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MalT180717 1-800 1-600

ID: 1501771250 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 600 (592)
Sequences: 10865 (8868.6)
Seq/Len: 18.353
Nf(neff/√len): 364.5

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: 18.353).

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
543_F546_T5.8361.00
503_E506_R5.1871.00
585_R588_E4.9391.00
464_N467_E4.9141.00
424_R427_E4.4911.00
49_I158_L3.5881.00
187_T190_E3.4751.00
535_S551_Q2.9861.00
495_G511_M2.9291.00
267_T300_E2.9091.00
548_W552_E2.8721.00
27_S55_G2.7831.00
344_H363_H2.7361.00
26_L52_W2.7301.00
191_A222_L2.7101.00
456_A472_A2.6391.00
51_Q55_G2.4821.00
188_H209_S2.4321.00
37_I49_I2.4221.00
469_E473_K2.4041.00
253_D330_Q2.3761.00
53_A126_V2.3531.00
519_R553_K2.3181.00
264_D300_E2.3011.00
27_S52_W2.2971.00
548_W583_W2.2381.00
22_L48_L2.2331.00
548_W576_R2.1831.00
508_L512_Q2.1591.00
452_N471_L2.1351.00
130_Y157_V2.0791.00
23_L52_W2.0661.00
195_F226_A2.0611.00
26_L35_A2.0581.00
264_D267_T2.0571.00
508_L541_Q2.0541.00
519_R527_A2.0401.00
429_N433_A1.9981.00
512_Q534_Q1.9941.00
41_A160_R1.9911.00
191_A212_C1.9841.00
538_L546_T1.9801.00
47_T51_Q1.9751.00
469_E501_K1.9651.00
192_K208_S1.9381.00
580_L588_E1.9331.00
538_L543_F1.9301.00
531_L550_T1.9201.00
49_I126_V1.9191.00
348_A364_A1.9161.00
498_L506_R1.8901.00
552_E576_R1.8861.00
548_W579_L1.8841.00
580_L585_R1.8811.00
577_A593_A1.8711.00
415_Q419_M1.8621.00
416_A432_L1.8571.00
277_L347_A1.8531.00
37_I179_I1.8511.00
369_D372_M1.8501.00
559_N569_H1.8431.00
275_A329_R1.8391.00
51_Q54_A1.8191.00
274_S320_Y1.8151.00
352_M372_M1.7911.00
188_H213_D1.7861.00
12_R51_Q1.7751.00
498_L510_L1.7631.00
191_A217_G1.7571.00
188_H217_G1.7431.00
345_R349_E1.7351.00
538_L550_T1.7241.00
39_S43_Y1.7111.00
193_Q197_C1.7101.00
270_F297_R1.6951.00
590_E594_R1.6671.00
190_E193_Q1.6571.00
580_L592_S1.6541.00
459_A467_E1.6481.00
551_Q575_I1.6481.00
531_L553_K1.6281.00
20_E190_E1.6131.00
469_E494_L1.6091.00
16_T47_T1.6081.00
508_L534_Q1.6021.00
459_A464_N1.5971.00
480_P487_R1.5901.00
270_F289_T1.5861.00
192_K209_S1.5831.00
188_H192_K1.5601.00
16_T51_Q1.5461.00
491_T513_Q1.5411.00
452_N474_L1.5381.00
128_D158_L1.5361.00
125_L155_L1.5341.00
281_N284_L1.5171.00
491_T510_L1.5141.00
473_K477_E1.5011.00
123_L153_L1.4971.00
280_M285_I1.4971.00
271_L328_L1.4961.00
186_F194_F1.4841.00
535_S554_A1.4801.00
480_P513_Q1.4781.00
204_E207_E1.4691.00
419_M424_R1.4681.00
531_L557_L1.4671.00
552_E556_Q1.4441.00
467_E470_R1.4441.00
210_R244_A1.4441.00
210_R214_D1.4341.00
548_W580_L1.4311.00
505_T541_Q1.4251.00
534_Q550_T1.4231.00
210_R213_D1.4181.00
506_R509_A1.4171.00
512_Q516_Q1.4161.00
472_A493_V1.4151.00
215_V225_I1.4131.00
267_T301_I1.4131.00
498_L503_E1.4111.00
511_M533_Q1.4101.00
325_G329_R1.4070.99
412_V431_L1.4000.99
419_M431_L1.3920.99
508_L538_L1.3900.99
549_E553_K1.3900.99
195_F208_S1.3850.99
474_L477_E1.3810.99
534_Q538_L1.3790.99
429_N462_D1.3730.99
43_Y218_W1.3730.99
436_E455_R1.3640.99
573_V595_S1.3560.99
25_K29_A1.3550.99
537_I541_Q1.3460.99
514_T530_S1.3430.99
266_A297_R1.3400.99
546_T549_E1.3400.99
556_Q560_E1.3340.99
559_N595_S1.3310.99
555_F569_H1.3310.99
18_V23_L1.3290.99
573_V592_S1.3150.99
306_L324_F1.3090.99
134_T138_I1.3050.99
24_A28_G1.2950.99
555_F576_R1.2950.99
272_L339_E1.2940.99
473_K494_L1.2930.99
19_R22_L1.2920.99
419_M427_E1.2910.99
326_N330_Q1.2910.99
479_L486_S1.2900.99
515_E534_Q1.2870.99
42_G45_K1.2860.99
512_Q546_T1.2790.99
453_A493_V1.2770.99
49_I53_A1.2720.99
550_T553_K1.2700.99
276_I347_A1.2670.99
269_H273_K1.2590.99
17_V197_C1.2570.99
266_A293_N1.2560.99
579_L583_W1.2540.99
194_F222_L1.2500.99
257_D327_F1.2460.98
545_Q583_W1.2450.98
275_A328_L1.2440.98
308_L319_C1.2390.98
576_R580_L1.2380.98
18_V22_L1.2330.98
580_L583_W1.2290.98
41_A255_L1.2280.98
440_K448_H1.2280.98
23_L51_Q1.2260.98
555_F559_N1.2240.98
58_D121_S1.2190.98
265_L268_R1.2150.98
535_S547_A1.2120.98
340_L344_H1.2020.98
449_A475_A1.2000.98
274_S285_I1.1970.98
43_Y219_A1.1950.98
205_A209_S1.1910.98
36_L159_S1.1880.98
519_R531_L1.1880.98
256_V324_F1.1880.98
274_S280_M1.1860.98
40_P43_Y1.1820.98
21_R25_K1.1820.98
471_L474_L1.1800.98
52_W156_V1.1780.98
268_R272_L1.1720.98
364_A372_M1.1720.98
38_T178_E1.1710.98
38_T176_L1.1690.97
15_H197_C1.1690.97
518_A526_Y1.1660.97
459_A471_L1.1650.97
62_Y74_F1.1650.97
532_I575_I1.1640.97
576_R592_S1.1640.97
555_F573_V1.1600.97
46_T129_D1.1600.97
516_Q519_R1.1580.97
270_F294_G1.1580.97
559_N573_V1.1560.97
515_E530_S1.1540.97
515_E527_A1.1510.97
506_R510_L1.1500.97
555_F572_L1.1500.97
49_I156_V1.1500.97
551_Q579_L1.1480.97
428_V458_V1.1470.97
63_S129_D1.1440.97
310_R319_C1.1410.97
284_L350_S1.1400.97
20_E24_A1.1400.97
192_K212_C1.1390.97
554_A572_L1.1390.97
544_L579_L1.1360.97
456_A475_A1.1350.97
495_G514_T1.1350.97
455_R459_A1.1310.97
511_M530_S1.1300.97
523_V526_Y1.1290.97
474_L478_E1.1270.97
211_I222_L1.1270.97
467_E471_L1.1260.97
433_A455_R1.1260.97
57_N122_P1.1240.97
46_T50_S1.1220.97
342_E346_A1.1200.96
492_S533_Q1.1140.96
269_H339_E1.1120.96
433_A437_H1.1100.96
209_S213_D1.1040.96
130_Y139_H1.1020.96
469_E497_V1.1020.96
528_L558_I1.1010.96
257_D261_D1.1000.96
434_R438_E1.1000.96
375_D379_N1.0990.96
61_W126_V1.0960.96
505_T545_Q1.0960.96
214_D326_N1.0950.96
449_A479_L1.0950.96
53_A124_Y1.0940.96
518_A530_S1.0900.96
212_C222_L1.0870.96
286_T294_G1.0850.96
192_K205_A1.0840.96
494_L510_L1.0830.96
307_F320_Y1.0800.95
515_E519_R1.0770.95
272_L331_R1.0750.95
473_K506_R1.0720.95
472_A490_A1.0670.95
345_R369_D1.0670.95
440_K474_L1.0650.95
128_D131_H1.0640.95
452_N478_E1.0620.95
553_K556_Q1.0610.95
146_I155_L1.0600.95
389_E392_L1.0520.95
192_K196_D1.0500.94
39_S44_G1.0480.94
456_A471_L1.0470.94
267_T304_Q1.0450.94
415_Q431_L1.0450.94
75_A78_L1.0440.94
528_L554_A1.0410.94
22_L190_E1.0400.94
33_R36_L1.0360.94
494_L498_L1.0360.94
412_V434_R1.0360.94
476_L494_L1.0360.94
29_A35_A1.0340.94
198_R223_Q1.0330.94
495_G510_L1.0220.93
224_L259_V1.0200.93
211_I240_A1.0190.93
470_R474_L1.0180.93
37_I48_L1.0180.93
527_A531_L1.0140.93
558_I572_L1.0110.93
548_W585_R1.0110.93
276_I329_R1.0110.93
21_R24_A1.0100.93
509_A513_Q1.0100.93
50_S54_A1.0090.93
469_E498_L1.0090.93
515_E531_L1.0080.93
441_D520_Q1.0060.93
558_I568_M1.0030.93
495_G507_S1.0020.92
533_Q575_I1.0000.92
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  
1z6tA40.7151000.55Contact Map
2a5yB20.57671000.617Contact Map
3sfzA10.92831000.629Contact Map
1vt4I80.711799.90.681Contact Map
2qenA10.518399.90.681Contact Map
2fnaA20.506799.90.704Contact Map
4jhrA20.358399.90.718Contact Map
4a1sA20.599.80.74Contact Map
3sf4A30.436799.80.742Contact Map
1fnnA20.521799.80.746Contact 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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