OPENSEQ.org
ints13 -force run

ID: 1517002015 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 706 (651)
Sequences: 62 (41.5)
Seq/Len: 0.095
Nf(neff/√len): 1.6

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: 0.095).

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
69_I351_T1.8520.33
130_V386_L1.8340.32
262_I311_K1.7230.28
79_I449_K1.6950.27
239_A359_S1.6890.26
361_L378_S1.6030.23
259_S313_T1.6000.23
252_Q284_L1.5820.22
67_Y255_F1.5630.22
218_V239_A1.5490.21
348_S352_N1.5440.21
582_D633_K1.5290.21
4_F328_L1.5230.20
683_A689_L1.5230.20
361_L495_Q1.5060.20
427_L456_T1.4950.20
345_R349_C1.4790.19
672_F686_Y1.4770.19
632_K674_G1.4660.19
672_F689_L1.4570.18
183_I364_Q1.4520.18
459_W527_E1.4460.18
297_G456_T1.4450.18
460_P494_C1.4240.17
130_V339_P1.4230.17
158_G530_R1.4060.17
672_F683_A1.4000.17
632_K686_Y1.3960.17
17_C351_T1.3850.16
69_I160_I1.3840.16
199_I276_S1.3790.16
259_S316_L1.3790.16
293_F486_L1.3720.16
30_F557_L1.3690.16
179_V215_D1.3650.16
141_H145_T1.3590.16
137_T490_D1.3510.15
674_G686_Y1.3480.15
444_P477_L1.3340.15
475_V478_A1.3340.15
80_V108_V1.3300.15
313_T321_P1.3170.15
284_L457_R1.3170.15
7_S351_T1.3070.14
426_R457_R1.3040.14
674_G683_A1.3010.14
477_L487_T1.2940.14
421_F504_M1.2940.14
251_V351_T1.2940.14
424_E457_R1.2940.14
417_D427_L1.2870.14
290_H382_G1.2840.14
210_Y236_S1.2780.14
24_C47_I1.2770.14
274_N361_L1.2760.14
385_F456_T1.2690.13
313_T316_L1.2660.13
20_M386_L1.2620.13
419_G463_I1.2620.13
243_L486_L1.2610.13
449_K463_I1.2610.13
457_R506_R1.2600.13
449_K532_M1.2580.13
632_K683_A1.2540.13
674_G689_L1.2530.13
58_S146_L1.2520.13
234_V547_S1.2520.13
345_R350_L1.2500.13
347_S350_L1.2500.13
329_H339_P1.2470.13
47_I379_S1.2460.13
332_T343_N1.2450.13
417_D456_T1.2430.13
17_C127_V1.2390.13
396_L404_E1.2370.13
66_M423_R1.2360.13
275_T526_D1.2320.13
230_L382_G1.2310.13
463_I519_R1.2250.12
14_V20_M1.2240.12
124_H175_L1.2230.12
80_V158_G1.2210.12
376_M509_D1.2200.12
141_H144_R1.2190.12
158_G169_D1.2180.12
632_K689_L1.2150.12
20_M371_K1.2140.12
59_S177_D1.2140.12
290_H377_L1.2110.12
71_P263_T1.2110.12
75_L417_D1.2100.12
101_L185_E1.2100.12
527_E547_S1.2090.12
601_E671_E1.2080.12
65_I313_T1.2080.12
293_F468_I1.2070.12
490_D549_K1.2060.12
136_I468_I1.2030.12
283_L560_C1.2030.12
10_T65_I1.2030.12
368_S530_R1.2020.12
28_V262_I1.2020.12
256_D373_I1.2000.12
427_L476_P1.1980.12
261_T282_E1.1970.12
316_L320_T1.1950.12
284_L502_V1.1940.12
259_S318_W1.1930.12
11_V476_P1.1920.12
59_S161_I1.1920.12
137_T486_L1.1920.12
106_A541_R1.1910.12
686_Y689_L1.1900.12
154_V495_Q1.1870.12
632_K672_F1.1870.12
316_L321_P1.1860.12
335_Y339_P1.1830.12
130_V395_I1.1820.12
38_T379_S1.1810.12
172_V181_E1.1810.12
283_L351_T1.1790.12
175_L525_R1.1780.11
160_I283_L1.1760.11
3_I69_I1.1760.11
346_P349_C1.1760.11
20_M132_T1.1750.11
94_E297_G1.1730.11
29_E144_R1.1690.11
349_C353_F1.1660.11
97_N150_N1.1640.11
167_K174_M1.1640.11
255_F364_Q1.1620.11
130_V308_G1.1610.11
142_E198_Q1.1610.11
653_L672_F1.1610.11
584_S627_P1.1600.11
671_E686_Y1.1600.11
376_M485_S1.1590.11
126_L250_L1.1590.11
345_R353_F1.1580.11
347_S353_F1.1580.11
79_I532_M1.1580.11
261_T313_T1.1560.11
290_H374_S1.1530.11
222_S326_I1.1520.11
77_N311_K1.1520.11
311_K364_Q1.1520.11
66_M255_F1.1500.11
102_M367_K1.1500.11
185_E385_F1.1490.11
213_G504_M1.1450.11
259_S311_K1.1440.11
137_T361_L1.1430.11
77_N206_L1.1410.11
683_A686_Y1.1400.11
11_V47_I1.1400.11
63_C322_R1.1400.11
179_V213_G1.1370.11
75_L456_T1.1340.11
119_C123_L1.1330.11
249_I490_D1.1330.11
421_F502_V1.1300.11
172_V182_T1.1280.11
132_T142_E1.1280.11
141_H544_I1.1270.10
260_T265_I1.1270.10
260_T266_P1.1270.10
260_T267_M1.1270.10
284_L292_D1.1250.10
144_R147_L1.1250.10
41_I419_G1.1200.10
74_K89_N1.1190.10
137_T495_Q1.1190.10
53_T164_T1.1180.10
380_H486_L1.1180.10
255_F530_R1.1150.10
243_L373_I1.1140.10
30_F527_E1.1140.10
448_A457_R1.1130.10
137_T305_S1.1120.10
181_E386_L1.1120.10
346_P354_L1.1110.10
130_V510_P1.1110.10
66_M201_K1.1110.10
8_H18_P1.1110.10
73_K366_R1.1110.10
270_E387_H1.1100.10
335_Y351_T1.1090.10
188_K234_V1.1080.10
69_I208_H1.1080.10
131_E234_V1.1070.10
293_F361_L1.1070.10
111_P470_N1.1070.10
46_P419_G1.1070.10
476_P480_V1.1060.10
19_Y47_I1.1060.10
332_T342_V1.1060.10
586_K666_S1.1040.10
106_A510_P1.1000.10
133_L158_G1.0990.10
7_S376_M1.0990.10
422_M527_E1.0970.10
627_P674_G1.0970.10
427_L460_P1.0960.10
427_L494_C1.0960.10
380_H459_W1.0950.10
377_L382_G1.0950.10
149_E243_L1.0940.10
212_V379_S1.0940.10
232_S293_F1.0940.10
417_D452_L1.0930.10
12_F413_Y1.0930.10
385_F392_S1.0930.10
56_V313_T1.0930.10
627_P632_K1.0920.10
125_G129_A1.0920.10
125_G360_V1.0920.10
129_A360_V1.0920.10
144_R461_M1.0910.10
123_L135_K1.0900.10
502_V540_V1.0880.10
486_L543_H1.0880.10
69_I504_M1.0870.10
28_V314_I1.0870.10
58_S115_A1.0860.10
313_T318_W1.0860.10
25_R351_T1.0850.10
29_E193_S1.0840.10
10_T358_R1.0840.10
29_E141_H1.0810.10
102_M392_S1.0790.10
137_T378_S1.0790.10
177_D221_R1.0790.10
283_L395_I1.0790.10
35_K355_L1.0780.10
25_R251_V1.0760.10
339_P386_L1.0750.10
270_E414_R1.0750.10
585_E654_L1.0740.10
39_Q189_L1.0730.10
487_T552_R1.0710.09
231_T493_N1.0710.09
197_M423_R1.0710.09
259_S486_L1.0700.09
387_H414_R1.0700.09
259_S282_E1.0690.09
7_S239_A1.0680.09
255_F311_K1.0670.09
255_F465_Q1.0650.09
197_M461_M1.0650.09
284_L555_E1.0640.09
121_S300_H1.0640.09
332_T340_V1.0620.09
93_Q145_T1.0610.09
43_P399_P1.0600.09
386_L477_L1.0600.09
456_T491_V1.0600.09
209_T234_V1.0590.09
41_I194_D1.0590.09
627_P686_Y1.0580.09
459_W525_R1.0570.09
172_V385_F1.0570.09
119_C228_P1.0550.09
21_A109_G1.0550.09
422_M486_L1.0540.09
137_T146_L1.0540.09
496_K562_S1.0530.09
68_D357_G1.0520.09
270_E363_E1.0520.09
226_L292_D1.0520.09
209_T475_V1.0470.09
195_H379_S1.0460.09
124_H385_F1.0460.09
21_A351_T1.0450.09
208_H262_I1.0450.09
3_I379_S1.0450.09
282_E486_L1.0430.09
131_E290_H1.0420.09
677_N680_N1.0420.09
653_L668_K1.0420.09
101_L145_T1.0420.09
167_K351_T1.0420.09
171_H351_T1.0400.09
493_N526_D1.0400.09
616_E628_E1.0380.09
315_T322_R1.0380.09
423_R488_E1.0380.09
374_S382_G1.0370.09
389_L415_I1.0370.09
381_G497_T1.0370.09
197_M328_L1.0360.09
75_L313_T1.0360.09
295_K459_W1.0360.09
259_S320_T1.0350.09
168_S523_P1.0350.09
491_V540_V1.0350.09
147_L543_H1.0340.09
96_Q202_C1.0320.09
634_P653_L1.0320.09
215_D385_F1.0310.09
147_L461_M1.0310.09
159_R394_S1.0300.09
137_T143_A1.0290.09
29_E41_I1.0280.09
161_I334_A1.0280.09
211_P458_Y1.0280.09
69_I158_G1.0270.09
189_L484_E1.0270.09
295_K522_G1.0260.09
29_E194_D1.0250.09
427_L452_L1.0250.09
54_C121_S1.0240.09
203_E283_L1.0240.09
159_R271_Q1.0230.09
194_D463_I1.0230.09
43_P505_E1.0210.09
670_Q676_L1.0200.09
131_E458_Y1.0200.09
110_P283_L1.0200.09
422_M470_N1.0180.09
63_C467_T1.0180.09
73_K283_L1.0170.09
259_S321_P1.0170.09
426_R555_E1.0170.09
532_M557_L1.0160.09
108_V170_S1.0160.09
338_S531_I1.0150.09
226_L286_H1.0140.09
366_R469_F1.0120.09
11_V477_L1.0120.09
450_D527_E1.0120.09
225_E236_S1.0120.09
223_K467_T1.0120.09
140_Q358_R1.0110.09
94_E251_V1.0110.09
14_V209_T1.0100.09
211_P314_I1.0100.09
262_I388_V1.0100.09
468_I476_P1.0090.08
261_T290_H1.0090.08
531_I548_E1.0080.08
133_L381_G1.0080.08
29_E547_S1.0070.08
318_W321_P1.0050.08
70_F80_V1.0050.08
130_V183_I1.0050.08
197_M243_L1.0040.08
208_H218_V1.0030.08
174_M213_G1.0020.08
119_C531_I1.0010.08
243_L392_S1.0010.08
149_E287_K1.0010.08
276_S350_L1.0010.08
160_I351_T1.0000.08
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  
1q0pA10.264957.50.988Contact Map
2x31A60.252130.50.99Contact Map
1lngA10.123223.50.99Contact Map
2x5nA10.257821.20.99Contact Map
4igiA10.260620.10.99Contact Map
1pt6A20.270518.90.991Contact Map
4rckA20.270516.40.991Contact Map
1n3yA10.266315.30.991Contact Map
4jduA10.249313.70.991Contact Map
3zqkA30.256411.30.991Contact 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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