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OPENSEQ.org

b2784jack5plus400 SpoT

ID: 1422435694 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 50% gaps before running GREMLIN.
Length: 714 (710)
Sequences: 1024 (711)
Seq/Len: 1.442
Nf(neff/√len): 26.7

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: 1.442).

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 > 50% 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
82_M87_K3.8991.00
57_L130_L3.6441.00
698_M710_V3.4191.00
422_N436_D3.4081.00
406_Y414_H3.3781.00
421_V426_V3.3031.00
19_L62_I3.2971.00
644_I701_L3.0601.00
402_I457_I2.9571.00
216_I276_V2.8261.00
71_I78_Y2.8261.00
487_L525_I2.5761.00
141_R177_E2.5471.00
21_K84_E2.5281.00
649_K655_E2.4721.00
262_I321_W2.4381.00
228_E321_W2.3440.99
60_T88_E2.3420.99
143_L185_Y2.3270.99
458_V467_I2.3110.99
265_T268_D2.2620.99
219_K222_E2.2480.99
226_P264_N2.2360.99
18_L63_A2.1860.99
264_N321_W2.1440.99
148_P151_Q2.0840.98
248_K253_I2.0230.98
230_D324_H1.9990.98
208_F308_G1.9740.98
412_I442_V1.9540.97
432_L438_V1.9270.97
410_T414_H1.9180.97
642_I698_M1.8960.97
25_F76_V1.8780.96
480_I523_A1.8740.96
460_T463_A1.8340.96
420_K439_E1.7680.95
52_L61_T1.7560.94
197_K250_F1.7550.94
198_V236_F1.7500.94
194_L236_F1.7420.94
71_I81_L1.7370.94
49_A62_I1.7340.94
148_P152_K1.7240.94
143_L154_K1.7190.93
665_I693_Q1.7100.93
156_E160_E1.7070.93
686_L697_V1.6740.92
69_D73_D1.6300.91
385_V432_L1.6250.91
211_N310_K1.6200.91
6_V19_L1.6140.90
644_I707_V1.5950.90
73_D139_N1.5760.89
36_N146_L1.5680.89
517_T520_D1.5670.88
73_D98_K1.5650.88
72_E139_N1.5610.88
76_V80_Q1.5590.88
212_I314_F1.5580.88
45_P139_N1.5430.87
515_I524_T1.5420.87
147_P150_K1.5350.87
646_A652_L1.5300.87
316_V458_V1.5290.87
78_Y94_D1.5260.87
263_V272_V1.5240.87
208_F309_P1.5150.86
660_L684_L1.5150.86
443_S446_K1.5110.86
140_M178_L1.4990.85
401_P419_A1.4960.85
660_L667_V1.4890.85
79_D83_E1.4850.85
649_K652_L1.4800.84
421_V430_Y1.4630.83
28_K31_E1.4570.83
98_K139_N1.4460.82
139_N142_T1.4400.82
62_I65_G1.4370.82
407_S462_Q1.4320.82
69_D139_N1.4320.82
277_H304_T1.4320.82
401_P421_V1.4310.81
264_N268_D1.4300.81
600_T606_S1.4110.80
69_D72_E1.4030.80
151_Q185_Y1.3960.79
202_R233_P1.3910.79
430_Y433_K1.3910.79
52_L65_G1.3890.79
187_H190_E1.3850.78
5_R54_D1.3840.78
660_L686_L1.3830.78
398_G431_Q1.3740.78
98_K135_D1.3720.78
35_R69_D1.3710.78
399_S701_L1.3690.77
72_E142_T1.3610.77
80_Q83_E1.3610.77
387_T393_I1.3600.77
152_K182_C1.3580.77
138_H142_T1.3570.76
594_E610_K1.3560.76
18_L21_K1.3540.76
384_F705_E1.3530.76
68_H72_E1.3500.76
383_V430_Y1.3410.75
71_I94_D1.3380.75
35_R138_H1.3340.75
57_L61_T1.3300.74
140_M143_L1.3290.74
383_V434_T1.3280.74
267_K271_G1.3270.74
217_K221_D1.3260.74
651_G666_N1.3240.74
410_T584_A1.3220.74
91_D124_K1.3210.74
73_D97_T1.3200.74
24_N27_V1.3190.74
45_P73_D1.3170.73
35_R73_D1.3130.73
654_T657_T1.3100.73
69_D138_H1.3090.73
73_D138_H1.3080.73
73_D142_T1.3060.73
35_R139_N1.2940.72
30_H139_N1.2940.72
69_D158_T1.2890.71
51_I177_E1.2890.71
6_V10_M1.2870.71
44_H138_H1.2850.71
176_W233_P1.2800.70
491_L607_I1.2790.70
176_W235_H1.2770.70
224_G460_T1.2760.70
135_D139_N1.2740.70
193_D197_K1.2710.70
480_I519_E1.2700.69
605_I628_V1.2690.69
35_R41_Y1.2680.69
45_P72_E1.2680.69
210_Q214_A1.2640.69
30_H35_R1.2620.69
586_C608_H1.2610.69
35_R98_K1.2550.68
72_E98_K1.2540.68
431_Q459_K1.2520.68
59_L63_A1.2510.68
209_I231_G1.2500.68
69_D142_T1.2490.68
201_K204_E1.2460.67
30_H41_Y1.2450.67
44_H68_H1.2430.67
69_D98_K1.2410.67
69_D97_T1.2410.67
587_C612_C1.2410.67
176_W202_R1.2260.66
452_R471_F1.2200.65
48_V135_D1.2170.65
150_K154_K1.2150.65
45_P69_D1.2130.64
642_I710_V1.2120.64
74_T139_N1.2080.64
315_E337_Y1.2060.64
652_L655_E1.2060.64
608_H612_C1.2050.64
276_V306_V1.2020.63
45_P142_T1.2010.63
51_I141_R1.2010.63
198_V250_F1.2000.63
586_C612_C1.1990.63
670_I684_L1.1980.63
97_T139_N1.1960.63
120_I379_F1.1930.62
64_A92_L1.1920.62
62_I253_I1.1920.62
215_T280_W1.1920.62
570_G573_V1.1880.62
274_G277_H1.1830.61
38_G44_H1.1830.61
234_K242_K1.1820.61
23_Y46_V1.1820.61
397_A460_T1.1810.61
68_H138_H1.1810.61
35_R68_H1.1760.61
272_V275_I1.1760.61
218_Q408_I1.1740.61
72_E138_H1.1730.61
68_H139_N1.1700.60
190_E193_D1.1700.60
216_I316_V1.1690.60
253_I475_K1.1680.60
25_F84_E1.1650.60
146_L150_K1.1640.60
41_Y69_D1.1630.60
68_H142_T1.1600.59
587_C608_H1.1580.59
690_S693_Q1.1580.59
220_L229_V1.1560.59
270_Y277_H1.1530.59
416_M428_I1.1530.59
399_S594_E1.1520.58
44_H139_N1.1470.58
30_H73_D1.1430.58
30_H69_D1.1410.57
446_K449_G1.1400.57
45_P98_K1.1390.57
72_E97_T1.1390.57
23_Y27_V1.1370.57
52_L96_V1.1360.57
484_E522_Y1.1340.57
315_E334_H1.1330.57
260_R337_Y1.1330.57
77_T90_A1.1320.56
30_H142_T1.1320.56
98_K142_T1.1320.56
217_K228_E1.1320.56
80_Q84_E1.1300.56
45_P74_T1.1290.56
209_I259_I1.1280.56
72_E135_D1.1270.56
600_T614_N1.1240.56
74_T142_T1.1220.55
270_Y273_L1.1210.55
152_K316_V1.1210.55
419_A440_I1.1210.55
96_V99_L1.1210.55
78_Y81_L1.1170.55
600_T624_R1.1170.55
653_L670_I1.1160.55
218_Q222_E1.1140.55
213_I217_K1.1140.55
476_R520_D1.1130.55
178_L182_C1.1120.54
41_Y139_N1.1080.54
35_R142_T1.1070.54
12_E15_N1.1060.54
45_P138_H1.1060.54
237_Y241_K1.1020.53
242_K315_E1.1010.53
582_R603_R1.0990.53
242_K317_Q1.0970.53
260_R317_Q1.0970.53
492_R573_V1.0950.53
143_L151_Q1.0940.53
379_F472_K1.0940.53
641_D685_T1.0920.52
68_H73_D1.0910.52
68_H97_T1.0910.52
200_A312_E1.0890.52
30_H68_H1.0890.52
596_V615_V1.0890.52
117_K128_V1.0880.52
30_H72_E1.0870.52
19_L151_Q1.0860.52
35_R45_P1.0850.52
131_I167_H1.0850.52
99_L478_E1.0840.52
30_H97_T1.0820.51
97_T142_T1.0810.51
155_A182_C1.0800.51
475_K478_E1.0800.51
31_E34_V1.0800.51
607_I628_V1.0790.51
71_I97_T1.0790.51
644_I710_V1.0780.51
73_D135_D1.0780.51
70_V359_E1.0760.51
273_L277_H1.0760.51
382_E394_S1.0750.51
26_A42_I1.0720.50
288_K305_T1.0710.50
30_H45_P1.0690.50
268_D271_G1.0690.50
9_Y56_E1.0680.50
35_R72_E1.0610.49
68_H158_T1.0600.49
317_Q338_K1.0580.49
95_G128_V1.0570.49
35_R44_H1.0570.49
194_L250_F1.0560.49
321_W325_K1.0550.49
574_K627_E1.0550.49
434_T690_S1.0530.48
97_T138_H1.0520.48
41_Y68_H1.0510.48
18_L89_I1.0490.48
68_H135_D1.0480.48
260_R315_E1.0470.48
196_E200_A1.0450.48
73_D132_K1.0450.48
639_Q668_K1.0440.47
255_D337_Y1.0430.47
183_L236_F1.0430.47
286_R305_T1.0410.47
283_I590_V1.0400.47
213_I259_I1.0400.47
648_D680_A1.0390.47
92_L131_I1.0370.47
98_K138_H1.0340.46
644_I684_L1.0340.46
55_L329_Y1.0330.46
52_L62_I1.0300.46
44_H97_T1.0300.46
660_L665_I1.0290.46
71_I95_G1.0290.46
317_Q337_Y1.0290.46
672_A682_I1.0290.46
144_K184_R1.0270.46
74_T98_K1.0270.46
112_A463_A1.0270.46
400_T457_I1.0260.46
670_I700_R1.0250.46
143_L155_A1.0250.46
48_V69_D1.0250.46
139_N158_T1.0240.45
270_Y274_G1.0240.45
253_I678_N1.0220.45
35_R135_D1.0200.45
334_H338_K1.0200.45
234_K315_E1.0200.45
242_K338_K1.0190.45
41_Y48_V1.0190.45
37_S139_N1.0150.45
315_E338_K1.0130.44
115_M197_K1.0130.44
143_L150_K1.0130.44
210_Q213_I1.0120.44
242_K337_Y1.0120.44
15_N59_L1.0120.44
583_F668_K1.0120.44
573_V652_L1.0110.44
30_H98_K1.0110.44
74_T77_T1.0110.44
671_N684_L1.0100.44
598_Y624_R1.0090.44
41_Y138_H1.0070.44
41_Y74_T1.0070.44
35_R38_G1.0060.44
139_N150_K1.0030.43
324_H328_E1.0020.43
648_D674_T1.0010.43
383_V436_D1.0010.43
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: (06Sep14)
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  
1vj7A20.46081000.528Contact Map
3l9dA20.26191000.8Contact Map
2be3A20.26891000.834Contact Map
3nqwA20.24371000.846Contact Map
3nr1A20.23951000.85Contact Map
2ekiA10.109299.90.92Contact Map
4ce4c10.329199.60.941Contact Map
1wxqA10.410499.50.944Contact Map
3hvzA60.089699.50.945Contact Map
1wwtA10.121899.30.952Contact 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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