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ID: 1490629742 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 376 (376)
Sequences: 295 (135.4)
Seq/Len: 0.785
Nf(neff/√len): 7.0

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: 0.785).

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
351_Y357_E2.2490.97
352_C357_E2.1490.96
351_Y355_N2.1110.95
352_C355_N2.0220.93
119_A161_I1.8790.90
353_F357_E1.8760.90
361_E366_W1.7810.86
39_T45_V1.7570.85
355_N358_V1.7180.83
354_L357_E1.6140.78
112_G123_A1.5890.76
11_T28_N1.5670.75
31_D35_C1.5620.74
112_G116_S1.5590.74
351_Y354_L1.5480.73
192_N316_H1.5420.73
368_G371_P1.5090.71
16_Q19_V1.5050.70
240_R246_T1.5000.70
4_A12_R1.4810.69
179_K245_D1.4490.66
13_L26_I1.4260.64
17_M25_S1.4170.64
127_L232_F1.3900.61
31_D50_P1.3900.61
364_R367_G1.3610.59
13_L28_N1.3580.59
16_Q21_K1.3480.58
4_A9_N1.3480.58
6_F15_K1.3460.58
19_V23_L1.3340.57
185_F313_F1.3250.56
4_A8_D1.3230.56
351_Y358_V1.3140.55
361_E364_R1.3130.55
20_K25_S1.3120.55
4_A15_K1.3100.55
8_D12_R1.3100.55
39_T62_R1.3080.54
351_Y356_G1.3040.54
16_Q23_L1.3000.54
3_D7_T1.2980.54
196_L207_L1.2960.53
194_F224_I1.2770.52
229_P236_W1.2760.52
352_C356_G1.2740.51
116_S123_A1.2730.51
11_T26_I1.2690.51
9_N19_V1.2660.51
134_H138_N1.2650.51
9_N15_K1.2630.50
137_R141_H1.2600.50
17_M24_N1.2550.50
151_R158_K1.2490.49
7_T10_Y1.2490.49
4_A17_M1.2480.49
136_T147_S1.2390.48
110_T159_D1.2360.48
12_R19_V1.2330.48
121_L189_I1.2310.48
16_Q20_K1.2300.48
195_W203_L1.2300.48
216_K318_I1.2280.47
15_K20_K1.2200.47
352_C358_V1.2160.46
12_R15_K1.2080.46
305_S336_E1.2050.45
14_R18_A1.1990.45
9_N14_R1.1990.45
199_E203_L1.1980.45
260_I264_I1.1950.45
278_I368_G1.1950.45
17_M20_K1.1930.44
112_G130_F1.1930.44
4_A11_T1.1840.44
4_A18_A1.1830.44
6_F9_N1.1800.43
24_N27_L1.1790.43
21_K26_I1.1790.43
9_N16_Q1.1700.42
16_Q26_I1.1680.42
133_L187_Y1.1650.42
4_A25_S1.1640.42
272_F342_F1.1640.42
6_F12_R1.1630.42
144_L152_A1.1600.42
12_R20_K1.1570.41
9_N12_R1.1560.41
353_F358_V1.1550.41
4_A20_K1.1510.41
12_R17_M1.1500.41
113_H123_A1.1490.41
234_I276_I1.1490.41
17_M22_Y1.1450.40
2_S6_F1.1450.40
14_R20_K1.1450.40
2_S21_K1.1420.40
18_A22_Y1.1400.40
3_D10_Y1.1380.40
4_A14_R1.1370.40
207_L301_R1.1350.39
8_D18_A1.1330.39
324_P345_F1.1320.39
21_K25_S1.1300.39
6_F18_A1.1300.39
14_R24_N1.1280.39
9_N17_M1.1280.39
4_A10_Y1.1270.39
15_K25_S1.1250.39
135_C138_N1.1250.39
15_K24_N1.1240.39
286_L332_K1.1220.38
9_N20_K1.1190.38
277_C280_R1.1190.38
12_R25_S1.1170.38
37_P50_P1.1160.38
8_D13_L1.1150.38
8_D15_K1.1130.38
141_H144_L1.1120.38
208_A218_F1.1120.38
9_N23_L1.1080.37
14_R26_I1.1070.37
2_S8_D1.1070.37
8_D17_M1.1070.37
4_A19_V1.1040.37
35_C50_P1.1030.37
275_F302_L1.1010.37
9_N18_A1.1010.37
6_F22_Y1.0990.37
12_R16_Q1.0990.37
6_F14_R1.0990.37
199_E225_G1.0960.36
19_V24_N1.0950.36
344_G347_V1.0950.36
132_K149_I1.0940.36
11_T19_V1.0880.36
12_R18_A1.0870.36
8_D22_Y1.0860.35
200_G225_G1.0830.35
316_H336_E1.0810.35
11_T23_L1.0810.35
11_T15_K1.0790.35
218_F281_I1.0790.35
31_D36_W1.0780.35
15_K18_A1.0770.35
192_N206_L1.0760.35
5_V13_L1.0750.35
156_F336_E1.0750.35
148_F151_R1.0730.34
287_Q369_R1.0720.34
203_L226_W1.0710.34
312_L348_A1.0710.34
17_M21_K1.0680.34
138_N141_H1.0650.34
131_R158_K1.0650.34
6_F13_L1.0650.34
307_L311_P1.0640.34
199_E226_W1.0630.34
2_S7_T1.0630.34
186_Q191_A1.0620.34
124_T286_L1.0620.34
195_W199_E1.0610.34
8_D14_R1.0600.33
145_F152_A1.0580.33
4_A24_N1.0580.33
12_R24_N1.0570.33
2_S10_Y1.0540.33
37_P259_I1.0530.33
291_V296_S1.0530.33
359_Q366_W1.0520.33
15_K19_V1.0480.33
14_R27_L1.0470.32
34_T47_L1.0440.32
8_D25_S1.0420.32
147_S152_A1.0410.32
110_T139_Y1.0410.32
14_R23_L1.0400.32
187_Y221_Y1.0370.32
30_W231_I1.0350.32
303_A310_I1.0350.32
240_R305_S1.0350.32
112_G120_L1.0350.32
151_R336_E1.0330.31
18_A25_S1.0320.31
207_L307_L1.0300.31
114_S127_L1.0290.31
109_Y140_I1.0290.31
151_R192_N1.0280.31
8_D11_T1.0280.31
201_L274_L1.0270.31
83_I233_T1.0260.31
4_A16_Q1.0260.31
127_L349_I1.0240.31
212_F216_K1.0230.31
16_Q25_S1.0210.31
187_Y199_E1.0180.30
146_I270_V1.0180.30
6_F20_K1.0180.30
6_F25_S1.0170.30
6_F11_T1.0170.30
20_K23_L1.0160.30
2_S18_A1.0150.30
13_L24_N1.0110.30
2_S17_M1.0110.30
11_T14_R1.0110.30
178_C226_W1.0100.30
74_T356_G1.0070.29
17_M27_L1.0060.29
2_S26_I1.0050.29
145_F151_R1.0040.29
20_K27_L1.0030.29
8_D24_N1.0020.29
37_P49_C1.0010.29
158_K161_I1.0010.29
276_I360_A1.0000.29
14_R22_Y1.0000.29
196_L257_W1.0000.29
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  
4k5yA30.66491000.615Contact Map
4l6rA10.97071000.687Contact Map
4jkvA20.8671000.835Contact Map
4qinA10.797999.90.848Contact Map
2qkhA10.212899.80.876Contact Map
3n94A10.239499.80.876Contact Map
4hj0A20.218199.80.877Contact Map
2jodA10.247399.80.879Contact Map
2xdgA20.218199.80.879Contact Map
2x57A30.231499.80.879Contact 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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