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MalT180717

ID: 1500375853 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 901 (879)
Sequences: 4910 (3710.2)
Seq/Len: 5.586
Nf(neff/√len): 125.1

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: 5.586).

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
665_D668_A7.6811.00
585_R588_E7.2331.00
344_H363_H6.2601.00
624_D627_N5.7721.00
49_I158_L5.5151.00
543_F546_T5.2211.00
703_E706_P4.5181.00
191_A222_L4.3051.00
464_N467_E4.3051.00
424_R427_E3.7641.00
503_E506_R3.4791.00
187_T190_E3.3281.00
839_R842_Q3.2611.00
851_Y859_E3.2591.00
590_E622_R3.2431.00
871_I875_Y3.2361.00
629_R663_T3.2011.00
847_I856_I3.1621.00
130_Y157_V3.1271.00
743_R746_D3.1261.00
277_L347_A3.1111.00
548_W552_E2.9161.00
274_S320_Y2.9051.00
53_A126_V2.8671.00
49_I126_V2.8441.00
580_L588_E2.8101.00
552_E576_R2.8051.00
267_T300_E2.7941.00
548_W583_W2.7931.00
264_D300_E2.7861.00
188_H209_S2.7831.00
535_S551_Q2.7341.00
39_S43_Y2.7091.00
195_F226_A2.6671.00
27_S55_G2.6301.00
47_T51_Q2.6241.00
348_A364_A2.5951.00
841_W845_G2.5551.00
37_I49_I2.5371.00
50_S61_W2.5251.00
191_A212_C2.4681.00
352_M372_M2.4551.00
58_D121_S2.4371.00
128_D158_L2.4331.00
26_L52_W2.4101.00
840_E877_K2.3991.00
264_D267_T2.3821.00
211_I222_L2.3751.00
41_A160_R2.3711.00
844_L874_L2.2891.00
16_T47_T2.2771.00
577_A593_A2.2681.00
22_L48_L2.2281.00
580_L592_S2.2261.00
587_D622_R2.2211.00
325_G329_R2.2101.00
660_W665_D2.2001.00
619_S627_N2.1781.00
580_L585_R2.1761.00
51_Q54_A2.1171.00
590_E615_L2.1131.00
712_E734_L2.1101.00
268_R272_L2.0191.00
576_R592_S1.9941.00
26_L35_A1.9761.00
224_L259_V1.9631.00
545_Q583_W1.9431.00
275_A329_R1.9411.00
865_T872_R1.9391.00
345_R349_E1.9161.00
252_S330_Q1.9151.00
559_N595_S1.9111.00
660_W668_A1.9111.00
190_E193_Q1.9041.00
272_L339_E1.9021.00
862_V867_I1.8971.00
267_T301_I1.8941.00
192_K208_S1.8561.00
719_R753_D1.8481.00
627_N631_Q1.8391.00
619_S631_Q1.8381.00
847_I871_I1.8371.00
594_R615_L1.8301.00
193_Q197_C1.8201.00
538_L543_F1.8091.00
548_W576_R1.8021.00
209_S213_D1.8011.00
657_V673_L1.7961.00
698_Q703_E1.7851.00
715_N734_L1.7831.00
288_V350_S1.7801.00
854_E858_G1.7801.00
619_S624_D1.7781.00
270_F297_R1.7681.00
265_L268_R1.7661.00
593_A618_C1.7601.00
573_V595_S1.7491.00
276_I329_R1.7431.00
548_W580_L1.7431.00
188_H212_C1.7411.00
276_I343_I1.7331.00
19_R22_L1.7311.00
875_Y880_V1.7271.00
495_G511_M1.7171.00
508_L512_Q1.7151.00
844_L890_A1.7051.00
849_S859_E1.6991.00
130_Y139_H1.6861.00
345_R369_D1.6781.00
46_T50_S1.6741.00
52_W156_V1.6721.00
590_E594_R1.6701.00
171_R178_E1.6641.00
618_C622_R1.6621.00
844_L886_A1.6491.00
277_L288_V1.6451.00
855_Q858_G1.6380.99
538_L546_T1.6330.99
329_R340_L1.6320.99
271_L301_I1.6310.99
728_N754_A1.6260.99
708_E741_A1.6240.99
269_H339_E1.6200.99
271_L328_L1.6190.99
625_L663_T1.6160.99
589_A618_C1.6090.99
881_A885_D1.6070.99
869_T873_N1.6020.99
847_I853_N1.6000.99
731_L753_D1.5970.99
125_L155_L1.5960.99
75_A78_L1.5910.99
43_Y219_A1.5780.99
49_I53_A1.5760.99
852_S855_Q1.5600.99
555_F576_R1.5450.99
389_E392_L1.5450.99
419_M431_L1.5280.99
204_E207_E1.5280.99
735_N754_A1.5270.99
854_E864_A1.5240.99
276_I347_A1.5230.99
735_N751_L1.5200.99
415_Q419_M1.5200.99
577_A589_A1.5120.99
576_R580_L1.5070.99
629_R633_N1.5000.99
186_F194_F1.4980.99
51_Q55_G1.4940.99
627_N630_S1.4930.99
332_C343_I1.4740.99
149_Q153_L1.4730.99
653_N672_W1.4680.99
547_A579_L1.4650.99
284_L350_S1.4580.99
660_W672_W1.4550.98
40_P43_Y1.4470.98
37_I158_L1.4440.98
27_S52_W1.4440.98
393_L396_S1.4420.98
53_A124_Y1.4380.98
58_D123_L1.4370.98
854_E869_T1.4320.98
853_N868_K1.4300.98
429_N433_A1.4290.98
698_Q706_P1.4280.98
160_R321_H1.4240.98
731_L750_V1.4230.98
738_Y750_V1.4220.98
49_I156_V1.4210.98
419_M427_E1.4160.98
573_V592_S1.4110.98
35_A154_T1.4080.98
853_N875_Y1.3960.98
667_A701_L1.3890.98
748_Q752_L1.3840.98
708_E712_E1.3830.98
128_D131_H1.3810.98
579_L583_W1.3780.98
626_D663_T1.3780.98
342_E346_A1.3740.98
307_F324_F1.3700.98
844_L847_I1.3650.97
25_K183_Q1.3650.97
34_L146_I1.3630.97
844_L880_V1.3600.97
843_V870_H1.3580.97
287_R353_A1.3570.97
159_S163_P1.3570.97
36_L159_S1.3550.97
548_W579_L1.3520.97
588_E591_A1.3510.97
416_A435_A1.3500.97
590_E619_S1.3470.97
273_K347_A1.3450.97
880_V889_H1.3430.97
734_L750_V1.3420.97
694_I698_Q1.3380.97
512_Q534_Q1.3340.97
322_P325_G1.3330.97
126_V156_V1.3300.97
870_H873_N1.3280.97
738_Y746_D1.3270.97
847_I874_L1.3260.97
866_T877_K1.3260.97
590_E618_C1.3200.97
46_T128_D1.3160.97
697_A701_L1.3160.97
546_T549_E1.3140.97
188_H192_K1.3130.97
847_I872_R1.3110.97
196_D208_S1.3040.96
708_E734_L1.3030.96
873_N876_Q1.3030.96
866_T870_H1.3030.96
615_L619_S1.2970.96
416_A432_L1.2960.96
636_E656_R1.2950.96
20_E190_E1.2920.96
837_T877_K1.2910.96
889_H893_L1.2830.96
263_V267_T1.2770.96
734_L738_Y1.2750.96
20_E24_A1.2750.96
731_L757_L1.2710.96
473_K477_E1.2690.96
280_M318_F1.2650.96
865_T869_T1.2620.95
749_R753_D1.2620.95
53_A59_I1.2580.95
556_Q560_E1.2570.95
719_R727_L1.2570.95
16_T19_R1.2560.95
210_R214_D1.2560.95
210_R213_D1.2560.95
62_Y77_Y1.2540.95
394_E398_K1.2510.95
134_T138_I1.2470.95
270_F294_G1.2470.95
593_A615_L1.2460.95
531_L557_L1.2370.95
41_A323_L1.2350.95
290_G346_A1.2310.95
220_T321_H1.2240.94
853_N883_R1.2240.94
130_Y133_I1.2210.94
531_L553_K1.2170.94
551_Q575_I1.2150.94
144_F148_H1.2150.94
885_D888_Q1.2110.94
746_D749_R1.2050.94
851_Y855_Q1.2040.94
270_F285_I1.2040.94
192_K205_A1.2020.94
661_Q697_A1.1950.93
846_L859_E1.1950.93
24_A28_G1.1950.93
882_H885_D1.1940.93
597_I615_L1.1940.93
224_L227_L1.1930.93
18_V23_L1.1880.93
546_T550_T1.1880.93
872_R876_Q1.1870.93
123_L153_L1.1860.93
880_V886_A1.1840.93
552_E580_L1.1820.93
21_R25_K1.1810.93
670_A701_L1.1800.93
671_N675_H1.1800.93
195_F208_S1.1790.93
847_I865_T1.1760.93
511_M534_Q1.1760.93
843_V860_L1.1750.93
552_E556_Q1.1750.93
47_T223_Q1.1660.92
299_E303_R1.1650.92
16_T51_Q1.1630.92
550_T553_K1.1620.92
666_K697_A1.1570.92
853_N856_I1.1570.92
512_Q543_F1.1540.92
593_A611_C1.1530.92
837_T873_N1.1510.92
831_I835_P1.1510.92
869_T872_R1.1490.92
746_D750_V1.1480.91
862_V870_H1.1430.91
573_V599_V1.1410.91
188_H213_D1.1380.91
362_H366_A1.1370.91
670_A697_A1.1360.91
865_T868_K1.1350.91
515_E534_Q1.1350.91
753_D757_L1.1330.91
580_L583_W1.1320.91
45_K160_R1.1300.91
695_A711_L1.1290.91
358_S383_S1.1260.90
41_A321_H1.1260.90
559_N569_H1.1260.90
695_A707_A1.1250.90
712_E716_E1.1240.90
308_L319_C1.1200.90
365_L395_E1.1150.90
555_F569_H1.1140.90
573_V596_G1.1130.90
850_G853_N1.1100.90
47_T50_S1.1080.89
37_I156_V1.1070.89
57_N124_Y1.1070.89
272_L332_C1.1060.89
180_G183_Q1.1060.89
633_N656_R1.1060.89
656_R672_W1.1050.89
216_S322_P1.1050.89
279_S359_E1.1020.89
727_L731_L1.1010.89
160_R220_T1.1010.89
188_H208_S1.1010.89
750_V753_D1.0950.89
257_D331_R1.0940.89
506_R509_A1.0940.89
711_L730_N1.0930.89
866_T878_L1.0930.89
364_A376_I1.0910.88
274_S327_F1.0890.88
257_D327_F1.0850.88
62_Y127_I1.0850.88
519_R553_K1.0840.88
508_L538_L1.0830.88
467_E470_R1.0800.88
329_R344_H1.0790.88
306_L324_F1.0790.88
498_L510_L1.0780.88
215_V222_L1.0760.88
141_S145_F1.0760.88
356_F359_E1.0760.88
40_P185_A1.0740.87
670_A694_I1.0700.87
594_R598_E1.0690.87
581_W586_L1.0690.87
695_A714_L1.0690.87
42_G45_K1.0680.87
889_H892_Q1.0660.87
342_E345_R1.0660.87
548_W585_R1.0650.87
857_A862_V1.0640.87
38_T178_E1.0630.87
198_R223_Q1.0630.87
508_L534_Q1.0620.87
340_L344_H1.0580.86
53_A61_W1.0570.86
875_Y882_H1.0560.86
127_I157_V1.0560.86
127_I142_M1.0550.86
756_K759_N1.0520.86
360_A364_A1.0510.86
385_F418_L1.0510.86
374_R378_L1.0500.86
779_R782_I1.0500.86
846_L851_Y1.0500.86
19_R23_L1.0470.86
220_T251_L1.0470.86
267_T304_Q1.0470.86
23_L51_Q1.0450.85
322_P326_N1.0450.85
509_A513_Q1.0440.85
272_L331_R1.0410.85
215_V225_I1.0400.85
192_K196_D1.0370.85
41_A254_Y1.0370.85
266_A297_R1.0360.85
833_T889_H1.0360.85
222_L416_A1.0360.85
629_R656_R1.0350.85
360_A376_I1.0350.85
796_Q799_L1.0350.85
586_L618_C1.0320.84
24_A27_S1.0310.84
601_S634_R1.0290.84
577_A614_M1.0290.84
352_M376_I1.0280.84
847_I886_A1.0270.84
21_R187_T1.0250.84
38_T159_S1.0250.84
670_A674_R1.0240.84
694_I710_V1.0230.84
557_L560_E1.0220.84
881_A884_Q1.0210.84
752_L756_K1.0200.83
128_D322_P1.0200.83
412_V431_L1.0180.83
33_R154_T1.0180.83
661_Q669_A1.0170.83
369_D372_M1.0150.83
711_L715_N1.0150.83
37_I179_I1.0140.83
279_S317_W1.0130.83
77_Y133_I1.0120.83
549_E553_K1.0120.83
850_G884_Q1.0110.83
837_T870_H1.0110.83
538_L550_T1.0100.83
361_I380_H1.0090.83
300_E304_Q1.0090.83
270_F298_L1.0080.82
272_L328_L1.0080.82
276_I332_C1.0070.82
473_K494_L1.0070.82
339_E342_E1.0040.82
512_Q516_Q1.0020.82
281_N284_L1.0020.82
709_I713_E1.0020.82
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  
1z6tA40.47611000.72Contact Map
2a5yB20.38181000.763Contact Map
1hz4A10.40621000.775Contact Map
2qenA10.34521000.796Contact Map
2fnaA20.336399.90.811Contact Map
3sf4A30.375199.90.815Contact Map
1w3bA20.428499.90.819Contact Map
3ro2A10.34399.90.823Contact Map
4ui9O1099.90.824Contact Map
4a1sA20.344199.90.826Contact 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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