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OPENSEQ.org

GS_FL

ID: 1422298470 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 726 (647)
Sequences: 2675 (956.8)
Seq/Len: 4.134
Nf(neff/√len): 37.6

HHblits Results: (2013_03)
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: 4.134).

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
553_R592_D2.2811.00
185_R223_D2.1821.00
629_P633_G2.0551.00
77_D138_R1.9931.00
260_Q264_D1.9091.00
650_V679_Q1.8941.00
446_G506_R1.7971.00
258_T261_E1.7620.99
602_S606_E1.6580.99
314_S318_E1.6550.99
627_D630_A1.6520.99
136_W148_R1.6500.99
683_A687_N1.6350.99
504_W516_R1.6230.99
233_S237_E1.6230.99
223_D273_R1.5320.98
316_G320_H1.5100.98
616_A635_V1.4930.98
634_V637_D1.4820.97
592_D642_R1.4620.97
545_P616_A1.4610.97
227_L266_V1.4160.96
685_I689_H1.4100.96
176_N179_E1.4090.96
596_L616_A1.4020.96
536_N543_P1.3840.96
549_L596_L1.3830.96
265_L268_D1.3800.96
177_P247_G1.3600.95
247_G266_V1.3470.95
544_D547_D1.3470.95
181_I227_L1.3440.95
227_L247_G1.3400.95
164_W183_M1.3390.95
150_R198_E1.3190.94
585_S645_Q1.3160.94
596_L635_V1.3130.94
89_F106_L1.3020.94
532_W551_M1.3000.94
603_Y607_I1.2970.93
603_Y632_L1.2790.93
29_H73_S1.2770.93
600_V632_L1.2730.93
234_Y238_V1.2720.93
223_D227_L1.2650.92
59_L63_T1.2610.92
593_Y643_M1.2600.92
216_V276_Q1.2510.92
158_L162_S1.2510.92
643_M647_E1.2480.92
626_V630_A1.2380.91
165_E187_V1.2360.91
409_I499_S1.2330.91
154_A195_G1.2310.91
147_W198_E1.2290.91
680_N683_A1.2200.90
526_M530_W1.2200.90
589_A645_Q1.2110.90
467_D470_A1.2080.90
598_N602_S1.2070.90
80_V234_Y1.2040.90
458_Y475_T1.2020.90
522_A563_G1.2020.90
229_N233_S1.1940.89
428_C432_L1.1880.89
234_Y263_A1.1880.89
518_P566_R1.1880.89
529_A554_A1.1820.88
592_D596_L1.1820.88
132_L139_T1.1810.88
593_Y682_M1.1800.88
620_V635_V1.1760.88
158_L161_E1.1730.88
78_W82_V1.1690.88
231_L263_A1.1670.88
500_L504_W1.1670.88
399_H442_D1.1630.87
577_V668_R1.1620.87
255_F265_L1.1570.87
437_T440_Q1.1560.87
311_D314_S1.1560.87
27_R31_T1.1550.87
533_E555_T1.1550.87
224_A313_Q1.1550.87
136_W147_W1.1530.87
497_E501_I1.1480.86
69_G73_S1.1440.86
39_M131_G1.1410.86
221_F309_L1.1400.86
274_L278_E1.1380.86
321_M327_M1.1350.86
129_E133_A1.1340.86
501_I505_V1.1340.86
168_N175_A1.1330.85
162_S165_E1.1320.85
110_P160_N1.1300.85
133_A137_T1.1300.85
532_W536_N1.1290.85
102_G105_H1.1290.85
136_W185_R1.1290.85
530_W533_E1.1270.85
161_E186_K1.1270.85
30_S77_D1.1260.85
58_L62_Y1.1240.85
628_Y632_L1.1230.85
267_N270_L1.1220.85
689_H692_V1.1200.85
536_N614_H1.1190.84
400_L446_G1.1180.84
556_F595_C1.1180.84
449_A603_Y1.1170.84
168_N173_R1.1160.84
208_V299_V1.1140.84
246_N249_L1.1130.84
257_C261_E1.1130.84
638_L642_R1.1120.84
198_E203_E1.1100.84
559_D562_L1.1100.84
502_D506_R1.1080.84
164_W168_N1.1060.84
590_A678_L1.1030.83
132_L136_W1.1020.83
479_S528_E1.1020.83
62_Y69_G1.1020.83
288_V299_V1.1020.83
438_Q442_D1.1020.83
85_F88_H1.1010.83
636_Q640_N1.1010.83
454_G457_Y1.0990.83
690_R696_K1.0980.83
519_L523_V1.0980.83
636_Q639_M1.0960.83
259_T263_A1.0950.83
430_A441_L1.0950.83
640_N643_M1.0940.83
431_G687_N1.0940.83
632_L643_M1.0930.83
504_W553_R1.0930.83
220_T276_Q1.0930.83
241_E250_V1.0890.82
615_N618_L1.0890.82
177_P185_R1.0890.82
81_W132_L1.0870.82
158_L190_A1.0840.82
254_F272_S1.0830.82
320_H323_S1.0820.82
676_T680_N1.0810.82
148_R151_F1.0810.82
178_V254_F1.0800.81
85_F220_T1.0800.81
82_V188_G1.0800.81
429_A445_S1.0800.81
68_D71_A1.0790.81
585_S589_A1.0770.81
193_S312_W1.0770.81
98_D101_A1.0770.81
397_R424_D1.0760.81
507_T516_R1.0750.81
165_E254_F1.0730.81
601_F667_A1.0720.81
618_L645_Q1.0710.81
543_P555_T1.0700.81
604_Q607_I1.0700.81
62_Y318_E1.0670.80
235_Q238_V1.0660.80
144_S147_W1.0650.80
624_F634_V1.0650.80
166_L243_E1.0640.80
621_Q628_Y1.0630.80
190_A222_S1.0620.80
424_D603_Y1.0610.80
133_A147_W1.0600.80
69_G72_L1.0600.80
139_T273_R1.0590.80
77_D80_V1.0580.80
447_W451_G1.0570.80
433_D436_A1.0570.80
249_L252_E1.0560.79
534_L614_H1.0550.79
150_R205_P1.0550.79
72_L77_D1.0540.79
526_M529_A1.0540.79
74_L129_E1.0530.79
158_L225_V1.0530.79
500_L507_T1.0520.79
603_Y618_L1.0520.79
451_G556_F1.0520.79
216_V220_T1.0510.79
602_S605_K1.0510.79
587_E618_L1.0510.79
613_I618_L1.0490.79
637_D641_Q1.0480.79
438_Q441_L1.0470.79
61_A72_L1.0470.79
136_W223_D1.0460.79
558_S562_L1.0460.79
206_A214_L1.0460.79
579_R584_R1.0450.78
27_R55_D1.0440.78
642_R647_E1.0430.78
267_N271_T1.0430.78
108_R129_E1.0410.78
427_L431_G1.0410.78
29_H77_D1.0410.78
168_N245_S1.0400.78
558_S591_I1.0390.78
101_A106_L1.0380.78
205_P208_V1.0380.78
64_H82_V1.0360.78
27_R188_G1.0360.78
139_T228_R1.0360.78
147_W151_F1.0360.78
610_E628_Y1.0360.78
561_T681_W1.0340.77
613_I642_R1.0340.77
23_L27_R1.0340.77
71_A199_Y1.0340.77
614_H618_L1.0330.77
633_G636_Q1.0330.77
597_L639_M1.0330.77
234_Y249_L1.0330.77
263_A274_L1.0320.77
393_L397_R1.0320.77
132_L164_W1.0310.77
393_L424_D1.0300.77
80_V155_T1.0290.77
173_R176_N1.0290.77
225_V228_R1.0280.77
416_D439_D1.0270.77
477_R497_E1.0260.77
592_D636_Q1.0250.77
522_A601_F1.0250.77
233_S236_R1.0250.77
397_R401_S1.0240.76
607_I618_L1.0240.76
20_N23_L1.0240.76
604_Q612_E1.0230.76
219_E224_A1.0230.76
622_N648_H1.0230.76
504_W592_D1.0230.76
73_S77_D1.0210.76
163_M172_G1.0210.76
688_W692_V1.0210.76
428_C435_D1.0200.76
610_E619_V1.0190.76
154_A157_H1.0190.76
224_A274_L1.0190.76
82_V323_S1.0190.76
545_P553_R1.0190.76
129_E135_L1.0180.76
589_A642_R1.0170.76
228_R270_L1.0160.76
522_A525_D1.0160.76
525_D554_A1.0160.76
610_E617_V1.0160.76
307_K311_D1.0150.76
536_N595_C1.0150.76
442_D446_G1.0150.76
241_E248_V1.0130.75
105_H112_F1.0130.75
616_A640_N1.0130.75
589_A619_V1.0120.75
188_G192_W1.0120.75
577_V589_A1.0110.75
580_S583_V1.0110.75
84_F254_F1.0110.75
173_R273_R1.0100.75
271_T274_L1.0100.75
515_E566_R1.0090.75
223_D267_N1.0080.75
624_F633_G1.0070.75
188_G228_R1.0070.75
79_Y82_V1.0060.75
82_V158_L1.0060.75
85_F158_L1.0060.75
396_A442_D1.0050.75
638_L641_Q1.0040.74
680_N687_N1.0040.74
200_A247_G1.0040.74
623_F645_Q1.0030.74
26_A73_S1.0030.74
618_L632_L1.0030.74
556_F591_I1.0020.74
190_A194_A1.0010.74
234_Y267_N1.0010.74
187_V245_S1.0010.74
575_P579_R1.0000.74
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: (06Sep14)
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  
3kb9A10.46141000.62Contact Map
4okzA40.46421000.622Contact Map
4mc3A10.39531000.624Contact Map
1ps1A20.4161000.633Contact Map
3v1vA10.4161000.636Contact Map
4kwdA40.4051000.671Contact Map
1di1A20.39811000.675Contact Map
1yyqA20.45181000.731Contact Map
3sdrA10.43661000.742Contact Map
3s9vA40.44351000.742Contact 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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