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ID: 1514402751 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 264 (234)
Sequences: 3067 (1715.1)
Seq/Len: 13.107
Nf(neff/√len): 112.1

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: 13.107).

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
193_C198_C4.9011.00
46_E49_V3.6981.00
9_E61_R3.4621.00
43_A99_I3.2881.00
22_G93_Y2.9451.00
41_S64_W2.7281.00
92_A223_L2.6701.00
77_H81_N2.6261.00
75_S155_E2.3551.00
44_Q64_W2.3181.00
43_A213_S2.2981.00
18_V59_K2.2821.00
12_R59_K2.2351.00
61_R78_Y2.2311.00
7_V63_A2.1741.00
17_N58_N2.1411.00
3_T66_G2.0991.00
51_L60_V1.9801.00
22_G65_W1.9661.00
79_V159_S1.9171.00
9_E59_K1.9051.00
24_H36_D1.8951.00
143_E178_Q1.8931.00
69_E195_H1.8801.00
46_E50_L1.8601.00
36_D195_H1.8581.00
23_A44_Q1.8531.00
65_W93_Y1.8261.00
129_R133_A1.7991.00
36_D68_E1.7751.00
210_E214_D1.7191.00
87_K161_I1.7071.00
68_E195_H1.6831.00
21_V44_Q1.6541.00
21_V220_T1.6381.00
39_S204_I1.6331.00
185_T188_K1.6321.00
76_T80_Q1.6161.00
47_M217_A1.5521.00
18_V61_R1.5461.00
92_A127_I1.5181.00
151_S194_Y1.5021.00
39_S100_G1.4841.00
20_M63_A1.4811.00
68_E194_Y1.4741.00
37_N95_N1.4621.00
68_E72_L1.4401.00
13_G57_V1.4361.00
21_V47_M1.4321.00
24_H69_E1.4321.00
200_G203_N1.4311.00
56_P60_V1.4261.00
25_L64_W1.4081.00
36_D152_D1.3800.99
67_A73_V1.3790.99
69_E72_L1.3560.99
96_F216_M1.3500.99
15_P59_K1.3420.99
24_H152_D1.3270.99
60_V224_S1.3260.99
24_H195_H1.3250.99
14_N17_N1.3150.99
36_D69_E1.2890.99
154_A158_N1.2690.99
20_M93_Y1.2610.99
9_E18_V1.2580.99
76_T155_E1.2570.99
10_T62_F1.2520.99
79_V155_E1.2250.98
193_C196_S1.2220.98
201_I206_Q1.2070.98
128_E132_E1.2050.98
157_F163_F1.2030.98
73_V77_H1.2010.98
10_T56_P1.1910.98
23_A41_S1.1800.98
65_W156_F1.1600.97
20_M90_I1.1480.97
35_N191_D1.1430.97
86_E89_K1.1430.97
17_N91_K1.1360.97
177_E181_K1.1260.97
58_N91_K1.1140.96
63_A78_Y1.1120.96
36_D97_D1.1090.96
178_Q181_K1.1090.96
69_E152_D1.1080.96
21_V62_F1.1080.96
11_R15_P1.1030.96
193_C203_N1.0980.96
51_L56_P1.0940.96
113_G116_F1.0860.96
176_E180_Q1.0840.96
152_D195_H1.0790.95
100_G209_L1.0680.95
178_Q190_Y1.0620.95
65_W75_S1.0580.95
136_R142_S1.0570.95
176_E186_A1.0540.95
232_D235_A1.0520.95
174_K183_G1.0510.94
19_V92_A1.0490.94
143_E181_K1.0270.94
82_L90_I1.0170.93
3_T67_A1.0100.93
27_S31_G1.0060.93
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  
5a63A101000.382Contact Map
2ek8A10.8031000.388Contact Map
4tweA20.89771000.388Contact Map
3kasA10.8751000.395Contact Map
4r12A10.87881000.401Contact Map
3iibA10.78791000.404Contact Map
3fedA10.93941000.407Contact Map
1tkjA10.80681000.427Contact Map
3k9tA10.82581000.434Contact Map
4mhpA10.76141000.464Contact 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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