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ID: 1504547736 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 166 (150)
Sequences: 3552 (1965.7)
Seq/Len: 23.680
Nf(neff/√len): 160.5

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: 23.680).

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
18_Q149_E4.1171.00
23_L90_R2.7921.00
91_K94_K2.5661.00
30_K87_A2.5281.00
131_K144_K2.5281.00
106_G161_E2.4981.00
115_G118_H2.3381.00
39_R132_E2.2961.00
43_K128_D2.1371.00
47_V125_A2.0021.00
44_I121_V2.0021.00
25_S147_W1.9901.00
26_W83_C1.9531.00
103_K161_E1.9451.00
15_S18_Q1.9201.00
47_V128_D1.9091.00
34_A76_M1.7961.00
25_S143_M1.7791.00
156_A160_Q1.7571.00
21_L146_A1.7521.00
32_D35_N1.7441.00
16_E20_A1.7311.00
123_K151_Y1.6931.00
19_E90_R1.6921.00
139_W144_K1.6911.00
18_Q145_S1.6761.00
85_A154_L1.6511.00
17_E20_A1.6421.00
140_S143_M1.6111.00
144_K148_S1.5601.00
22_V150_A1.5591.00
41_F74_H1.5421.00
39_R42_L1.5331.00
17_E142_A1.5321.00
145_S149_E1.5311.00
21_L143_M1.5311.00
43_K132_E1.5261.00
20_A24_K1.5091.00
37_A79_F1.4951.00
106_G158_I1.4721.00
28_I138_M1.4050.99
123_K152_D1.4000.99
39_R43_K1.3950.99
43_K125_A1.3860.99
131_K141_P1.3270.99
127_L148_S1.3220.99
15_S149_E1.3080.99
108_T112_Y1.2740.99
48_A51_A1.2230.98
48_A125_A1.2180.98
88_Q91_K1.2070.98
44_I125_A1.1990.98
83_C87_A1.1870.98
26_W29_L1.1680.97
148_S152_D1.1670.97
81_M84_E1.1550.97
107_A161_E1.1350.97
76_M80_V1.1260.97
124_F128_D1.1190.96
40_F126_L1.1190.96
43_K47_V1.0850.96
127_L144_K1.0770.95
135_P138_M1.0690.95
45_F55_F1.0690.95
19_E23_L1.0630.95
55_F109_H1.0600.95
38_L75_A1.0370.94
151_Y155_V1.0220.93
86_A89_L1.0210.93
125_A128_D1.0160.93
139_W143_M1.0150.93
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  
1hlbA10.93981000.211Contact Map
1q1fA10.87351000.218Contact Map
2dc3A20.95781000.22Contact Map
1hlmA10.94581000.225Contact Map
2oifA80.90961000.227Contact Map
1a6mA10.88551000.236Contact Map
2aa1B20.86141000.24Contact Map
2c0kA20.87951000.242Contact Map
1outB10.86141000.242Contact Map
1v4xB20.86141000.243Contact 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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