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A0LXY7_GRAFK -force run 1-800 -force run

ID: 1407788296 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 800 (798)
Sequences: 409 (385)
Seq/Len: 0.513
Nf(neff/√len): 13.6

Jackhmmer Results: (2014_04_16)
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: 0.513).

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
46_V71_I4.4521.00
49_K68_D3.5011.00
674_A715_L2.6010.98
6_K10_F2.5250.97
38_M46_V2.5030.97
115_A160_S2.4780.97
655_L670_L2.3310.95
93_S96_E2.3270.95
121_V127_A2.2920.94
122_D126_N2.2210.93
14_T18_L2.0930.89
86_E114_K1.8680.81
573_N593_N1.8270.79
303_G437_G1.8150.78
8_L16_I1.8080.78
706_I797_I1.8080.78
460_A474_L1.7470.74
9_G599_I1.6650.69
16_I22_A1.6320.67
721_M743_G1.6310.67
211_L222_I1.6170.66
770_G775_E1.5900.64
743_G746_M1.5790.63
752_L780_T1.5600.61
14_T446_Y1.5540.61
115_A157_I1.5430.60
561_A564_V1.5390.60
4_A14_T1.5140.58
388_K415_D1.4900.56
50_D67_E1.4900.56
64_L385_L1.4850.56
674_A681_A1.4850.56
54_S59_F1.4810.56
114_K159_N1.4800.55
59_F62_A1.4630.54
4_A7_I1.4520.53
437_G464_F1.4460.53
476_M483_I1.4350.52
742_H750_Y1.4300.52
264_F299_G1.4110.50
46_V72_I1.4080.50
193_L333_V1.4050.50
35_K47_D1.4030.50
150_L474_L1.4000.49
514_S518_F1.3880.48
735_D757_P1.3860.48
476_M482_D1.3840.48
437_G474_L1.3830.48
780_T783_E1.3830.48
113_N158_N1.3810.48
3_K10_F1.3720.47
110_L235_E1.3680.47
97_L792_F1.3660.47
152_L557_L1.3490.45
15_I112_L1.3360.44
11_V21_V1.3340.44
6_K18_L1.3310.44
42_L101_S1.3210.43
510_S513_F1.3200.43
670_L692_S1.3140.43
207_G240_V1.3130.43
614_F657_G1.3100.42
5_L24_F1.3050.42
26_F59_F1.3050.42
320_S337_N1.3030.42
320_S462_L1.2990.42
735_D752_L1.2970.41
11_V462_L1.2960.41
2_K788_I1.2960.41
361_F374_I1.2910.41
9_G471_V1.2910.41
278_I780_T1.2900.41
73_N76_P1.2890.41
309_F342_I1.2880.41
68_D145_S1.2840.40
260_M277_V1.2840.40
247_F631_S1.2820.40
593_N598_S1.2810.40
731_I786_I1.2800.40
735_D781_T1.2800.40
715_L724_I1.2800.40
752_L781_T1.2800.40
717_F724_I1.2780.40
583_E683_I1.2770.40
37_T40_D1.2740.40
9_G66_I1.2710.39
367_R372_G1.2700.39
590_I720_G1.2690.39
279_P293_G1.2620.39
728_N735_D1.2600.39
18_L22_A1.2590.39
107_I127_A1.2570.38
754_L784_L1.2530.38
24_F98_F1.2520.38
728_N739_A1.2460.38
278_I752_L1.2430.37
537_T540_K1.2370.37
321_N438_T1.2340.37
125_G636_Q1.2330.37
19_L96_E1.2310.37
125_G166_D1.2290.36
460_A487_G1.2270.36
317_I748_M1.2270.36
148_F314_D1.2250.36
5_L8_L1.2250.36
479_G510_S1.2230.36
11_V18_L1.2210.36
66_I590_I1.2210.36
774_G777_L1.2180.36
52_D67_E1.2180.36
731_I781_T1.2160.35
330_P605_V1.2120.35
781_T786_I1.2120.35
640_P727_M1.2110.35
729_F736_F1.2100.35
624_D627_S1.2090.35
672_G795_P1.2070.35
28_S31_K1.2070.35
270_D557_L1.2070.35
54_S597_G1.2030.35
73_N83_A1.2020.34
286_I289_V1.2010.34
21_V25_I1.1980.34
773_S776_S1.1980.34
657_G792_F1.1970.34
729_F754_L1.1970.34
763_S767_N1.1960.34
752_L757_P1.1960.34
43_N485_A1.1890.34
225_D228_N1.1880.33
696_D699_N1.1860.33
752_L799_L1.1840.33
743_G747_N1.1840.33
107_I112_L1.1840.33
249_G262_V1.1790.33
735_D780_T1.1760.33
13_L46_V1.1750.33
622_S698_L1.1730.32
69_L364_D1.1710.32
709_S789_T1.1710.32
752_L788_I1.1680.32
93_S147_P1.1660.32
97_L333_V1.1660.32
129_Y368_F1.1650.32
3_K518_F1.1650.32
88_V685_P1.1650.32
73_N77_F1.1640.32
389_G485_A1.1600.32
12_I207_G1.1600.32
107_I678_L1.1570.31
754_L799_L1.1550.31
1_M6_K1.1550.31
74_N119_I1.1550.31
770_G780_T1.1550.31
618_L657_G1.1540.31
736_F752_L1.1540.31
231_Y441_L1.1520.31
681_A731_I1.1520.31
734_I757_P1.1520.31
37_T43_N1.1500.31
361_F377_I1.1490.31
39_N131_I1.1490.31
31_K38_M1.1480.31
396_I603_G1.1470.31
112_L115_A1.1460.31
655_L701_I1.1450.31
83_A608_K1.1450.31
208_V218_L1.1440.31
92_M97_L1.1430.30
238_A553_L1.1420.30
15_I175_I1.1400.30
158_N251_V1.1390.30
731_I752_L1.1390.30
617_D654_S1.1380.30
415_D462_L1.1340.30
85_G369_T1.1340.30
53_L711_L1.1320.30
115_A271_F1.1270.29
564_V669_S1.1270.29
180_H247_F1.1260.29
681_A752_L1.1250.29
94_I97_L1.1240.29
43_N589_D1.1240.29
566_Y569_L1.1230.29
30_L44_A1.1220.29
443_N599_I1.1220.29
53_L166_D1.1190.29
479_G517_D1.1190.29
420_F555_M1.1180.29
261_D750_Y1.1180.29
578_L741_S1.1180.29
42_L119_I1.1180.29
92_M96_E1.1170.29
759_K762_G1.1170.29
20_I652_T1.1160.29
26_F186_F1.1160.29
13_L596_N1.1140.29
13_L17_I1.1120.28
158_N170_K1.1090.28
57_R485_A1.1080.28
17_I139_V1.1070.28
441_L460_A1.1070.28
762_G773_S1.1060.28
444_F594_I1.1060.28
249_G474_L1.1050.28
727_M797_I1.1040.28
727_M738_V1.1030.28
291_T322_A1.1020.28
88_V110_L1.1020.28
603_G738_V1.1020.28
483_I619_N1.1020.28
85_G586_R1.1020.28
94_I148_F1.1000.28
66_I553_L1.0980.28
690_L732_K1.0980.28
222_I694_L1.0980.28
27_E502_L1.0960.27
49_K69_L1.0960.27
342_I361_F1.0950.27
52_D237_E1.0950.27
770_G773_S1.0940.27
63_T121_V1.0940.27
479_G743_G1.0930.27
166_D687_K1.0930.27
11_V541_T1.0910.27
114_K170_K1.0910.27
75_E245_L1.0910.27
643_S660_N1.0880.27
731_I785_P1.0870.27
181_E483_I1.0870.27
752_L762_G1.0860.27
187_S191_S1.0860.27
439_A619_N1.0860.27
437_G502_L1.0860.27
91_E396_I1.0850.27
681_A754_L1.0830.27
734_I781_T1.0830.27
668_S671_V1.0820.27
86_E342_I1.0820.27
34_V41_N1.0810.27
367_R385_L1.0790.26
560_N575_K1.0790.26
18_L455_V1.0790.26
624_D648_K1.0780.26
674_A722_V1.0770.26
56_F110_L1.0760.26
460_A555_M1.0760.26
136_T139_V1.0760.26
479_G482_D1.0750.26
324_F494_G1.0740.26
16_I461_D1.0730.26
724_I738_V1.0730.26
474_L487_G1.0730.26
765_I770_G1.0730.26
110_L433_V1.0720.26
293_G394_A1.0700.26
677_E710_K1.0700.26
112_L486_S1.0700.26
85_G251_V1.0700.26
69_L619_N1.0680.26
402_L452_P1.0680.26
759_K780_T1.0680.26
738_V752_L1.0680.26
95_K119_I1.0670.26
9_G195_T1.0660.26
735_D783_E1.0650.26
672_G678_L1.0650.26
87_E371_N1.0640.26
194_D245_L1.0640.26
184_G550_P1.0630.25
278_I727_M1.0630.25
487_G502_L1.0620.25
207_G211_L1.0610.25
731_I783_E1.0610.25
644_A729_F1.0610.25
413_T439_A1.0580.25
12_I619_N1.0580.25
624_D633_E1.0580.25
506_F519_M1.0570.25
674_A717_F1.0570.25
72_I82_L1.0550.25
374_I624_D1.0550.25
556_E577_L1.0550.25
506_F568_N1.0550.25
62_A479_G1.0530.25
752_L786_I1.0510.25
532_S537_T1.0500.25
568_N691_L1.0500.25
763_S778_A1.0500.25
18_L352_T1.0500.25
346_T350_E1.0470.25
755_D759_K1.0460.24
15_I19_L1.0460.24
424_S517_D1.0460.24
54_S750_Y1.0450.24
262_V772_L1.0450.24
618_L653_L1.0450.24
326_Y603_G1.0450.24
117_V473_N1.0450.24
12_I571_L1.0450.24
478_T799_L1.0450.24
274_F738_V1.0450.24
46_V197_S1.0440.24
450_E487_G1.0430.24
692_S797_I1.0430.24
727_M735_D1.0430.24
555_M580_I1.0430.24
779_N784_L1.0420.24
69_L460_A1.0420.24
462_L724_I1.0410.24
110_L283_A1.0410.24
1_M187_S1.0410.24
294_D321_N1.0400.24
387_L782_V1.0400.24
49_K160_S1.0390.24
13_L621_N1.0390.24
238_A319_S1.0380.24
354_I414_A1.0380.24
155_Y717_F1.0380.24
18_L34_V1.0380.24
488_S499_D1.0370.24
228_N444_F1.0370.24
645_I674_A1.0360.24
53_L64_L1.0360.24
238_A598_S1.0340.24
735_D779_N1.0340.24
49_K591_S1.0340.24
625_I642_A1.0330.24
231_Y618_L1.0330.24
770_G785_P1.0330.24
485_A490_Q1.0330.24
47_D112_L1.0310.24
293_G576_G1.0300.24
756_V799_L1.0300.24
372_G657_G1.0300.24
635_M681_A1.0300.24
4_A11_V1.0300.24
755_D760_Y1.0290.23
762_G770_G1.0290.23
400_Y603_G1.0290.23
414_A421_D1.0280.23
13_L415_D1.0280.23
155_Y180_H1.0270.23
765_I773_S1.0260.23
64_L147_P1.0250.23
3_K6_K1.0250.23
261_D285_N1.0240.23
29_Q33_L1.0230.23
444_F756_V1.0200.23
71_I685_P1.0190.23
653_L751_D1.0190.23
321_N335_D1.0190.23
675_L681_A1.0190.23
317_I711_L1.0180.23
757_P761_L1.0180.23
90_L624_D1.0180.23
385_L650_Q1.0180.23
441_L464_F1.0170.23
554_D581_R1.0170.23
159_N694_L1.0160.23
87_E113_N1.0160.23
774_G785_P1.0160.23
64_L417_K1.0160.23
772_L782_V1.0160.23
35_K39_N1.0150.23
757_P769_L1.0150.23
752_L785_P1.0130.23
437_G603_G1.0130.23
29_Q48_F1.0130.23
526_I683_I1.0130.23
387_L649_L1.0130.23
213_Q217_I1.0130.23
460_A473_N1.0120.23
258_T783_E1.0120.23
729_F799_L1.0110.23
767_N771_K1.0090.22
119_I645_I1.0090.22
46_V508_V1.0090.22
376_N381_M1.0090.22
121_V473_N1.0080.22
520_V540_K1.0070.22
137_T318_T1.0060.22
785_P797_I1.0060.22
42_L485_A1.0060.22
124_L680_T1.0060.22
729_F778_A1.0060.22
1_M4_A1.0060.22
672_G717_F1.0050.22
438_T462_L1.0040.22
1_M83_A1.0040.22
171_T596_N1.0040.22
51_I70_S1.0040.22
710_K736_F1.0040.22
767_N778_A1.0030.22
16_I118_N1.0030.22
13_L559_F1.0020.22
754_L770_G1.0020.22
83_A713_T1.0020.22
774_G783_E1.0020.22
363_I422_M1.0020.22
64_L660_N1.0020.22
731_I757_P1.0020.22
529_T534_N1.0010.22
279_P502_L1.0000.22
460_A602_N1.0000.22
16_I20_I1.0000.22
9_G13_L1.0000.22
463_S520_V1.0000.22
311_P393_L1.0000.22
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: (17Jul14)
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  
1s5lU20.113851.50.969Contact Map
1spfA10.032511.50.978Contact Map
2lk9A10.037.10.98Contact Map
2j5lA105.40.981Contact Map
3j45G10.027550.981Contact Map
1m56D20.0350.981Contact Map
2akhX20.03254.60.982Contact Map
1qleD10.034.40.982Contact Map
3lycA160.29254.20.982Contact Map
2h88D20.053.30.983Contact 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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