OPENSEQ.org
mep50

ID: 1516281329 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 342 (318)
Sequences: 28915 (18969.2)
Seq/Len: 90.928
Nf(neff/√len): 1063.7

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: 90.928).

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
166_H185_S2.9871.00
130_T143_G2.9591.00
172_C186_C2.8591.00
124_H142_S2.8531.00
217_S231_G2.6691.00
254_H273_S2.6631.00
149_I185_S2.6591.00
85_D97_A2.6411.00
211_P230_F2.5571.00
260_G274_L2.5021.00
192_I230_F2.3491.00
237_V273_S2.3321.00
184_L220_W2.2941.00
103_V142_S2.2901.00
33_A46_A2.2731.00
141_V175_A2.2511.00
132_S174_A2.2351.00
272_A305_W2.2141.00
142_S152_W2.2111.00
273_S283_L2.1141.00
150_K162_S2.0571.00
141_V183_F2.0501.00
302_D316_V2.0391.00
174_A219_A2.0351.00
272_A282_V2.0301.00
35_R87_T1.9801.00
193_L205_Q1.9751.00
171_T188_E1.9711.00
238_S250_S1.9701.00
141_V151_V1.9621.00
185_S195_W1.9541.00
193_L202_P1.9341.00
87_T132_S1.9311.00
44_L88_W1.8811.00
184_L194_L1.8771.00
129_S145_K1.8761.00
219_A262_V1.8741.00
89_V133_V1.8731.00
229_V263_F1.8631.00
230_F240_V1.8291.00
238_S247_C1.8181.00
229_V271_L1.8171.00
150_K159_V1.8071.00
296_H315_T1.7851.00
196_D199_C1.7741.00
79_T96_V1.7491.00
143_G170_V1.7451.00
184_L218_L1.7201.00
134_L175_A1.7171.00
141_V173_V1.7031.00
60_L63_D1.6821.00
178_H181_S1.6671.00
45_G59_W1.6381.00
186_C215_P1.6201.00
262_V304_T1.5991.00
176_S220_W1.5861.00
184_L228_F1.5851.00
259_T276_E1.5851.00
44_L86_L1.5781.00
153_D156_Q1.5781.00
229_V239_L1.5611.00
284_D287_L1.5561.00
231_G258_V1.5491.00
44_L58_L1.5401.00
96_V106_W1.5361.00
107_E110_E1.5341.00
274_L300_V1.5201.00
221_H263_F1.5071.00
50_S55_A1.4951.00
264_S305_W1.4831.00
104_E113_T1.4821.00
296_H314_T1.4761.00
56_G96_V1.4751.00
84_A99_D1.4371.00
241_D244_S1.4221.00
79_T98_S1.4151.00
219_A261_L1.3960.99
97_A128_V1.3660.99
240_V247_C1.3520.99
90_G137_G1.3450.99
231_G261_L1.3430.99
97_A131_V1.3430.99
272_A303_A1.3350.99
187_S191_R1.3280.99
79_T83_V1.3260.99
37_R88_W1.3210.99
216_T233_E1.2870.99
135_S179_K1.2850.99
281_A292_R1.2790.99
229_V261_L1.2720.99
46_A83_V1.2590.99
296_H300_V1.2570.99
266_H269_P1.2560.99
35_R86_L1.2520.99
98_S102_A1.2470.99
144_S148_C1.2440.98
254_H275_S1.2360.98
166_H170_V1.2340.98
262_V303_A1.2300.98
175_A197_T1.2220.98
47_S50_S1.2200.98
124_H144_S1.2190.98
14_A45_G1.2190.98
90_G133_V1.2190.98
221_H225_S1.2120.98
134_L138_T1.2070.98
135_S175_A1.2070.98
131_V142_S1.2050.98
275_S279_S1.2030.98
134_L139_Q1.1910.98
87_T131_V1.1900.98
166_H187_S1.1900.98
202_P205_Q1.1850.98
211_P232_D1.1750.98
186_C218_L1.1730.98
222_P263_F1.1590.97
133_V154_L1.1500.97
133_V140_A1.1490.97
27_M45_G1.1410.97
317_G321_Q1.1320.97
138_T155_A1.1310.97
280_L314_T1.1260.97
313_L324_H1.1220.97
159_V162_S1.1210.97
37_R41_A1.1120.96
234_N238_S1.1120.96
273_S281_A1.1110.96
274_L303_A1.1100.96
38_S92_R1.1100.96
18_N21_P1.1100.96
211_P234_N1.1060.96
132_S173_V1.1000.96
161_S200_P1.0900.96
230_F238_S1.0890.96
296_H317_G1.0870.96
38_S88_W1.0680.95
142_S150_K1.0600.95
46_A86_L1.0590.95
186_C230_F1.0570.95
130_T173_V1.0550.95
95_L105_L1.0540.95
253_V283_L1.0520.95
79_T104_E1.0480.94
183_F197_T1.0450.94
177_P220_W1.0440.94
35_R304_T1.0430.94
185_S193_L1.0410.94
34_A45_G1.0330.94
104_E116_V1.0290.94
232_D236_T1.0280.94
306_S310_H1.0270.94
95_L140_A1.0260.94
296_H319_D1.0220.93
280_L315_T1.0170.93
295_A323_V1.0150.93
204_S245_T1.0150.93
143_G173_V1.0120.93
174_A218_L1.0090.93
33_A86_L1.0030.93
124_H128_V1.0010.92
182_V203_A1.0010.92
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  
4gqbB10.87131000.114Contact Map
1vyhC100.85381000.154Contact Map
4g56B20.86551000.174Contact Map
4wjuA20.89471000.188Contact Map
4ci8A20.95321000.198Contact Map
3sfzA10.94741000.202Contact Map
4wjsA10.89471000.203Contact Map
3ow8A40.85961000.207Contact Map
1gotB10.89771000.207Contact Map
4nsxA10.93271000.215Contact 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.

Page generated in 0.0373 seconds.