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OPENSEQ.org

601toCterm

ID: 1410176741 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 659 (655)
Sequences: 875 (704)
Seq/Len: 1.336
Nf(neff/√len): 27.5

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: 1.336).

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
386_V389_A2.8991.00
383_R431_I2.5121.00
497_Q526_D2.4741.00
532_I543_A2.3740.99
389_A438_V2.2490.99
497_Q524_L2.2140.99
105_C114_C2.1450.99
448_R472_E2.1430.99
275_D279_P2.1280.98
639_L653_L2.1020.98
381_D429_N2.0670.98
290_V304_S1.9590.97
350_G367_P1.8950.96
589_S608_G1.8870.96
433_H452_D1.8750.96
371_F380_L1.8470.95
536_P550_G1.8010.95
155_G175_L1.7670.94
381_D427_N1.7660.94
289_G303_P1.6920.92
385_D433_H1.6900.92
354_R547_L1.6500.90
173_I202_A1.6480.90
171_G204_L1.6300.90
34_S38_H1.6280.90
38_H66_W1.6120.89
367_P623_F1.6030.89
607_S615_Q1.5990.88
503_E520_R1.5960.88
129_V157_A1.5900.88
11_D30_N1.5860.88
243_N269_N1.5720.87
274_G279_P1.5580.87
353_V599_G1.5570.87
429_N454_N1.5560.87
533_F618_Y1.5500.86
485_R503_E1.5470.86
449_L468_I1.5090.84
345_R370_V1.5030.84
201_T212_G1.5000.84
223_F430_L1.4970.84
618_Y652_D1.4880.83
328_I353_V1.4760.82
13_R28_T1.4760.82
73_T106_W1.4730.82
464_L495_P1.4590.81
522_T604_V1.4450.81
495_P506_R1.4410.80
367_P546_Y1.4340.80
227_V240_G1.4270.79
29_L42_L1.4240.79
249_L451_G1.4150.79
130_N156_K1.4130.78
528_P548_L1.3870.77
477_A482_L1.3780.76
379_T427_N1.3780.76
31_A40_L1.3730.76
532_I620_V1.3720.76
315_S336_W1.3700.75
430_L453_L1.3680.75
447_A470_I1.3670.75
614_L633_Y1.3650.75
380_L430_L1.3570.74
588_V608_G1.3520.74
13_R32_K1.3410.73
482_L632_R1.3400.73
18_S22_V1.3310.72
480_Q551_Q1.3240.72
27_V31_A1.3230.72
11_D32_K1.3090.71
491_F550_G1.3080.70
636_M639_L1.3070.70
57_G68_G1.3000.70
530_A544_L1.2970.70
475_F484_V1.2920.69
113_L131_L1.2850.69
209_A255_I1.2850.69
240_G272_L1.2790.68
521_V524_L1.2790.68
435_G448_R1.2780.68
382_G498_P1.2770.68
506_R552_G1.2710.67
132_N278_S1.2670.67
309_N318_A1.2660.67
249_L498_P1.2610.66
139_L145_E1.2580.66
126_R272_L1.2570.66
547_L595_T1.2560.66
30_N42_L1.2560.66
151_G169_P1.2550.66
619_G630_T1.2510.66
434_V451_G1.2440.65
200_L213_W1.2400.65
518_G533_F1.2400.65
104_H608_G1.2390.64
349_K368_D1.2380.64
388_W437_N1.2380.64
482_L518_G1.2340.64
446_K608_G1.2280.63
131_L134_F1.2260.63
614_L631_L1.2220.63
367_P384_V1.2220.63
367_P387_P1.2220.63
263_A586_F1.2180.62
608_G616_V1.2160.62
155_G614_L1.2150.62
449_L482_L1.2130.62
518_G618_Y1.2110.62
486_K501_N1.2100.62
198_L599_G1.2070.61
84_L87_D1.2060.61
399_S489_L1.2040.61
38_H68_G1.2010.61
588_V591_L1.1980.61
26_L43_R1.1980.61
42_L69_T1.1940.60
252_I462_L1.1930.60
315_S334_A1.1920.60
475_F528_P1.1840.59
382_G386_V1.1830.59
298_P356_T1.1820.59
543_A620_V1.1820.59
475_F549_R1.1810.59
239_G272_L1.1790.59
523_G534_S1.1780.59
553_L556_D1.1780.59
115_V129_V1.1780.59
610_V631_L1.1780.59
499_Y524_L1.1730.58
366_S387_P1.1700.58
287_V290_V1.1680.58
331_N530_A1.1680.58
117_Q161_W1.1680.58
455_V464_L1.1640.57
384_V627_A1.1610.57
14_V27_V1.1610.57
533_F652_D1.1590.57
272_L521_V1.1590.57
380_L384_V1.1580.57
24_I44_I1.1580.57
382_G506_R1.1570.57
485_R607_S1.1570.57
13_R30_N1.1510.56
277_Q325_Q1.1500.56
53_L90_L1.1490.56
72_N76_Q1.1490.56
490_L631_L1.1490.56
273_G606_V1.1490.56
23_N47_E1.1480.56
607_S622_I1.1440.55
132_N228_Q1.1420.55
476_H481_D1.1420.55
39_E55_L1.1370.55
27_V30_N1.1370.55
491_F523_G1.1340.54
409_M477_A1.1330.54
367_P642_E1.1320.54
268_A475_F1.1310.54
87_D355_I1.1310.54
253_N262_A1.1300.54
114_C367_P1.1290.54
13_R62_K1.1260.54
125_G468_I1.1250.53
567_L634_R1.1250.53
549_R659_F1.1240.53
252_I470_I1.1240.53
19_Q42_L1.1240.53
27_V44_I1.1230.53
410_L414_L1.1230.53
363_M494_P1.1230.53
11_D18_S1.1230.53
157_A219_N1.1220.53
611_L631_L1.1220.53
389_A434_V1.1220.53
9_K16_Q1.1210.53
380_L426_I1.1210.53
480_Q493_G1.1210.53
441_D446_K1.1190.53
298_P640_Y1.1180.53
510_A538_M1.1180.53
484_V502_I1.1180.53
298_P358_P1.1170.53
13_R18_S1.1170.53
330_L348_A1.1170.53
20_P47_E1.1160.53
361_V642_E1.1160.53
479_G506_R1.1150.52
453_L577_Q1.1150.52
153_F322_R1.1150.52
159_V411_N1.1140.52
439_R547_L1.1120.52
181_Q237_N1.1110.52
250_A331_N1.1080.52
451_G482_L1.1080.52
321_V610_V1.1080.52
241_N530_A1.1070.52
104_H607_S1.1060.52
367_P619_G1.0980.51
15_E28_T1.0970.51
549_R559_D1.0960.51
30_N67_K1.0960.51
135_D152_I1.0940.50
321_V328_I1.0910.50
593_L625_S1.0900.50
434_V468_I1.0900.50
609_Y612_P1.0890.50
532_I579_V1.0890.50
149_A429_N1.0880.50
406_D506_R1.0880.50
504_A519_V1.0860.50
479_G546_Y1.0860.50
237_N275_D1.0850.49
189_A200_L1.0850.49
542_A546_Y1.0850.49
263_A291_D1.0840.49
462_L631_L1.0840.49
14_V17_I1.0830.49
151_G464_L1.0820.49
32_K39_E1.0810.49
17_I22_V1.0810.49
366_S385_D1.0810.49
142_F614_L1.0810.49
647_V654_L1.0800.49
238_L279_P1.0800.49
21_D49_V1.0800.49
384_V554_E1.0780.49
619_G645_S1.0780.49
177_G180_V1.0770.49
106_W608_G1.0770.49
391_I540_Q1.0760.49
591_L611_L1.0710.48
105_C367_P1.0700.48
309_N316_T1.0700.48
34_S58_S1.0690.48
90_L311_N1.0670.48
12_V39_E1.0660.48
532_I544_L1.0640.47
18_S34_S1.0620.47
67_K74_R1.0600.47
407_V519_V1.0580.47
113_L437_N1.0580.47
17_I20_P1.0580.47
15_E27_V1.0560.47
281_L355_I1.0560.47
303_P534_S1.0540.46
18_S21_D1.0540.46
505_I533_F1.0530.46
350_G623_F1.0530.46
139_L275_D1.0520.46
68_G373_A1.0520.46
10_L75_F1.0500.46
294_G532_I1.0490.46
471_P622_I1.0480.46
487_G504_A1.0480.46
532_I617_K1.0470.46
136_L151_G1.0470.46
298_P632_R1.0460.46
35_E61_R1.0460.46
114_C350_G1.0460.46
22_V27_V1.0460.46
489_L502_I1.0450.45
567_L571_G1.0450.45
553_L591_L1.0440.45
101_I277_Q1.0430.45
501_N522_T1.0420.45
487_G634_R1.0420.45
520_R531_E1.0410.45
242_V559_D1.0400.45
442_A597_G1.0390.45
19_Q37_Q1.0390.45
151_G373_A1.0380.45
478_Y628_T1.0380.45
332_G346_V1.0380.45
431_I454_N1.0370.45
33_G38_H1.0370.45
359_P614_L1.0360.45
66_W478_Y1.0360.45
53_L62_K1.0360.45
252_I502_I1.0360.45
451_G498_P1.0350.44
388_W461_G1.0350.44
457_Q462_L1.0340.44
241_N271_R1.0340.44
369_V380_L1.0340.44
385_D502_I1.0330.44
193_V235_R1.0320.44
226_Q241_N1.0310.44
302_Q582_I1.0300.44
279_P312_G1.0300.44
438_V622_I1.0280.44
482_L533_F1.0280.44
249_L346_V1.0270.44
221_G487_G1.0250.43
115_V127_A1.0250.43
548_L594_D1.0250.43
447_A548_L1.0240.43
326_G350_G1.0240.43
136_L140_K1.0240.43
240_G575_S1.0240.43
633_Y645_S1.0230.43
517_A547_L1.0210.43
650_A657_F1.0210.43
23_N32_K1.0210.43
314_R333_D1.0200.43
41_Q58_S1.0190.43
438_V498_P1.0190.43
593_L601_S1.0190.43
298_P608_G1.0180.43
11_D27_V1.0180.43
11_D23_N1.0180.43
393_V497_Q1.0170.43
444_G479_G1.0160.43
239_G271_R1.0140.42
227_V231_D1.0140.42
28_T60_D1.0130.42
248_N330_L1.0130.42
477_A506_R1.0110.42
481_D571_G1.0110.42
330_L645_S1.0110.42
480_Q506_R1.0110.42
281_L613_G1.0110.42
32_K69_T1.0100.42
491_F519_V1.0090.42
30_N41_Q1.0090.42
18_S24_I1.0090.42
16_Q26_L1.0090.42
127_A311_N1.0080.42
154_T242_V1.0080.42
28_T41_Q1.0070.42
522_T529_K1.0060.42
477_A618_Y1.0050.41
38_H58_S1.0020.41
17_I31_A1.0020.41
16_Q29_L1.0010.41
13_R47_E1.0000.41
134_F154_T1.0000.41
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  
3petA20.3263160.978Contact Map
3lycA160.347514.70.979Contact Map
3hpeA20.226113.60.979Contact Map
3jx8A60.344511.30.98Contact Map
3butA10.17918.70.981Contact Map
3ap9A10.22318.40.981Contact Map
4c69X10.34456.90.981Contact Map
1wubA10.23826.70.982Contact Map
2d6mA20.22465.70.982Contact Map
2zhnA10.21244.70.983Contact 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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