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HuNoV_62-218B

ID: 1505154707 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 157 (156)
Sequences: 1300 (604.5)
Seq/Len: 8.333
Nf(neff/√len): 48.4

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: 8.333).

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_L3.1911.00
62_A115_I3.0261.00
43_E144_R3.0021.00
41_G148_D2.9521.00
58_V119_A2.3531.00
57_K86_D2.2911.00
41_G146_S2.2131.00
39_A150_D2.1541.00
5_V121_L2.0531.00
46_V141_V2.0501.00
51_N54_T2.0121.00
43_E94_L1.9421.00
16_W119_A1.9331.00
32_A151_F1.9091.00
84_I122_Y1.8861.00
45_Q92_P1.8771.00
59_I78_T1.8181.00
45_Q94_L1.6991.00
57_K84_I1.6711.00
3_F139_C1.6421.00
62_A97_L1.6271.00
54_T125_L1.5661.00
60_F117_L1.4350.99
9_N13_E1.4050.99
43_E96_P1.3830.99
61_A77_V1.3690.99
28_L42_F1.3520.99
50_G87_V1.3270.99
42_F143_T1.3210.99
95_I117_L1.3210.99
77_V120_M1.3200.99
62_A95_I1.2970.98
27_Y30_H1.2740.98
51_N125_L1.2500.98
105_Y152_I1.2340.98
26_P30_H1.2330.98
61_A118_I1.2180.97
56_G87_V1.2160.97
40_G149_F1.2110.97
10_A13_E1.1900.97
146_S149_F1.1830.97
27_Y31_L1.1630.96
35_Y154_L1.1620.96
44_V117_L1.1620.96
63_V118_I1.1570.96
58_V125_L1.1400.96
63_V77_V1.1250.95
39_A154_L1.1170.95
70_E134_V1.1160.95
60_F141_V1.1100.95
30_H34_M1.1100.95
47_I142_L1.1080.95
52_A87_V1.1060.95
60_F119_A1.0990.94
127_A134_V1.0810.94
85_V95_I1.0800.94
59_I109_Q1.0670.93
59_I120_M1.0670.93
22_P38_Y1.0660.93
62_A65_P1.0640.93
56_G125_L1.0420.92
6_S9_N1.0390.92
40_G146_S1.0380.92
43_E147_P1.0210.91
4_T138_S1.0200.91
53_F56_G1.0130.90
14_I17_S1.0020.90
110_S130_A1.0020.90
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  
4ejrA20.98091000.079Contact Map
3j1pA30.98091000.089Contact Map
1aym310.98091000.113Contact Map
2mev310.98091000.114Contact Map
4gb3310.98091000.115Contact Map
3vbhC10.98091000.116Contact Map
3napC10.99361000.117Contact Map
1bev310.98091000.118Contact Map
1ncqC10.98091000.122Contact Map
1b35C10.98731000.123Contact 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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