OPENSEQ.org
TssFmeta

ID: 1518568427 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 587 (580)
Sequences: 6583 (4441.8)
Seq/Len: 11.350
Nf(neff/√len): 184.4

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: 11.350).

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
339_D413_T5.4851.00
91_S301_V5.1251.00
198_L277_V4.5941.00
309_A412_I4.1901.00
177_S257_H3.9271.00
160_F273_F3.5831.00
140_A161_A3.5591.00
525_D565_T3.4561.00
467_H489_Y3.4301.00
8_Y65_D3.3861.00
94_A295_C3.3281.00
510_H525_D3.2801.00
392_L408_L3.2051.00
503_A534_G3.1921.00
161_A272_G3.1041.00
340_A351_E2.9841.00
142_E161_A2.9411.00
197_R280_S2.9111.00
549_N580_N2.9031.00
159_G274_D2.8961.00
338_V376_T2.8781.00
258_L275_L2.8681.00
92_V255_F2.8251.00
159_G272_G2.8181.00
340_A411_R2.7951.00
174_H262_E2.7681.00
141_V158_I2.6861.00
341_V390_L2.5991.00
545_G566_L2.5601.00
134_I299_V2.5471.00
527_E567_I2.5421.00
479_A483_R2.5401.00
175_R257_H2.5111.00
219_S259_N2.5091.00
93_V114_V2.5051.00
530_L566_L2.4931.00
204_R274_D2.4531.00
224_A227_D2.4431.00
144_V294_L2.3981.00
565_T576_R2.3921.00
195_T256_V2.3841.00
158_I294_L2.3711.00
224_A550_R2.3691.00
93_V301_V2.3591.00
158_I277_V2.3371.00
514_R563_Q2.3271.00
323_L410_L2.3221.00
306_T411_R2.3211.00
177_S221_G2.3081.00
178_L256_V2.3011.00
181_A295_C2.2751.00
194_M277_V2.2651.00
323_L338_V2.2601.00
503_A535_F2.2511.00
221_G257_H2.2191.00
132_R299_V2.2071.00
219_S257_H2.1931.00
114_V130_T2.1631.00
107_T135_P2.1611.00
306_T339_D2.1511.00
156_L279_L2.1491.00
188_S254_M2.1371.00
434_Q440_V2.1031.00
168_W273_F2.0651.00
139_L168_W2.0321.00
131_T229_L2.0301.00
161_A271_S2.0241.00
162_C167_D1.9981.00
180_L256_V1.9881.00
156_L294_L1.9831.00
155_V276_E1.9671.00
160_F178_L1.9451.00
217_W260_G1.9381.00
107_T133_A1.9331.00
320_E377_R1.9291.00
198_L218_F1.9221.00
529_T567_I1.9071.00
141_V160_F1.8941.00
113_E127_R1.8941.00
526_V552_L1.8651.00
343_G352_Y1.8391.00
110_A133_A1.8331.00
141_V178_L1.8031.00
548_L552_L1.8011.00
105_A137_N1.7951.00
157_K274_D1.7921.00
167_D170_Q1.7911.00
96_T441_S1.7901.00
506_A529_T1.7891.00
525_D576_R1.7801.00
228_R241_Q1.7781.00
385_M417_G1.7771.00
551_F555_Y1.7711.00
182_A187_S1.7711.00
143_K159_G1.7711.00
228_R238_S1.7551.00
528_V548_L1.7471.00
201_L277_V1.7401.00
525_D563_Q1.7401.00
526_V562_N1.7351.00
91_S446_C1.7111.00
199_A280_S1.6811.00
225_E238_S1.6701.00
16_L20_G1.6611.00
90_L249_F1.6481.00
82_H236_A1.5831.00
95_L108_V1.5791.00
532_G568_V1.5771.00
11_A61_R1.5671.00
295_C298_C1.5561.00
132_R221_G1.5481.00
191_H220_P1.5461.00
315_N318_E1.5351.00
95_L299_V1.5251.00
265_S273_F1.5221.00
144_V289_V1.5211.00
504_I530_L1.5201.00
143_K291_D1.5191.00
204_R276_E1.5091.00
308_E411_R1.5091.00
258_L277_V1.5001.00
309_A410_L1.4981.00
180_L194_M1.4951.00
201_L217_W1.4901.00
512_I525_D1.4901.00
202_Y278_V1.4881.00
320_E379_K1.4821.00
338_V412_I1.4751.00
530_L541_I1.4691.00
15_Y19_A1.4641.00
336_Y339_D1.4591.00
341_V410_L1.4431.00
336_Y415_T1.4381.00
105_A135_P1.4351.00
322_L387_D1.4311.00
510_H527_E1.4181.00
157_K276_E1.4070.99
246_Y500_R1.4040.99
194_M256_V1.4030.99
160_F168_W1.4030.99
134_I297_H1.4010.99
197_R281_Q1.3890.99
527_E565_T1.3890.99
162_C168_W1.3880.99
180_L187_S1.3880.99
434_Q439_P1.3850.99
53_F57_M1.3770.99
202_Y276_E1.3760.99
145_V157_K1.3700.99
92_V298_C1.3660.99
94_A443_R1.3620.99
508_Q529_T1.3610.99
178_L258_L1.3590.99
29_D33_M1.3550.99
572_G575_I1.3530.99
180_L190_L1.3500.99
89_S448_P1.3480.99
158_I275_L1.3480.99
16_L53_F1.3450.99
90_L229_L1.3430.99
322_L389_W1.3300.99
541_I568_V1.3270.99
180_L294_L1.3230.99
334_E417_G1.3120.99
142_E272_G1.3070.99
132_R252_K1.3060.99
255_F298_C1.3030.99
431_R434_Q1.3010.99
306_T413_T1.3000.99
344_S409_S1.2970.99
325_P412_I1.2910.99
505_L531_D1.2900.99
531_D570_P1.2890.99
7_R11_A1.2870.99
563_Q576_R1.2850.99
130_T299_V1.2830.99
175_R259_N1.2800.99
95_L114_V1.2710.99
573_K576_R1.2680.99
111_G129_R1.2660.99
36_L41_T1.2610.99
144_V158_I1.2510.99
507_V526_V1.2440.98
144_V291_D1.2390.98
352_Y372_R1.2390.98
201_L218_F1.2380.98
92_V179_Y1.2340.98
89_S128_Y1.2330.98
184_A251_E1.2310.98
479_A507_V1.2300.98
178_L296_L1.2280.98
200_A213_R1.2260.98
508_Q527_E1.2260.98
512_I563_Q1.2220.98
415_T451_P1.2220.98
158_I258_L1.2210.98
179_Y446_C1.2190.98
544_F548_L1.2150.98
379_K389_W1.2140.98
523_G561_F1.2110.98
186_V293_A1.2100.98
421_R451_P1.2050.98
112_L434_Q1.2040.98
232_K236_A1.2000.98
221_G227_D1.1990.98
571_E574_C1.1970.98
570_P575_I1.1960.98
82_H244_L1.1950.98
85_R336_Y1.1940.98
180_L191_H1.1920.98
57_M60_L1.1840.98
301_V444_N1.1820.98
371_E396_R1.1750.98
337_S413_T1.1750.98
387_D417_G1.1710.98
57_M61_R1.1710.98
482_L552_L1.1630.97
203_L275_L1.1620.97
9_F13_M1.1580.97
17_R47_E1.1550.97
325_P335_I1.1500.97
568_V571_E1.1500.97
490_N498_H1.1460.97
136_L297_H1.1440.97
193_M279_L1.1420.97
104_M172_D1.1360.97
490_N497_N1.1330.97
90_L131_T1.1270.97
141_V294_L1.1260.97
530_L544_F1.1210.97
240_Y551_F1.1210.97
20_G55_F1.1170.96
530_L535_F1.1140.96
140_A163_S1.1100.96
98_R101_V1.1050.96
200_A278_V1.1040.96
109_P112_L1.1030.96
330_D333_T1.0970.96
154_S279_L1.0940.96
320_E389_W1.0880.96
124_T332_Y1.0870.96
82_H467_H1.0870.96
89_S420_P1.0870.96
16_L50_F1.0860.96
156_L289_V1.0840.96
191_H223_F1.0830.96
219_S224_A1.0830.96
113_E129_R1.0720.95
194_M198_L1.0700.95
290_T293_A1.0690.95
190_L294_L1.0680.95
91_S444_N1.0640.95
390_L410_L1.0590.95
87_I90_L1.0590.95
94_A298_C1.0570.95
463_R484_G1.0550.95
109_P133_A1.0520.95
162_C171_V1.0510.94
95_L130_T1.0500.94
307_L333_T1.0490.94
233_G236_A1.0470.94
311_P407_T1.0430.94
338_V374_Y1.0430.94
305_F416_N1.0430.94
116_S119_V1.0380.94
63_K66_D1.0330.94
307_L325_P1.0280.94
232_K241_Q1.0270.94
137_N297_H1.0250.93
206_P272_G1.0250.93
251_E446_C1.0240.93
499_R534_G1.0210.93
326_K329_Q1.0180.93
571_E575_I1.0180.93
386_Y454_P1.0170.93
63_K70_E1.0100.93
195_T542_H1.0100.93
87_I244_L1.0070.93
92_V446_C1.0070.93
160_F275_L1.0060.93
505_L569_Q1.0050.93
36_L39_A1.0040.93
115_T127_R1.0030.93
376_T388_T1.0020.92
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  
4me7E20.07514.10.983Contact Map
2l7bA10.141413.80.983Contact Map
3he5A30.035812.50.984Contact Map
2mmbA10.061312.40.984Contact Map
1j03A10.059611.80.984Contact Map
1h0hA20.17559.70.984Contact Map
3r0sA10.09378.30.985Contact Map
2cw1A10.10057.70.985Contact Map
2ee7A10.14317.70.985Contact Map
3hn0A20.15166.90.985Contact 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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