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xpr1

ID: 1501077592 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 696 (651)
Sequences: 683 (450.7)
Seq/Len: 1.049
Nf(neff/√len): 17.7

Jackhmmer Results: (2016_04)
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: 1.049).

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
399_Q608_N3.0201.00
415_C440_C2.8501.00
460_F480_A2.5560.99
359_L375_L2.4930.99
454_I458_L2.3930.99
362_P371_R2.2960.99
534_W562_A2.2810.99
65_E68_K2.2320.98
526_L567_V2.1480.98
459_R462_Q2.0350.96
203_T214_A2.0310.96
541_A549_E2.0270.96
522_S571_F1.9930.96
15_W19_Y1.9880.96
481_G524_Y1.9490.95
286_G317_F1.8940.94
381_V397_A1.8460.93
15_W22_Y1.8460.93
380_R393_D1.8270.92
512_Y516_V1.7840.91
19_Y22_Y1.7650.91
645_M648_Q1.7130.89
3_F7_L1.7040.88
2_K7_L1.6970.88
479_N482_K1.6950.88
273_R409_D1.6850.88
641_L645_M1.6740.87
647_D650_D1.6670.87
558_Y610_F1.6390.86
379_F387_H1.6250.85
604_R607_W1.6240.85
76_K79_E1.6130.84
29_L166_I1.6010.84
94_S98_Q1.5970.84
607_W611_R1.5800.83
236_R318_E1.5800.83
20_I155_G1.5720.82
14_E19_Y1.5720.82
562_A610_F1.5660.82
619_N624_R1.5640.82
600_E603_R1.5600.82
465_R469_D1.5550.81
618_N621_G1.5540.81
291_G609_F1.5380.80
326_L354_F1.5370.80
482_K566_D1.5290.80
63_E175_W1.5110.79
161_K165_K1.5100.79
457_W461_I1.5090.79
382_F458_L1.5010.78
283_F324_G1.4860.77
162_K165_K1.4750.76
603_R607_W1.4720.76
383_T387_H1.4650.76
281_F403_L1.4650.76
241_C322_F1.4590.75
66_L156_F1.4590.75
381_V385_P1.4560.75
489_M518_Y1.4540.75
481_G485_T1.4520.75
475_P532_M1.4400.74
612_L617_L1.4380.74
459_R483_Y1.4140.72
113_P117_L1.4100.72
658_N662_K1.4070.71
272_Y330_S1.4060.71
280_E602_F1.4010.71
607_W619_N1.3990.71
570_R573_W1.3960.71
644_Q647_D1.3930.70
94_S97_A1.3850.70
528_W604_R1.3850.70
644_Q648_Q1.3790.69
621_G625_A1.3740.69
403_L406_I1.3680.68
58_F297_V1.3660.68
280_E598_P1.3660.68
29_L610_F1.3580.67
483_Y607_W1.3550.67
467_Y477_L1.3490.67
456_A486_T1.3340.65
3_F22_Y1.3250.65
642_L646_M1.3240.65
614_N619_N1.3190.64
604_R619_N1.3170.64
521_S525_T1.3150.64
69_I296_G1.3100.63
642_L645_M1.3100.63
615_E624_R1.3090.63
602_F606_V1.3070.63
570_R611_R1.3060.63
621_G624_R1.3020.63
140_L206_L1.3000.63
118_S121_E1.2940.62
651_G654_N1.2930.62
114_V117_L1.2930.62
138_F198_T1.2890.62
640_T643_E1.2830.61
109_Q112_K1.2820.61
151_L164_D1.2790.61
107_L112_K1.2780.61
456_A490_V1.2770.60
296_G566_D1.2760.60
464_L480_A1.2750.60
475_P566_D1.2720.60
271_I486_T1.2710.60
478_V481_G1.2690.60
368_Y372_F1.2680.60
158_K165_K1.2640.59
618_N622_E1.2610.59
288_N292_W1.2550.59
357_F520_I1.2540.58
563_I567_V1.2530.58
447_V451_V1.2530.58
113_P116_H1.2520.58
659_R662_K1.2450.58
489_M553_Y1.2440.57
528_W607_W1.2390.57
98_Q101_S1.2370.57
214_A218_L1.2370.57
643_E646_M1.2360.57
618_N624_R1.2340.57
528_W603_R1.2310.56
122_R245_I1.2310.56
69_I155_G1.2310.56
530_L563_I1.2290.56
389_V394_F1.2240.56
79_E562_A1.2190.55
378_L400_L1.2170.55
650_D654_N1.2170.55
529_D570_R1.2150.55
90_E631_V1.2120.55
247_L325_I1.2120.55
559_Y573_W1.2110.54
216_K317_F1.2080.54
3_F13_P1.2060.54
398_D528_W1.2050.54
529_D533_D1.2040.54
206_L296_G1.2030.54
613_E619_N1.2000.53
7_L20_I1.1990.53
242_G538_D1.1990.53
544_N556_K1.1970.53
603_R619_N1.1960.53
117_L120_E1.1960.53
112_K117_L1.1950.53
105_T108_R1.1940.53
641_L646_M1.1920.53
138_F278_L1.1910.53
534_W610_F1.1890.52
381_V401_N1.1890.52
624_R630_S1.1880.52
469_D477_L1.1880.52
479_N483_Y1.1870.52
14_E22_Y1.1850.52
21_Q68_K1.1840.52
456_A622_E1.1840.52
518_Y572_A1.1820.52
20_I69_I1.1820.52
483_Y611_R1.1800.52
572_A599_L1.1770.51
279_I514_W1.1730.51
340_S564_I1.1720.51
546_F597_A1.1710.51
58_F160_L1.1710.51
3_F15_W1.1700.51
155_G470_T1.1680.50
81_Q520_I1.1660.50
76_K145_L1.1660.50
537_F563_I1.1650.50
607_W613_E1.1630.50
656_Q659_R1.1620.50
104_V111_R1.1560.49
381_V400_L1.1540.49
291_G297_V1.1540.49
537_F568_I1.1530.49
652_V655_R1.1480.49
651_G655_R1.1460.48
323_L365_T1.1460.48
398_D402_S1.1400.48
199_E218_L1.1360.47
75_E209_G1.1360.47
644_Q649_D1.1360.47
243_I249_I1.1350.47
442_K589_G1.1320.47
59_F62_C1.1280.47
561_C565_E1.1260.46
106_T111_R1.1260.46
600_E604_R1.1260.46
613_E616_H1.1250.46
455_P462_Q1.1240.46
658_N661_W1.1240.46
69_I629_I1.1240.46
158_K161_K1.1230.46
23_E27_D1.1230.46
459_R463_C1.1220.46
460_F487_F1.1200.46
134_A631_V1.1200.46
444_T448_R1.1190.46
55_E142_L1.1180.46
459_R465_R1.1160.46
77_L188_C1.1150.45
152_N158_K1.1150.45
291_G295_A1.1140.45
105_T109_Q1.1140.45
115_F120_E1.1110.45
53_K623_F1.1100.45
479_N528_W1.1080.45
381_V458_L1.1010.44
615_E619_N1.1010.44
281_F605_F1.1010.44
612_L624_R1.1010.44
137_E151_L1.1000.44
156_F164_D1.0990.44
530_L567_V1.0980.44
407_L453_C1.0980.44
114_V118_S1.0970.44
107_L110_R1.0970.44
361_N365_T1.0960.44
66_L72_F1.0940.43
355_M366_F1.0940.43
466_R476_H1.0940.43
26_K165_K1.0920.43
161_K164_D1.0910.43
301_L630_S1.0910.43
211_R215_M1.0910.43
94_S101_S1.0910.43
87_L90_E1.0900.43
163_H384_A1.0900.43
495_L510_F1.0880.43
483_Y528_W1.0850.43
108_R111_R1.0850.43
104_V109_Q1.0840.43
239_L294_Q1.0810.42
158_K162_K1.0800.42
219_R308_R1.0770.42
643_E649_D1.0750.42
348_P351_L1.0740.42
115_F118_S1.0730.42
106_T112_K1.0680.41
655_R658_N1.0670.41
96_D100_E1.0660.41
569_L599_L1.0660.41
643_E647_D1.0650.41
569_L573_W1.0650.41
154_T164_D1.0630.41
377_L392_A1.0630.41
547_L560_Y1.0620.41
2_K165_K1.0620.41
459_R611_R1.0620.41
102_T105_T1.0610.40
607_W614_N1.0610.40
657_K662_K1.0610.40
356_V564_I1.0600.40
646_M650_D1.0580.40
380_R394_F1.0580.40
142_L195_I1.0570.40
93_S97_A1.0560.40
657_K661_W1.0550.40
211_R218_L1.0530.40
360_I516_V1.0520.40
356_V524_Y1.0520.40
654_N658_N1.0510.40
565_E606_V1.0500.39
323_L329_L1.0500.39
97_A101_S1.0490.39
326_L356_V1.0480.39
114_V119_H1.0470.39
17_K20_I1.0460.39
103_G106_T1.0450.39
16_R309_S1.0450.39
562_A606_V1.0440.39
144_L464_L1.0440.39
616_H623_F1.0440.39
649_D653_R1.0430.39
110_R114_V1.0430.39
73_Y564_I1.0430.39
364_K368_Y1.0430.39
199_E608_N1.0420.39
535_G634_L1.0410.39
384_A628_D1.0400.39
528_W533_D1.0400.39
21_Q65_E1.0390.38
392_A395_W1.0390.38
292_W303_F1.0350.38
102_T108_R1.0350.38
256_V259_L1.0330.38
7_L22_Y1.0330.38
365_T595_V1.0320.38
88_Q197_E1.0310.38
104_V107_L1.0280.38
414_I447_V1.0270.37
300_V305_L1.0270.37
384_A393_D1.0260.37
107_L111_R1.0260.37
493_A578_S1.0250.37
647_D651_G1.0250.37
389_V393_D1.0240.37
39_V43_D1.0230.37
272_Y494_A1.0220.37
608_N621_G1.0220.37
35_Q200_A1.0220.37
398_D483_Y1.0210.37
490_V518_Y1.0210.37
104_V112_K1.0190.37
646_M649_D1.0190.37
141_S314_Q1.0190.37
308_R318_E1.0170.37
249_I357_F1.0170.37
269_I278_L1.0160.36
115_F119_H1.0160.36
290_Y309_S1.0150.36
100_E103_G1.0150.36
346_V350_A1.0140.36
113_P356_V1.0140.36
656_Q660_S1.0140.36
479_N607_W1.0140.36
65_E383_T1.0130.36
449_A493_A1.0130.36
458_L476_H1.0120.36
66_L198_T1.0120.36
653_R660_S1.0100.36
68_K72_F1.0100.36
381_V535_G1.0090.36
447_V450_I1.0090.36
237_V297_V1.0070.36
653_R657_K1.0060.36
211_R219_R1.0050.36
645_M651_G1.0050.36
458_L461_I1.0040.35
116_H120_E1.0040.35
108_R112_K1.0040.35
528_W619_N1.0030.35
25_F61_T1.0030.35
87_L569_L1.0020.35
243_I246_V1.0010.35
113_P119_H1.0010.35
458_L477_L1.0010.35
462_Q483_Y1.0010.35
385_P405_V1.0000.35
59_F175_W1.0000.35
646_M652_V1.0000.35
473_A478_V1.0000.35
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  
4besA10.389494.40.972Contact Map
3ojaB10.143739.50.984Contact Map
4kblA20.188224.10.985Contact Map
3f1iS20.110620.80.986Contact Map
3mq9A80.172416.30.986Contact Map
2qagC10.035915.70.987Contact Map
4gmoA10.0747140.987Contact Map
1i84S20140.987Contact Map
5a63B1013.30.987Contact Map
3fx0A20.10213.30.987Contact 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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