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ID: 1516120827 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 605 (601)
Sequences: 6041 (2801.5)
Seq/Len: 10.052
Nf(neff/√len): 114.3

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: 10.052).

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
137_E164_E5.2361.00
224_D315_R4.8281.00
235_R311_D4.3991.00
236_L300_V3.6071.00
278_Q299_K3.5181.00
204_I323_A3.3761.00
398_S410_T3.2521.00
351_K355_E3.2271.00
193_Y316_S3.1691.00
354_A360_E3.0461.00
240_L298_I2.9541.00
241_V253_R2.9391.00
437_T458_N2.9351.00
220_A323_A2.8771.00
243_E304_K2.8651.00
137_E166_K2.8591.00
439_H453_S2.8581.00
191_A202_I2.7861.00
68_A230_E2.7521.00
366_N369_E2.6931.00
29_N36_T2.6681.00
195_L232_F2.6661.00
350_Q363_K2.6401.00
410_T413_A2.5921.00
191_A204_I2.5201.00
563_T567_S2.5201.00
310_E314_N2.4161.00
304_K307_S2.4131.00
313_V348_M2.3601.00
318_E322_V2.3361.00
243_E246_K2.2801.00
124_K128_E2.2681.00
400_G408_M2.2661.00
240_L266_A2.2421.00
343_Q346_M2.2281.00
570_T574_T2.1951.00
514_K518_D2.1931.00
409_T426_F2.1901.00
305_L346_M2.1791.00
159_R164_E2.1691.00
580_D583_A2.1571.00
489_K496_E2.1391.00
309_V346_M2.1301.00
352_K355_E2.1281.00
441_L453_S2.1181.00
527_R531_E2.0961.00
585_E589_Q2.0681.00
232_F312_L2.0421.00
5_I16_V1.9971.00
63_Q92_K1.9821.00
546_T595_S1.9741.00
237_I263_K1.9561.00
317_I356_F1.9471.00
437_T456_Q1.9451.00
587_K590_E1.9151.00
321_K325_Q1.9101.00
33_D52_Q1.9021.00
559_A563_T1.9011.00
204_I334_I1.8961.00
141_T375_A1.8921.00
589_Q593_Q1.8611.00
509_E513_Q1.8561.00
123_M126_T1.8441.00
517_R521_A1.8391.00
392_L417_T1.8321.00
513_Q517_R1.8261.00
395_T478_I1.8221.00
4_I166_K1.8161.00
522_N525_A1.8141.00
305_L343_Q1.8121.00
301_T304_K1.8101.00
125_K129_D1.7831.00
330_S333_D1.7561.00
15_C26_V1.7491.00
240_L262_L1.7461.00
318_E321_K1.7381.00
322_V326_D1.7351.00
280_D297_N1.7331.00
232_F305_L1.7261.00
520_E523_A1.7231.00
547_R573_E1.6991.00
439_H456_Q1.6921.00
234_S238_N1.6901.00
122_K126_T1.6871.00
309_V313_V1.6781.00
307_S310_E1.6751.00
48_T118_E1.6711.00
2_G137_E1.6581.00
78_Q95_A1.6541.00
15_C35_T1.6481.00
61_N64_N1.6421.00
306_E351_K1.6221.00
195_L200_F1.6061.00
265_A269_A1.6031.00
239_Y304_K1.6021.00
140_I158_G1.6021.00
20_D25_R1.6011.00
92_K104_E1.6001.00
410_T446_K1.5781.00
17_A376_A1.5681.00
110_M115_I1.5661.00
517_R520_E1.5631.00
423_S473_E1.5631.00
104_E109_K1.5631.00
408_M441_L1.5631.00
524_E528_K1.5431.00
267_E271_I1.5411.00
188_R336_D1.5381.00
317_I321_K1.5331.00
4_I379_G1.5231.00
152_Q156_D1.5061.00
189_T206_E1.4971.00
345_R368_D1.4931.00
586_A590_E1.4831.00
240_L281_V1.4801.00
321_K356_F1.4691.00
588_M592_A1.4681.00
567_S571_A1.4671.00
324_L331_V1.4601.00
453_S456_Q1.4491.00
17_A372_A1.4471.00
116_S154_T1.4461.00
242_E253_R1.4461.00
600_E604_Q1.4441.00
289_D294_K1.4411.00
592_A596_Q1.4391.00
42_Y118_E1.4371.00
304_K308_L1.4301.00
423_S475_T1.4271.00
156_D159_R1.4261.00
118_E121_K1.4241.00
518_D521_A1.4201.00
222_N322_V1.4191.00
302_R306_E1.4191.00
69_I115_I1.4191.00
322_V325_Q1.4191.00
326_D414_K1.4151.00
170_N173_T1.4111.00
269_A279_T1.4111.00
583_A587_K1.4060.99
9_L154_T1.4030.99
63_Q256_P1.4020.99
69_I116_S1.3970.99
113_P156_D1.3950.99
530_D534_Q1.3880.99
83_Q86_V1.3830.99
348_M351_K1.3820.99
508_N511_E1.3790.99
317_I352_K1.3750.99
568_A571_A1.3680.99
222_N319_P1.3650.99
69_I119_V1.3640.99
71_R231_D1.3630.99
351_K354_A1.3590.99
558_P561_D1.3580.99
235_R309_V1.3560.99
353_V361_P1.3560.99
239_Y308_L1.3510.99
409_T424_Q1.3500.99
41_A57_Q1.3480.99
57_Q61_N1.3460.99
252_L286_I1.3450.99
191_A320_L1.3430.99
313_V352_K1.3380.99
189_T329_L1.3370.99
539_G572_L1.3350.99
321_K331_V1.3200.99
27_L130_Y1.3160.99
471_Q491_K1.3100.99
348_M352_K1.3100.99
545_S549_Q1.3090.99
403_T409_T1.2940.99
219_L329_L1.2930.99
568_A572_L1.2870.99
563_T566_E1.2870.99
140_I165_V1.2820.99
310_E348_M1.2770.99
435_A458_N1.2750.99
416_T420_T1.2750.99
425_V473_E1.2740.99
243_E298_I1.2730.99
261_R265_A1.2600.99
566_E570_T1.2590.99
554_G562_K1.2540.99
447_R450_D1.2500.99
124_K163_L1.2490.99
238_N253_R1.2450.98
236_L266_A1.2430.98
104_E107_G1.2420.98
235_R312_L1.2360.98
206_E219_L1.2360.98
245_K251_D1.2130.98
329_L333_D1.2090.98
14_S123_M1.2050.98
34_R369_E1.2050.98
562_K566_E1.2040.98
42_Y110_M1.2000.98
543_L569_L1.1950.98
14_S38_S1.1870.98
158_G168_I1.1870.98
568_A590_E1.1860.98
524_E527_R1.1850.98
522_N526_D1.1850.98
571_A587_K1.1850.98
239_Y300_V1.1800.98
28_E34_R1.1770.98
573_E577_K1.1750.98
67_F90_P1.1730.98
243_E296_M1.1700.97
561_D564_A1.1690.97
241_V262_L1.1680.97
242_E245_K1.1670.97
234_S263_K1.1670.97
66_L115_I1.1660.97
158_G165_V1.1620.97
441_L448_A1.1580.97
77_F83_Q1.1580.97
9_L116_S1.1520.97
240_L300_V1.1510.97
336_D362_R1.1510.97
560_D564_A1.1470.97
543_L572_L1.1450.97
463_N492_N1.1420.97
404_M429_A1.1420.97
239_Y243_E1.1380.97
269_A300_V1.1350.97
189_T335_D1.1350.97
11_T198_G1.1350.97
222_N326_D1.1340.97
189_T219_L1.1340.97
159_R509_E1.1300.97
511_E514_K1.1290.97
581_K585_E1.1270.97
398_S444_E1.1230.97
204_I329_L1.1230.97
41_A49_L1.1190.96
28_E130_Y1.1180.96
532_L536_R1.1170.96
155_K483_I1.1130.96
75_R79_D1.1120.96
166_K382_L1.1100.96
94_I109_K1.1090.96
269_A281_V1.1080.96
238_N242_E1.1040.96
205_I218_V1.1040.96
586_A589_Q1.1040.96
5_I138_A1.1030.96
314_N352_K1.1020.96
122_K125_K1.1020.96
565_I595_S1.1010.96
125_K128_E1.0980.96
239_Y298_I1.0960.96
401_I424_Q1.0900.96
535_T585_E1.0890.96
18_I131_L1.0880.96
523_A527_R1.0870.96
465_A490_D1.0860.96
265_A279_T1.0860.96
83_Q87_S1.0850.96
172_P201_D1.0840.96
421_K475_T1.0800.95
232_F309_V1.0750.95
69_I73_I1.0730.95
121_K125_K1.0700.95
248_Q294_K1.0680.95
542_L546_T1.0660.95
126_T129_D1.0640.95
300_V305_L1.0630.95
390_L480_A1.0620.95
533_V536_R1.0600.95
575_A587_K1.0600.95
559_A566_E1.0570.95
435_A460_D1.0560.95
61_N65_T1.0550.95
73_I154_T1.0540.95
176_A180_G1.0540.95
195_L316_S1.0530.95
128_E134_P1.0510.94
571_A574_T1.0510.94
232_F313_V1.0430.94
110_M118_E1.0410.94
309_V348_M1.0390.94
378_Q381_V1.0390.94
86_V92_K1.0370.94
72_L75_R1.0360.94
402_E439_H1.0330.94
543_L573_E1.0310.94
320_L353_V1.0300.94
237_I266_A1.0290.94
6_G10_G1.0250.93
70_K171_E1.0240.93
542_L588_M1.0230.93
549_Q553_A1.0210.93
84_R87_S1.0200.93
596_Q599_M1.0190.93
538_Q588_M1.0180.93
354_A361_P1.0180.93
597_K600_E1.0170.93
323_A327_A1.0170.93
536_R540_D1.0160.93
272_E279_T1.0150.93
281_V300_V1.0110.93
362_R370_A1.0110.93
241_V259_M1.0100.93
243_E247_D1.0040.93
237_I262_L1.0020.92
237_I259_M1.0020.92
195_L349_V1.0000.92
209_E214_K1.0000.92
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  
4jneA20.99171000.137Contact Map
3d2fA20.97851000.14Contact Map
4fl9A10.87931000.198Contact Map
2v7yA10.83311000.243Contact Map
4rtfD10.57521000.258Contact Map
3i33A10.61491000.467Contact Map
4kboA10.61821000.467Contact Map
4j8fA10.87931000.493Contact Map
3qfuA10.61651000.528Contact Map
4gniA20.60831000.531Contact 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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