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ID: 1507663553 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 201 (191)
Sequences: 596 (427.1)
Seq/Len: 3.120
Nf(neff/√len): 30.9

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: 3.120).

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
96_A116_A3.4481.00
89_M116_A3.1641.00
20_L77_L2.6271.00
73_L88_T2.2671.00
43_R107_E2.1971.00
89_M120_A2.1891.00
61_F188_G2.1431.00
156_L182_G1.9781.00
96_A113_T1.9451.00
34_S102_K1.8950.99
102_K108_E1.7080.99
75_Q141_Y1.6580.98
30_V95_G1.6370.98
85_W120_A1.6180.98
20_L122_F1.6080.98
32_L67_G1.5830.97
116_A120_A1.5490.97
34_S108_E1.5140.96
93_L97_L1.4170.94
17_A57_D1.3820.93
17_A141_Y1.3710.93
35_G63_A1.3710.93
117_V121_I1.3660.92
76_G84_A1.3350.91
28_G67_G1.3090.90
31_L197_S1.3080.90
67_G126_F1.2990.90
53_H57_D1.2850.89
77_L80_R1.2800.89
73_L107_E1.2690.88
43_R105_D1.2570.88
95_G105_D1.2530.87
181_R184_R1.2400.87
25_F75_Q1.2270.86
156_L162_D1.2210.85
32_L95_G1.2180.85
105_D108_E1.2110.85
90_V93_L1.1940.84
43_R102_K1.1850.83
66_I91_L1.1820.83
24_V115_T1.1690.82
157_L169_L1.1670.82
34_S104_F1.1380.79
191_V194_V1.1370.79
164_P187_L1.1370.79
195_I198_L1.1340.79
27_S112_M1.1310.79
32_L148_V1.1300.79
32_L36_A1.1280.79
33_F146_V1.1250.78
12_A150_G1.1210.78
62_G98_L1.1170.78
59_S103_G1.1110.77
119_L185_S1.1060.77
165_Y169_L1.1050.77
131_R141_Y1.1020.76
33_F155_L1.1010.76
32_L92_L1.0990.76
76_G83_A1.0980.76
158_F162_D1.0970.76
33_F54_R1.0970.76
57_D181_R1.0910.75
146_V150_G1.0890.75
63_A108_E1.0890.75
144_A194_V1.0880.75
158_F165_Y1.0870.75
101_L117_V1.0800.74
35_G64_S1.0800.74
82_S131_R1.0700.73
58_A150_G1.0690.73
84_A117_V1.0690.73
31_L34_S1.0690.73
101_L147_C1.0690.73
14_G115_T1.0670.73
163_V169_L1.0640.73
48_G175_L1.0630.73
56_I175_L1.0600.72
120_A146_V1.0600.72
74_A81_L1.0560.72
109_A185_S1.0550.72
55_L148_V1.0540.72
25_F148_V1.0520.71
81_L91_L1.0510.71
92_L127_Y1.0500.71
75_Q131_R1.0490.71
98_L105_D1.0450.71
50_L73_L1.0450.71
48_G155_L1.0430.71
88_T124_R1.0420.70
93_L116_A1.0360.70
30_V87_L1.0270.69
155_L194_V1.0260.69
36_A152_S1.0250.69
28_G74_A1.0250.69
32_L194_V1.0250.69
82_S129_A1.0220.68
40_I58_A1.0190.68
23_L155_L1.0190.68
180_P183_L1.0180.68
111_L115_T1.0140.67
65_L188_G1.0120.67
77_L119_L1.0100.67
47_I52_P1.0090.67
91_L151_A1.0080.67
68_V72_L1.0060.67
35_G43_R1.0010.66
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  
3mk7C40.33337.10.945Contact Map
3vouA20.42796.70.946Contact Map
2q67A20.42796.40.946Contact Map
1lnqA80.31843.90.951Contact Map
4h33A10.33332.90.954Contact Map
3wajA10.88062.60.956Contact Map
3l1lA10.63181.80.959Contact Map
4xk8J201.60.961Contact Map
3dh4A40.72641.50.961Contact Map
4kt0J10.1991.40.961Contact 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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