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ID: 1499794483 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 1000 (992)
Sequences: 4576 (2701.7)
Seq/Len: 4.613
Nf(neff/√len): 85.8

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: 4.613).

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
959_G962_E4.8901.00
244_E247_G4.6391.00
309_E312_K4.5991.00
304_A334_K4.2231.00
169_T305_A4.1661.00
591_L625_G4.1511.00
247_G263_R4.0521.00
62_T88_V4.0341.00
142_V158_V3.7581.00
154_I321_L3.5901.00
47_A88_V3.5811.00
65_I69_M3.4451.00
165_A309_E3.3651.00
76_M93_T3.3631.00
311_A314_E3.3381.00
193_L198_L3.3051.00
680_F829_G3.2661.00
736_A746_I3.2451.00
75_L92_L3.1551.00
58_Q823_P3.1301.00
248_K263_R3.1281.00
730_D808_R3.0831.00
742_S745_D3.0731.00
760_N771_V3.0201.00
345_V349_I3.0031.00
65_I90_I2.9801.00
282_N608_S2.9721.00
307_R328_D2.9591.00
186_I207_I2.9101.00
450_S479_A2.8571.00
69_M90_I2.8351.00
251_L265_V2.8351.00
3_N7_D2.7991.00
691_G694_K2.7811.00
314_E322_K2.7071.00
61_V122_V2.6591.00
193_L265_V2.6101.00
247_G268_I2.6091.00
209_A737_Q2.6001.00
949_A964_T2.5841.00
598_Y651_A2.5161.00
62_T82_S2.4951.00
633_D636_D2.4621.00
10_I889_A2.4611.00
188_M203_V2.4391.00
732_D806_S2.4081.00
731_I736_A2.4081.00
262_L268_I2.4061.00
301_D305_A2.3841.00
182_Y270_L2.3831.00
14_V886_L2.3661.00
588_Q592_N2.3101.00
388_F472_I2.2921.00
342_K346_E2.2821.00
189_N192_E2.2681.00
732_D735_K2.2441.00
280_E588_Q2.2201.00
382_V476_S2.2191.00
578_L582_A2.2011.00
371_A484_V2.1941.00
34_Q569_Q2.1911.00
243_T247_G2.1841.00
45_I69_M2.1501.00
787_G802_S2.1501.00
408_D940_K2.1471.00
183_A772_Y2.1461.00
952_L956_E2.1401.00
415_N418_R2.1391.00
188_M200_P2.1291.00
267_K776_E2.1211.00
280_E595_T2.1141.00
713_L716_V2.0791.00
605_N642_N2.0701.00
76_M95_E2.0571.00
979_S983_I2.0541.00
561_S838_G2.0481.00
741_V804_F2.0411.00
586_R589_K2.0361.00
696_T700_N2.0331.00
3_N432_R2.0221.00
731_I746_I2.0161.00
741_V791_V2.0091.00
606_V629_V2.0021.00
4_F11_F1.9961.00
784_D787_G1.9911.00
62_T80_S1.9901.00
77_Y820_N1.9901.00
782_L785_D1.9891.00
587_T625_G1.9801.00
699_R718_P1.9701.00
55_K59_D1.9671.00
694_K697_Q1.9581.00
429_E433_K1.9571.00
82_S88_V1.9461.00
572_F651_A1.9461.00
338_H342_K1.9141.00
378_G480_L1.9111.00
698_A855_V1.9111.00
69_M92_L1.8831.00
642_N650_R1.8661.00
57_V61_V1.8611.00
74_N98_T1.8541.00
199_T792_R1.8331.00
736_A741_V1.8221.00
242_S245_E1.8151.00
20_M377_L1.8131.00
952_L958_K1.8101.00
204_I773_V1.8061.00
78_M92_L1.8051.00
43_V104_Q1.8051.00
729_I805_S1.7901.00
115_M124_Q1.7851.00
65_I114_A1.7841.00
45_I65_I1.7831.00
120_Q124_Q1.7831.00
426_P429_E1.7801.00
613_N625_G1.7641.00
193_L196_F1.7561.00
594_V655_F1.7551.00
684_L702_L1.7511.00
47_A62_T1.7451.00
190_P779_Y1.7391.00
730_D806_S1.7371.00
591_L613_N1.7341.00
987_M991_I1.7321.00
706_A844_M1.7300.99
75_L78_M1.7270.99
181_Q273_E1.7270.99
68_N114_A1.7250.99
650_R654_A1.7230.99
904_V942_A1.7220.99
202_D792_R1.7190.99
592_N595_T1.7180.99
8_R893_E1.7170.99
591_L611_A1.7120.99
339_E342_K1.7110.99
189_N267_K1.7110.99
562_S924_D1.7080.99
205_T208_K1.7080.99
479_A483_L1.7060.99
958_K966_D1.7060.99
845_E867_R1.7050.99
241_T245_E1.7040.99
597_Y654_A1.6970.99
697_Q701_Q1.6940.99
7_D428_K1.6940.99
145_T322_K1.6880.99
203_V265_V1.6860.99
297_A302_T1.6770.99
593_E597_Y1.6640.99
305_A308_A1.6470.99
574_T629_V1.6420.99
445_I482_V1.6230.99
836_S839_E1.6220.99
379_T477_A1.6160.99
53_D56_T1.6140.99
419_V437_Q1.6140.99
776_E779_Y1.6030.99
207_I249_I1.6020.99
19_I378_G1.6010.99
607_E632_K1.5870.99
245_E248_K1.5830.99
976_L980_L1.5770.99
643_K646_A1.5740.99
24_G28_L1.5640.99
952_L966_D1.5630.99
609_V627_A1.5580.99
175_V289_L1.5540.99
572_F648_T1.5530.99
244_E248_K1.5420.99
703_L716_V1.5420.99
13_W895_W1.5410.99
305_A309_E1.5340.99
307_R325_Y1.5340.99
423_E433_K1.5320.98
188_M193_L1.5300.98
14_V890_A1.5290.98
885_F889_A1.5280.98
593_E596_H1.5270.98
715_S830_Q1.5230.98
262_L266_A1.5200.98
632_K636_D1.5130.98
746_I804_F1.5050.98
218_Q231_N1.5050.98
172_V291_I1.5040.98
196_F260_V1.5010.98
702_L848_A1.5010.98
472_I476_S1.4970.98
582_A586_R1.4970.98
537_S540_R1.4940.98
605_N632_K1.4930.98
187_W269_E1.4900.98
169_T309_E1.4900.98
170_S305_A1.4800.98
11_F890_A1.4790.98
916_A927_F1.4790.98
897_I950_K1.4740.98
547_I551_G1.4720.98
473_T477_A1.4690.98
62_T90_I1.4690.98
339_E1000_Q1.4690.98
142_V323_I1.4660.98
703_L707_A1.4600.98
418_R970_M1.4590.98
328_D331_P1.4590.98
156_D160_A1.4500.98
112_Q115_M1.4500.98
533_G537_S1.4480.98
185_R774_M1.4450.98
92_L107_V1.4440.98
598_Y606_V1.4400.98
686_D855_V1.4400.98
45_I92_L1.4370.97
576_V625_G1.4320.97
301_D304_A1.4310.97
98_T106_Q1.4300.97
835_K839_E1.4300.97
606_V609_V1.4250.97
576_V594_V1.4230.97
66_E818_R1.4210.97
835_K843_L1.4150.97
528_T969_R1.4130.97
370_I492_L1.4110.97
694_K698_A1.4070.97
57_V82_S1.4060.97
334_K338_H1.4020.97
198_L202_D1.3950.97
199_T202_D1.3930.97
683_E824_S1.3930.97
578_L587_T1.3890.97
699_R825_M1.3840.97
13_W17_I1.3840.97
713_L840_A1.3840.97
163_K167_S1.3830.97
711_D835_K1.3810.97
684_L699_R1.3790.97
172_V302_T1.3790.97
590_V593_E1.3770.96
642_N647_I1.3730.96
594_V658_I1.3690.96
99_D102_I1.3680.96
593_E660_D1.3650.96
142_V154_I1.3640.96
143_I322_K1.3620.96
698_A851_L1.3600.96
22_A381_A1.3600.96
441_A951_D1.3590.96
352_F369_T1.3570.96
972_L976_L1.3550.96
26_A384_A1.3550.96
148_T320_G1.3500.96
240_L246_F1.3440.96
7_D432_R1.3430.96
924_D927_F1.3430.96
651_A655_F1.3420.96
701_Q705_E1.3380.96
231_N276_D1.3360.96
115_M123_Q1.3350.96
425_L433_K1.3330.96
43_V107_V1.3320.96
595_T609_V1.3320.96
310_L323_I1.3310.96
158_V162_M1.3300.95
74_N95_E1.3300.95
592_N596_H1.3270.95
304_A308_A1.3240.95
482_V981_A1.3230.95
792_R798_M1.3220.95
47_A65_I1.3200.95
142_V162_M1.3150.95
204_I208_K1.3140.95
140_V325_Y1.3130.95
202_D205_T1.3130.95
303_A330_T1.3100.95
137_L303_A1.3050.95
572_F629_V1.3030.95
841_M863_S1.3000.95
741_V746_I1.3000.95
157_Y321_L1.2940.95
897_I900_S1.2900.94
446_A482_V1.2890.94
562_S922_T1.2890.94
162_M313_M1.2880.94
711_D843_L1.2840.94
412_V435_M1.2840.94
273_E770_K1.2770.94
433_K436_G1.2730.94
728_K808_R1.2710.94
522_K526_H1.2710.94
141_G281_F1.2700.94
984_L987_M1.2640.94
47_A122_V1.2610.94
791_V804_F1.2610.94
576_V591_L1.2580.93
842_E845_E1.2560.93
239_R763_I1.2540.93
647_I650_R1.2480.93
26_A381_A1.2450.93
58_Q816_L1.2420.93
449_L940_K1.2390.93
549_V553_A1.2390.93
681_D826_E1.2380.93
158_V289_L1.2370.93
317_F323_I1.2370.93
68_N113_L1.2360.93
102_I105_V1.2350.93
728_K810_E1.2330.92
705_E847_L1.2320.92
542_L546_L1.2300.92
702_L827_I1.2280.92
361_N417_E1.2250.92
735_K738_A1.2250.92
207_I759_V1.2240.92
27_I390_I1.2240.92
349_I353_L1.2240.92
382_V386_F1.2230.92
234_I754_W1.2210.92
166_I175_V1.2170.92
408_D981_A1.2170.92
309_E313_M1.2120.92
29_K384_A1.2070.91
79_S93_T1.2050.91
94_F107_V1.2020.91
415_N437_Q1.1990.91
145_T148_T1.1960.91
65_I111_L1.1940.91
254_N258_S1.1930.91
280_E592_N1.1910.91
698_A701_Q1.1910.91
50_P123_Q1.1900.91
713_L829_G1.1880.91
383_L388_F1.1860.90
77_Y93_T1.1820.90
522_K525_H1.1810.90
98_T103_A1.1810.90
786_I807_S1.1750.90
218_Q276_D1.1730.90
528_T532_G1.1710.90
439_Q443_V1.1690.90
81_N91_T1.1680.90
416_V493_C1.1680.90
42_A91_T1.1660.89
726_Q812_G1.1660.89
1_M5_F1.1660.89
140_V289_L1.1650.89
701_Q704_A1.1640.89
307_R330_T1.1640.89
379_T476_S1.1630.89
819_Y860_T1.1630.89
46_S89_Q1.1620.89
2_P435_M1.1600.89
800_P803_A1.1600.89
603_K654_A1.1570.89
193_L203_V1.1560.89
184_M762_F1.1550.89
163_K177_L1.1540.89
961_I965_L1.1530.89
573_M628_F1.1530.89
729_I807_S1.1520.89
685_I858_D1.1500.89
445_I981_A1.1460.88
31_P389_S1.1450.88
745_D748_T1.1450.88
699_R703_L1.1450.88
216_A750_L1.1430.88
793_A797_Q1.1420.88
590_V658_I1.1410.88
922_T927_F1.1400.88
404_L982_F1.1390.88
157_Y161_N1.1390.88
58_Q818_R1.1370.88
680_F844_M1.1370.88
386_F476_S1.1360.88
428_K432_R1.1350.88
347_A351_V1.1340.88
700_N703_L1.1330.88
449_L478_M1.1300.87
785_D788_D1.1300.87
574_T598_Y1.1290.87
839_E842_E1.1290.87
595_T611_A1.1240.87
886_L890_A1.1240.87
735_K739_L1.1240.87
95_E98_T1.1230.87
278_I613_N1.1230.87
139_V290_G1.1220.87
543_V550_V1.1210.87
200_P752_A1.1210.87
759_V773_V1.1210.87
904_V907_L1.1210.87
684_L827_I1.1160.87
843_L847_L1.1150.86
5_F12_A1.1140.86
192_E196_F1.1140.86
278_I588_Q1.1130.86
155_S180_S1.1090.86
899_F903_L1.1070.86
912_A931_L1.1070.86
816_L823_P1.1060.86
6_I432_R1.1040.86
958_K962_E1.1000.85
16_A19_I1.1000.85
591_L627_A1.0990.85
923_N927_F1.0970.85
550_V553_A1.0950.85
706_A713_L1.0910.85
703_L827_I1.0910.85
746_I801_F1.0910.85
597_Y651_A1.0900.85
206_A249_I1.0890.85
145_T320_G1.0890.85
415_N419_V1.0880.85
684_L855_V1.0880.85
709_H843_L1.0880.85
146_D320_G1.0870.84
529_D533_G1.0870.84
578_L590_V1.0860.84
840_A843_L1.0850.84
432_R436_G1.0840.84
313_M317_F1.0830.84
442_L482_V1.0800.84
203_V773_V1.0800.84
465_A468_R1.0790.84
843_L846_Q1.0790.84
69_M75_L1.0780.84
47_A125_Q1.0770.84
831_A840_A1.0750.84
915_A919_R1.0750.84
47_A82_S1.0750.84
383_L472_I1.0730.83
518_R522_K1.0710.83
246_F262_L1.0700.83
388_F475_V1.0680.83
693_E696_T1.0670.83
76_M864_Y1.0660.83
163_K175_V1.0650.83
20_M24_G1.0630.83
462_S563_F1.0610.82
388_F469_Q1.0600.82
178_F290_G1.0570.82
150_T153_D1.0560.82
214_V747_N1.0560.82
205_T209_A1.0560.82
70_N821_G1.0550.82
649_M652_T1.0520.82
720_G825_M1.0510.82
41_P94_F1.0510.82
980_L984_L1.0510.82
877_Y935_I1.0500.82
288_G610_F1.0500.82
201_V745_D1.0490.82
960_L964_T1.0490.82
335_I338_H1.0460.81
110_K113_L1.0450.81
192_E735_K1.0430.81
352_F372_V1.0420.81
594_V627_A1.0420.81
703_L718_P1.0420.81
874_P878_A1.0420.81
169_T302_T1.0410.81
211_N760_N1.0410.81
404_L981_A1.0400.81
941_N979_S1.0400.81
30_L390_I1.0400.81
304_A307_R1.0390.81
279_A288_G1.0370.80
683_E819_Y1.0370.80
832_A835_K1.0360.80
979_S982_F1.0360.80
880_S932_L1.0360.80
291_I306_I1.0340.80
144_N320_G1.0320.80
367_I492_L1.0320.80
69_M107_V1.0320.80
382_V480_L1.0310.80
166_I309_E1.0310.80
603_K647_I1.0300.80
419_V433_K1.0270.80
201_V205_T1.0270.80
558_R917_T1.0250.79
366_L496_M1.0240.79
374_V488_L1.0230.79
417_E421_A1.0220.79
447_M887_C1.0190.79
702_L847_L1.0180.79
646_A650_R1.0170.79
530_S533_G1.0150.78
48_S87_T1.0140.78
360_Q517_N1.0140.78
250_L259_R1.0140.78
593_E658_I1.0140.78
78_M821_G1.0130.78
835_K840_A1.0120.78
729_I750_L1.0100.78
713_L844_M1.0040.77
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  
4k0jA60.9281000.281Contact Map
4mt1A10.9751000.34Contact Map
3ne5A10.961000.351Contact Map
3w9iA60.9961000.351Contact Map
4dx5A30.9941000.364Contact Map
4r86A20.291000.759Contact Map
3aqpA20.6651000.781Contact Map
2ew9A10.14972.10.985Contact Map
4n8nA40.10165.20.986Contact Map
4q2lA10.06461.50.986Contact 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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