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T174M

ID: 1513630420 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 190 (177)
Sequences: 647 (479.9)
Seq/Len: 3.655
Nf(neff/√len): 36.1

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: 3.655).

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
143_A168_V1.8180.99
161_L164_D1.7420.99
163_F168_V1.7160.99
11_P14_G1.6410.99
12_L90_Q1.6320.99
164_D167_K1.6280.98
151_K157_E1.5900.98
163_F171_I1.5690.98
75_F84_G1.5470.98
94_I148_E1.5160.97
179_E183_S1.5060.97
123_S146_E1.4780.97
8_G12_L1.4700.97
164_D168_V1.4640.96
125_R141_P1.4610.96
37_S41_P1.4520.96
168_V172_L1.4340.96
161_L183_S1.4270.96
178_V183_S1.4110.95
15_L158_F1.4000.95
174_M178_V1.3920.95
121_G148_E1.3560.94
47_E72_L1.3560.94
15_L62_I1.3530.94
68_D71_Q1.3470.94
126_V144_I1.3410.93
126_V143_A1.3400.93
176_S183_S1.3150.93
39_L42_E1.3050.92
131_Q162_E1.3040.92
168_V171_I1.2790.91
124_W141_P1.2680.91
72_L94_I1.2640.91
163_F174_M1.2530.90
130_S143_A1.2470.90
67_M75_F1.2440.90
172_L179_E1.2440.90
172_L175_L1.2420.90
165_E168_V1.2410.89
135_S138_I1.2360.89
66_D106_R1.2300.89
37_S145_I1.2270.89
15_L119_L1.2220.88
175_L178_V1.2180.88
127_D141_P1.2140.88
129_K133_R1.2100.88
72_L76_L1.1970.87
20_A97_F1.1960.87
105_I109_L1.1940.87
168_V182_I1.1830.86
63_A94_I1.1730.86
171_I175_L1.1690.85
44_P47_E1.1690.85
51_F166_V1.1680.85
140_T153_G1.1650.85
121_G153_G1.1590.85
44_P154_Q1.1570.85
53_A176_S1.1460.84
77_T88_S1.1460.84
98_W119_L1.1450.84
19_L33_E1.1400.83
179_E182_I1.1400.83
162_E168_V1.1320.83
14_G18_A1.1300.83
174_M177_E1.1280.82
132_S182_I1.1250.82
87_T90_Q1.1210.82
167_K170_Q1.1190.82
171_I176_S1.1020.80
164_D173_K1.1010.80
19_L25_H1.0980.80
168_V181_S1.0970.80
129_K168_V1.0870.79
32_E59_L1.0810.79
164_D178_V1.0800.78
63_A109_L1.0740.78
173_K177_E1.0730.78
172_L182_I1.0720.78
18_A30_I1.0710.78
119_L146_E1.0710.78
165_E169_N1.0700.78
126_V168_V1.0680.77
48_F94_I1.0640.77
76_L119_L1.0600.77
66_D102_K1.0570.76
28_P34_L1.0510.76
32_E36_R1.0400.75
145_I161_L1.0400.75
85_G89_D1.0280.73
26_G133_R1.0260.73
174_M181_S1.0260.73
101_H106_R1.0240.73
125_R140_T1.0240.73
177_E184_T1.0230.73
116_N167_K1.0230.73
168_V175_L1.0220.73
128_G147_L1.0210.73
170_Q176_S1.0080.71
30_I33_E1.0070.71
94_I122_L1.0040.71
49_R64_S1.0020.71
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  
2h2mA10.568499.20.63Contact Map
4oe9A20.542192.40.849Contact Map
2ymyA20.21058.80.93Contact Map
1ecaA10.56327.20.933Contact Map
3hy0A20.57895.80.936Contact Map
4wv4B10.48425.60.936Contact Map
1ho8A10.88425.30.937Contact Map
3oaaA120.31054.40.939Contact Map
3m6yA40.32114.40.939Contact Map
1m1jA20.78954.20.94Contact 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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