May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org

Bstrat_KrT

ID: 1495731843 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 650 (635)
Sequences: 1278 (1126.8)
Seq/Len: 2.013
Nf(neff/√len): 44.7

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: 2.013).

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
309_A312_E3.6691.00
362_T405_F3.1681.00
346_M394_A2.9941.00
321_E372_R2.9451.00
270_L316_I2.9431.00
379_S406_A2.9241.00
339_Q350_S2.8841.00
313_V364_A2.8771.00
198_E215_R2.8741.00
162_L393_G2.8221.00
366_H409_Q2.7951.00
362_T402_V2.7111.00
374_N377_F2.6281.00
310_E367_E2.6071.00
93_H119_S2.5701.00
245_T333_H2.5681.00
242_Y330_G2.5561.00
317_I368_A2.5081.00
313_V368_A2.4171.00
425_W453_G2.3771.00
255_V380_S2.3401.00
332_I457_M2.3131.00
328_L369_A2.3021.00
336_G430_M2.1971.00
578_W598_G2.1841.00
330_G376_L2.1831.00
363_I401_F2.1781.00
358_K395_Y2.1711.00
210_Y215_R2.1671.00
244_I256_S2.1611.00
421_S467_L2.1120.99
250_G429_G2.0740.99
313_V316_I2.0450.99
208_A215_R2.0400.99
340_E392_V2.0190.99
626_H635_W2.0080.99
258_Q458_L1.9960.99
406_A417_P1.9930.99
331_I369_A1.9920.99
403_E419_C1.9760.99
307_I361_G1.9370.99
340_E394_A1.9270.99
140_S143_A1.9110.98
256_S269_L1.8870.98
198_E208_A1.8850.98
93_H116_G1.8840.98
340_E391_T1.8790.98
266_H299_K1.8760.98
358_K399_N1.8750.98
157_A404_Q1.8690.98
363_I366_H1.8270.98
377_F409_Q1.8250.98
395_Y399_N1.8240.98
448_I453_G1.7960.97
257_E288_L1.7940.97
243_V328_L1.7840.97
29_D32_G1.7770.97
366_H415_V1.7760.97
380_S422_F1.7630.97
351_L394_A1.7460.97
250_G428_I1.7330.97
395_Y430_M1.7330.97
70_R73_D1.7100.96
566_P637_D1.7060.96
71_P125_K1.7010.96
594_F598_G1.7000.96
320_H328_L1.6930.96
375_V380_S1.6740.96
179_D211_R1.6610.96
178_L195_M1.6600.95
354_M392_V1.6590.95
307_I313_V1.6470.95
205_C219_F1.6440.95
124_T166_V1.6310.95
303_E316_I1.6270.95
251_I255_V1.6170.95
338_I394_A1.6110.94
335_A395_Y1.6070.94
238_S264_Q1.6030.94
403_E421_S1.6020.94
272_R358_K1.5980.94
310_E368_A1.5880.94
422_F425_W1.5800.94
574_L610_V1.5740.94
375_V382_S1.5730.93
590_G630_G1.5700.93
27_F95_W1.5670.93
249_G272_R1.5610.93
366_H408_Y1.5570.93
271_G302_Y1.5560.93
364_A368_A1.5480.93
93_H96_N1.5450.93
272_R395_Y1.5410.93
622_V626_H1.5350.92
67_H73_D1.5330.92
27_F50_V1.5320.92
120_A138_F1.5290.92
370_S413_S1.5160.92
377_F417_P1.5140.92
366_H417_P1.4910.91
374_N380_S1.4900.91
366_H413_S1.4830.91
162_L343_L1.4810.90
598_G602_K1.4700.90
256_S267_L1.4690.90
409_Q417_P1.4610.90
135_A176_Q1.4610.90
255_V332_I1.4510.89
354_M394_A1.4500.89
121_L125_K1.4460.89
593_F598_G1.4410.89
245_T399_N1.4370.89
354_M357_A1.4340.89
338_I392_V1.4250.88
242_Y376_L1.4250.88
621_A624_F1.4210.88
408_Y413_S1.4080.87
305_A316_I1.4080.87
409_Q415_V1.4050.87
359_V362_T1.4000.87
293_A298_G1.3950.87
384_R392_V1.3920.86
260_L296_H1.3830.86
592_H598_G1.3810.86
249_G336_G1.3780.86
382_S385_T1.3700.85
621_A626_H1.3690.85
140_S144_M1.3690.85
205_C217_I1.3670.85
312_E315_A1.3670.85
457_M461_L1.3650.85
369_A372_R1.3620.85
333_H358_K1.3590.85
262_S458_L1.3580.85
41_A44_E1.3560.84
570_T637_D1.3530.84
314_E368_A1.3520.84
249_G358_K1.3510.84
571_E633_A1.3440.84
270_L313_V1.3430.84
374_N382_S1.3390.83
317_I321_E1.3280.83
242_Y375_V1.3240.82
336_G398_A1.3240.82
237_E329_D1.3180.82
272_R335_A1.3170.82
317_I369_A1.3160.82
239_S265_A1.3090.81
574_L629_L1.3080.81
369_A409_Q1.3060.81
154_V158_T1.3060.81
255_V457_M1.2990.81
261_T296_H1.2910.80
335_A358_K1.2910.80
328_L372_R1.2910.80
380_S385_T1.2870.80
339_Q353_D1.2840.80
591_D595_L1.2840.80
77_L81_L1.2840.80
566_P570_T1.2790.79
41_A45_Q1.2780.79
588_S591_D1.2740.79
341_E369_A1.2730.79
179_D209_A1.2720.79
249_G395_Y1.2700.79
249_G335_A1.2680.79
308_T356_E1.2640.78
251_I380_S1.2620.78
168_H206_H1.2600.78
236_F259_L1.2600.78
237_E242_Y1.2600.78
269_L300_V1.2570.78
374_N378_L1.2560.78
598_G603_A1.2530.77
139_V142_H1.2490.77
246_G272_R1.2480.77
380_S383_A1.2420.77
385_T388_G1.2410.76
591_D598_G1.2350.76
310_E314_E1.2330.76
266_H301_L1.2280.75
339_Q346_M1.2280.75
272_R306_D1.2210.75
341_E350_S1.2170.74
73_D77_L1.2140.74
380_S454_F1.2120.74
375_V378_L1.2100.74
366_H377_F1.2060.74
385_T421_S1.2000.73
341_E354_M1.2000.73
341_E392_V1.1940.72
246_G395_Y1.1940.72
270_L305_A1.1840.72
138_F141_T1.1840.72
603_A625_E1.1800.71
240_G329_D1.1790.71
350_S394_A1.1760.71
24_V90_H1.1760.71
619_P622_V1.1740.71
287_S290_E1.1690.70
346_M350_S1.1640.70
593_F624_F1.1610.69
251_I425_W1.1610.69
117_S351_L1.1560.69
366_H405_F1.1560.69
312_E316_I1.1550.69
340_E387_K1.1490.68
140_S179_D1.1480.68
573_L613_K1.1450.68
29_D34_A1.1440.68
137_T140_S1.1440.68
342_L345_D1.1420.68
248_L271_G1.1410.67
474_R477_K1.1390.67
237_E375_V1.1390.67
592_H611_R1.1370.67
348_S352_N1.1370.67
379_S417_P1.1360.67
427_E431_S1.1330.67
26_I38_K1.1310.66
56_F73_D1.1280.66
550_F553_L1.1270.66
260_L267_L1.1250.66
76_Q80_T1.1250.66
11_A217_I1.1240.66
250_G430_M1.1240.66
341_E345_D1.1230.66
305_A313_V1.1210.65
128_S170_W1.1200.65
272_R336_G1.1180.65
622_V635_W1.1180.65
341_E394_A1.1170.65
260_L298_G1.1130.65
168_H389_G1.1120.65
157_A169_E1.1100.64
610_V632_L1.1090.64
28_A34_A1.1070.64
113_Q116_G1.1050.64
427_E430_M1.1040.64
366_H369_A1.1000.63
563_N566_P1.0990.63
245_T335_A1.0970.63
136_I166_V1.0950.63
577_I609_A1.0930.63
244_I269_L1.0890.62
406_A419_C1.0890.62
138_F163_M1.0880.62
439_M443_R1.0850.62
94_L139_V1.0850.62
611_R616_F1.0850.62
260_L265_A1.0830.62
260_L300_V1.0780.61
593_F623_L1.0760.61
169_E179_D1.0760.61
66_I73_D1.0750.61
591_D594_F1.0740.61
249_G425_W1.0730.60
359_V401_F1.0730.60
603_A607_L1.0700.60
343_L393_G1.0660.60
346_M366_H1.0650.60
243_V317_I1.0640.60
245_T336_G1.0630.59
266_H457_M1.0620.59
167_Q174_K1.0600.59
124_T162_L1.0590.59
338_I354_M1.0580.59
472_L477_K1.0580.59
387_K390_M1.0570.59
241_L326_R1.0480.58
611_R617_D1.0470.58
10_P214_V1.0470.58
413_S416_K1.0460.58
157_A179_D1.0460.58
426_D430_M1.0460.58
449_S453_G1.0430.57
626_H636_I1.0430.57
78_F123_L1.0420.57
238_S263_Y1.0400.57
563_N588_S1.0370.57
599_H602_K1.0360.56
288_L295_V1.0360.56
623_L626_H1.0360.56
338_I390_M1.0280.56
374_N379_S1.0270.55
355_Y398_A1.0230.55
355_Y402_V1.0220.55
68_P95_W1.0220.55
276_E281_D1.0210.55
594_F623_L1.0210.55
290_E294_K1.0200.55
333_H399_N1.0200.55
245_T269_L1.0190.55
44_E47_Y1.0190.55
311_K349_V1.0180.54
248_L302_Y1.0170.54
160_A177_C1.0160.54
278_L281_D1.0150.54
246_G358_K1.0120.54
346_M369_A1.0110.54
27_F93_H1.0110.54
73_D76_Q1.0110.54
377_F382_S1.0070.53
305_A312_E1.0070.53
366_H416_K1.0060.53
598_G611_R1.0050.53
392_V429_G1.0040.53
249_G306_D1.0010.53
56_F64_F1.0010.53
294_K300_V1.0010.53
347_T350_S1.0000.52
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  
3qp9A40.71381000.478Contact Map
4impA40.70771000.503Contact Map
3mjeA20.70461000.505Contact Map
2fr1A10.68461000.511Contact Map
2z5lA10.67851000.516Contact Map
4l4xA10.69381000.526Contact Map
4hxyA20.64771000.532Contact Map
4j1qA10.61851000.588Contact Map
2vz8A20.64771000.611Contact Map
3slkA20.65081000.626Contact 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.

Page generated in 0.8081 seconds.