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OPENSEQ.org

clabe_b

ID: 1510100760 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 856 (849)
Sequences: 1346 (42.7)
Seq/Len: 1.585
Nf(neff/√len): 1.5

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: 1.585).

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
13_W20_M3.1711.00
283_T453_L3.1041.00
755_L758_D2.8861.00
65_V208_V2.8111.00
230_N240_T2.3020.99
275_V278_T2.2490.99
92_N633_R2.2330.99
502_K607_A2.2010.99
80_N181_I2.1510.99
747_R758_D2.1320.99
230_N236_T2.1060.99
388_T821_A2.0920.99
700_A818_T2.0810.99
662_E733_I2.0090.98
232_T236_T1.9510.98
305_K332_N1.8330.97
815_L818_T1.8180.96
305_K334_S1.7980.96
92_N236_T1.7910.96
518_L755_L1.7820.96
172_E747_R1.7620.95
350_R668_S1.7450.95
4_K20_M1.7400.95
646_I721_L1.7100.94
6_K102_E1.6720.93
292_V415_T1.6720.93
192_K426_M1.6650.93
167_G192_K1.6470.93
167_G426_M1.6430.93
13_W19_T1.6380.92
181_I758_D1.6260.92
543_Q630_E1.6210.92
309_I317_F1.6160.92
649_S717_F1.6060.91
270_V278_T1.6030.91
350_R357_K1.6020.91
309_I315_R1.5970.91
518_L758_D1.5760.90
700_A837_C1.5760.90
102_E633_R1.5600.90
62_D733_I1.5550.90
269_E292_V1.5460.89
86_L565_L1.5430.89
330_H337_K1.5420.89
195_S426_M1.5410.89
279_D515_I1.5360.89
278_T426_M1.5300.89
421_K804_S1.5290.89
167_G309_I1.5290.89
278_T429_K1.5020.87
388_T515_I1.4960.87
20_M99_D1.4780.86
674_N833_V1.4720.86
108_I209_S1.4700.86
426_M837_C1.4580.85
662_E665_K1.4560.85
84_V502_K1.4520.85
279_D289_N1.4490.85
330_H334_S1.4440.84
321_G328_Q1.4430.84
412_D668_S1.4400.84
659_E662_E1.4390.84
717_F840_I1.4380.84
453_L812_V1.4350.84
371_I375_S1.4330.84
80_N518_L1.4320.84
536_T539_V1.4300.84
13_W24_M1.4290.84
5_E31_T1.4220.83
676_T818_T1.4150.83
398_S676_T1.4130.83
325_N513_V1.4130.83
102_E607_A1.4080.82
278_T733_I1.4080.82
154_I415_T1.4070.82
5_E65_V1.3960.82
426_M704_I1.3900.81
467_I778_V1.3890.81
388_T723_T1.3870.81
588_K636_N1.3860.81
698_V778_V1.3850.81
5_E102_E1.3750.80
333_I856_L1.3720.80
195_S798_N1.3670.80
268_E796_W1.3650.80
137_D352_Q1.3640.79
348_K351_E1.3640.79
305_K319_T1.3630.79
315_R761_R1.3630.79
49_T309_I1.3620.79
236_T633_R1.3610.79
154_I269_E1.3570.79
721_L724_P1.3570.79
658_Q662_E1.3560.79
565_L765_L1.3540.79
671_N683_K1.3530.79
278_T346_A1.3530.79
319_T720_H1.3480.78
424_I676_T1.3430.78
186_N268_E1.3420.78
700_A710_Q1.3390.78
30_A467_I1.3360.77
292_V387_S1.3320.77
272_I514_G1.3250.77
371_I674_N1.3250.77
543_Q583_V1.3240.77
232_T240_T1.3200.76
360_I467_I1.3170.76
10_L219_A1.3160.76
753_L808_K1.3160.76
105_H316_A1.3120.76
515_I731_E1.3120.76
5_E154_I1.3100.75
432_K790_W1.3080.75
2_R834_Q1.3050.75
65_V432_K1.3040.75
183_P841_R1.3040.75
404_G698_V1.3030.75
496_V565_L1.3010.75
336_A676_T1.3010.75
292_V787_R1.2980.75
166_R272_I1.2980.75
194_T717_F1.2960.74
6_K363_Q1.2930.74
194_T762_S1.2910.74
388_T668_S1.2900.74
47_E649_S1.2800.73
305_K321_G1.2790.73
12_R424_I1.2720.72
219_A781_I1.2680.72
325_N842_H1.2670.72
353_F494_L1.2650.72
154_I291_S1.2610.71
328_Q720_H1.2610.71
80_N700_A1.2590.71
659_E667_A1.2580.71
252_R762_S1.2580.71
49_T393_S1.2570.71
181_I700_A1.2560.71
230_N519_F1.2540.71
693_V761_R1.2540.71
161_I553_N1.2540.71
565_L646_I1.2530.71
20_M24_M1.2520.71
194_T724_P1.2510.71
62_D662_E1.2510.71
743_D833_V1.2510.71
333_I641_L1.2500.71
426_M429_K1.2500.71
426_M856_L1.2480.70
513_V648_E1.2480.70
2_R565_L1.2470.70
92_N649_S1.2410.70
166_R426_M1.2400.70
309_I720_H1.2390.70
354_G357_K1.2370.69
319_T726_G1.2350.69
10_L749_V1.2340.69
65_V633_R1.2330.69
317_F432_K1.2330.69
364_S658_Q1.2320.69
328_Q334_S1.2310.69
5_E515_I1.2310.69
192_K837_C1.2310.69
565_L671_N1.2300.69
700_A758_D1.2290.69
290_T388_T1.2270.68
289_N353_F1.2240.68
318_V700_A1.2230.68
350_R356_N1.2230.68
133_D744_R1.2170.68
500_K676_T1.2150.67
369_P689_V1.2130.67
375_S387_S1.2120.67
463_N851_L1.2120.67
677_N698_V1.2120.67
232_T633_R1.2100.67
700_A755_L1.2100.67
300_N423_I1.2100.67
646_I689_V1.2070.67
84_V283_T1.2060.67
375_S755_L1.2050.66
230_N633_R1.2020.66
778_V796_W1.2020.66
496_V739_E1.2000.66
33_K318_V1.1990.66
60_A502_K1.1970.66
31_T463_N1.1970.66
163_T371_I1.1970.66
20_M731_E1.1940.65
65_V779_T1.1920.65
181_I784_L1.1890.65
84_V268_E1.1890.65
270_V277_F1.1880.65
698_V739_E1.1860.65
467_I756_I1.1840.64
758_D851_L1.1830.64
86_L651_N1.1820.64
25_L671_N1.1810.64
62_D829_V1.1810.64
278_T747_R1.1810.64
557_R717_F1.1790.64
86_L208_V1.1780.64
65_V465_S1.1780.64
80_N804_S1.1780.64
99_D356_N1.1770.64
5_E804_S1.1770.64
689_V721_L1.1760.64
219_A629_M1.1760.64
9_H340_N1.1740.63
144_S717_F1.1730.63
792_A798_N1.1730.63
292_V413_T1.1720.63
25_L662_E1.1700.63
683_K700_A1.1690.63
92_N630_E1.1680.63
287_Q481_S1.1680.63
198_T735_E1.1680.63
6_K832_V1.1660.63
491_I817_A1.1650.63
513_V520_L1.1650.63
316_A453_L1.1640.63
630_E633_R1.1640.63
334_S500_K1.1630.62
565_L834_Q1.1620.62
170_Q646_I1.1620.62
269_E348_K1.1610.62
179_L515_I1.1600.62
20_M698_V1.1590.62
31_T515_I1.1590.62
78_D448_N1.1590.62
140_T676_T1.1560.62
62_D842_H1.1560.62
154_I387_S1.1550.62
358_T668_S1.1550.62
426_M756_I1.1540.62
201_I658_Q1.1540.62
471_G476_R1.1520.61
720_H756_I1.1510.61
108_I565_L1.1510.61
219_A715_L1.1500.61
756_I851_L1.1500.61
746_I758_D1.1500.61
513_V762_S1.1490.61
659_E676_T1.1480.61
295_N693_V1.1470.61
187_D190_S1.1470.61
277_F339_N1.1470.61
388_T646_I1.1400.60
321_G633_R1.1400.60
209_S467_I1.1380.60
270_V744_R1.1370.60
20_M281_A1.1350.60
278_T668_S1.1350.60
178_K659_E1.1320.59
132_T630_E1.1320.59
269_E415_T1.1310.59
7_Y474_D1.1310.59
328_Q565_L1.1310.59
318_V446_S1.1240.59
277_F842_H1.1220.58
167_G792_A1.1190.58
423_I702_L1.1190.58
217_Y748_L1.1180.58
20_M318_V1.1170.58
140_T318_V1.1160.58
322_K662_E1.1160.58
717_F724_P1.1110.57
758_D818_T1.1100.57
683_K720_H1.1100.57
181_I804_S1.1090.57
7_Y171_K1.1090.57
352_Q536_T1.1080.57
784_L815_L1.1070.57
667_A715_L1.1070.57
421_K424_I1.1070.57
586_Y608_V1.1040.56
270_V292_V1.1030.56
677_N761_R1.1000.56
649_S749_V1.1000.56
99_D268_E1.0990.56
4_K279_D1.0990.56
28_C398_S1.0990.56
269_E291_S1.0980.56
305_K835_G1.0980.56
6_K333_I1.0970.56
676_T812_V1.0970.56
676_T683_K1.0970.56
19_T659_E1.0960.56
160_N387_S1.0950.56
133_D152_G1.0940.55
602_L706_N1.0940.55
31_T804_S1.0920.55
234_N275_V1.0920.55
364_S565_L1.0910.55
629_M715_L1.0910.55
354_G841_R1.0910.55
6_K715_L1.0910.55
346_A851_L1.0910.55
318_V388_T1.0900.55
187_D833_V1.0880.55
211_E448_N1.0870.55
7_Y337_K1.0870.55
749_V754_A1.0870.55
632_D636_N1.0860.55
63_T356_N1.0840.54
161_I219_A1.0840.54
295_N491_I1.0830.54
274_S765_L1.0820.54
6_K465_S1.0820.54
226_L543_Q1.0820.54
270_V851_L1.0820.54
166_R851_L1.0810.54
236_T726_G1.0810.54
360_I465_S1.0810.54
216_H369_P1.0800.54
279_D668_S1.0800.54
448_N625_H1.0780.54
2_R6_K1.0780.54
142_S798_N1.0780.54
145_G278_T1.0780.54
230_N234_N1.0780.54
659_E756_I1.0760.54
94_N756_I1.0760.54
275_V733_I1.0760.54
84_V518_L1.0740.53
630_E839_A1.0740.53
10_L792_A1.0720.53
275_V426_M1.0710.53
229_N723_T1.0700.53
84_V219_A1.0690.53
80_N671_N1.0680.53
230_N829_V1.0680.53
651_N676_T1.0670.53
234_N345_I1.0660.53
2_R208_V1.0660.53
68_V102_E1.0660.53
315_R739_E1.0660.53
182_I790_W1.0650.52
188_T668_S1.0650.52
136_N756_I1.0650.52
102_E465_S1.0650.52
307_I328_Q1.0650.52
334_S372_V1.0650.52
427_W435_Y1.0630.52
492_E737_G1.0630.52
747_R755_L1.0630.52
114_Q292_V1.0630.52
344_Q393_S1.0620.52
321_G565_L1.0590.52
219_A225_I1.0580.52
792_A841_R1.0570.52
20_M317_F1.0570.52
105_H453_L1.0560.51
230_N796_W1.0550.51
496_V515_I1.0550.51
371_I633_R1.0550.51
356_N649_S1.0520.51
30_A557_R1.0520.51
189_T778_V1.0520.51
365_S419_R1.0520.51
344_Q633_R1.0520.51
295_N415_T1.0520.51
65_V84_V1.0510.51
9_H130_K1.0510.51
219_A724_P1.0500.51
102_E588_K1.0500.51
133_D553_N1.0480.51
12_R279_D1.0480.51
341_T399_T1.0480.51
63_T476_R1.0470.51
92_N238_P1.0470.51
386_N432_K1.0470.51
644_S778_V1.0470.51
161_I743_D1.0470.51
309_I790_W1.0470.51
57_D94_N1.0460.50
181_I755_L1.0460.50
358_T424_I1.0450.50
24_M161_I1.0440.50
154_I833_V1.0440.50
809_N853_R1.0430.50
371_I731_E1.0430.50
20_M168_K1.0430.50
149_M270_V1.0410.50
336_A357_K1.0410.50
155_K676_T1.0410.50
689_V693_V1.0410.50
309_I350_R1.0390.50
168_K208_V1.0390.50
270_V778_V1.0380.50
268_E778_V1.0370.49
60_A854_I1.0360.49
274_S364_S1.0340.49
22_L219_A1.0330.49
308_R316_A1.0330.49
60_A306_R1.0330.49
402_T413_T1.0330.49
146_R270_V1.0320.49
633_R646_I1.0310.49
146_R851_L1.0310.49
10_L345_I1.0300.49
49_T693_V1.0300.49
95_M583_V1.0300.49
65_V360_I1.0300.49
536_T749_V1.0300.49
340_N756_I1.0290.49
710_Q842_H1.0270.48
19_T412_D1.0260.48
735_E754_A1.0260.48
762_S765_L1.0250.48
624_N646_I1.0250.48
289_N344_Q1.0250.48
160_N292_V1.0240.48
671_N854_I1.0230.48
375_S543_Q1.0230.48
344_Q424_I1.0220.48
463_N676_T1.0220.48
278_T851_L1.0210.48
339_N700_A1.0210.48
20_M748_L1.0210.48
34_L677_N1.0200.48
289_N297_T1.0190.48
62_D318_V1.0190.48
219_A227_K1.0190.48
99_D744_R1.0190.48
463_N693_V1.0180.47
424_I807_L1.0170.47
6_K474_D1.0160.47
106_E114_Q1.0160.47
19_T740_R1.0150.47
28_C31_T1.0150.47
333_I337_K1.0150.47
238_P499_T1.0130.47
234_N693_V1.0130.47
133_D306_R1.0130.47
185_D683_K1.0130.47
386_N707_R1.0120.47
693_V781_I1.0100.47
3_V426_M1.0100.47
102_E151_K1.0100.47
236_T275_V1.0090.47
490_K535_M1.0070.46
289_N640_S1.0070.46
494_L518_L1.0070.46
10_L424_I1.0070.46
319_T553_N1.0070.46
49_T841_R1.0060.46
289_N406_N1.0060.46
352_Q372_V1.0060.46
647_E658_Q1.0060.46
335_R565_L1.0060.46
289_N401_S1.0050.46
132_T271_V1.0040.46
160_N172_E1.0040.46
167_G837_C1.0040.46
252_R448_N1.0030.46
163_T426_M1.0030.46
429_K818_T1.0020.46
153_E227_K1.0020.46
798_N840_I1.0020.46
166_R840_I1.0010.46
192_K662_E1.0000.46
33_K398_S1.0000.46
676_T752_S1.0000.46
6_K648_E1.0000.46
474_D620_E1.0000.46
330_H543_Q1.0000.46
363_Q782_V1.0000.46
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  
4tvpG10.52571000.486Contact Map
4r4hA10.39251000.518Contact Map
4jzzA10.39251000.596Contact Map
3lqaG10.33531000.662Contact Map
2bf1A10.34581000.672Contact Map
4i3sG10.21031000.828Contact Map
4tvpB10.14721000.847Contact Map
3tygA10.18221000.858Contact Map
1qbzA30.14021000.879Contact Map
4jpkA10.18691000.884Contact 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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