1.0020.59
421_V431_Q1.0010.59
512_A576_C1.0010.59
139_A265_Y1.0010.59
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  
3b43A10.77611000.323Contact Map
3v2aR10.13731000.38Contact Map
2rcjC100.82841000.385Contact Map
3dmkA30.751000.39Contact Map
2ec8A10.72061000.396Contact Map
2ocwA10.84641000.401Contact Map
4liqE10.74511000.404Contact Map
1e07A10.73861000.426Contact Map
5a2fA101000.452Contact Map
3qs9E40.64871000.456Contact 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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