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HuNoV_62-218

ID: 1505148713 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 157 (154)
Sequences: 640 (339.6)
Seq/Len: 4.156
Nf(neff/√len): 27.4

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: 4.156).

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
44_V97_L3.2701.00
41_G148_D3.0361.00
43_E144_R2.8481.00
5_V121_L2.6361.00
45_Q92_P2.5921.00
62_A115_I2.5881.00
58_V119_A2.4191.00
41_G146_S2.4001.00
28_L42_F1.9091.00
16_W119_A1.8431.00
39_A150_D1.8201.00
42_F143_T1.8191.00
3_F139_C1.8151.00
32_A151_F1.7861.00
22_P38_Y1.6820.99
50_G53_F1.5660.98
119_A139_C1.5430.98
44_V117_L1.5300.98
51_N54_T1.5280.98
56_G87_V1.5130.98
2_E35_Y1.4750.97
46_V141_V1.4730.97
145_P149_F1.4630.97
47_I142_L1.4610.97
31_L151_F1.3480.95
60_F117_L1.3440.95
37_G152_I1.3400.95
43_E94_L1.3400.95
35_Y39_A1.3390.95
64_P86_D1.3250.94
43_E147_P1.3180.94
88_R106_H1.3140.94
95_I145_P1.3050.94
51_N133_D1.2990.94
46_V117_L1.2980.94
73_S76_Q1.2680.92
125_L137_V1.2670.92
56_G121_L1.2670.92
45_Q94_L1.2460.92
139_C144_R1.2190.90
37_G49_A1.2160.90
54_T125_L1.2140.90
57_K86_D1.1570.87
58_V121_L1.1220.85
26_P90_L1.1080.84
85_V95_I1.1050.84
4_T138_S1.0970.83
7_P58_V1.0930.83
5_V56_G1.0910.82
54_T127_A1.0880.82
85_V152_I1.0840.82
48_L85_V1.0760.81
148_D153_F1.0670.81
130_A133_D1.0640.80
97_L119_A1.0560.80
28_L145_P1.0500.79
27_Y31_L1.0330.77
109_Q130_A1.0220.76
87_V137_V1.0210.76
38_Y154_L1.0210.76
59_I78_T1.0210.76
10_A13_E1.0150.76
49_A54_T1.0030.75
9_N13_E1.0000.74
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  
1aym310.98091000.084Contact Map
2mev310.98091000.086Contact Map
1bev310.98091000.088Contact Map
4gb3310.98091000.088Contact Map
4ejrA20.97451000.09Contact Map
3vbhC10.98091000.091Contact Map
1ncqC10.98091000.093Contact Map
3cjiB10.97451000.097Contact Map
2ws9310.97451000.099Contact Map
1m11310.98091000.099Contact 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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