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1a0l

ID: 1516177936 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 244 (236)
Sequences: 11503 (8035.2)
Seq/Len: 48.742
Nf(neff/√len): 523.0

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: 48.742).

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
125_C200_C4.0211.00
11_K147_Q3.1121.00
29_C45_C2.9621.00
31_G39_V2.9531.00
75_S96_E2.9021.00
6_E146_K2.8181.00
38_W94_L2.7751.00
17_S27_H2.7451.00
15_Q128_T2.7451.00
12_W147_Q2.6361.00
73_P98_E2.6151.00
38_W96_E2.6021.00
46_V93_A2.4971.00
40_L208_Q2.3941.00
32_S208_Q2.3401.00
90_A233_Y2.3381.00
33_L101_V2.3351.00
60_L101_V2.2881.00
148_V187_R2.2401.00
214_W226_I2.1711.00
81_P240_Y2.1331.00
37_Q100_P2.0941.00
6_E144_P2.0941.00
76_R96_E2.0781.00
127_V189_S2.0591.00
37_Q96_E2.0291.00
16_V31_G2.0281.00
44_H194_S2.0171.00
97_L101_V2.0051.00
16_V60_L2.0041.00
59_Q71_L1.9381.00
78_I240_Y1.8911.00
36_P100_P1.8761.00
1_I4_G1.8761.00
12_W128_T1.8711.00
74_V95_L1.8521.00
178_D232_Y1.8411.00
89_G178_D1.8281.00
103_V109_T1.8081.00
92_I233_Y1.7491.00
234_L238_H1.7421.00
72_L101_V1.7341.00
72_L98_E1.7241.00
75_S98_E1.7041.00
127_V148_V1.6821.00
35_H38_W1.6661.00
125_C152_I1.6461.00
188_D225_G1.6231.00
32_S110_V1.5901.00
82_Q90_A1.5811.00
7_A12_W1.5781.00
41_T46_V1.5761.00
190_C218_C1.5761.00
128_T199_V1.5751.00
16_V39_V1.5491.00
19_R27_H1.5471.00
158_C181_C1.5441.00
62_E69_D1.5091.00
110_V208_Q1.4661.00
64_H143_F1.4501.00
133_V146_K1.4441.00
10_S63_Q1.4381.00
137_E220_Q1.4341.00
110_V199_V1.4010.99
15_Q145_L1.4000.99
212_V215_G1.3970.99
180_L198_L1.3950.99
14_W199_V1.3850.99
228_T233_Y1.3820.99
80_H90_A1.3670.99
57_R71_L1.3640.99
9_R63_Q1.3610.99
32_S211_V1.3530.99
153_M224_P1.3430.99
59_Q62_E1.3370.99
90_A178_D1.3190.99
124_P149_K1.3180.99
229_R232_Y1.3150.99
92_I228_T1.3140.99
126_W149_K1.3050.99
189_S212_V1.3050.99
79_V93_A1.3030.99
46_V79_V1.3030.99
195_G198_L1.2990.99
66_Y143_F1.2780.99
200_C209_A1.2730.99
72_L99_E1.2670.99
14_W111_T1.2540.99
33_L60_L1.2430.98
6_E63_Q1.2360.98
154_E157_I1.2330.98
64_H144_P1.1910.98
142_P146_K1.1900.98
179_M214_W1.1870.98
127_V150_V1.1820.98
216_E223_R1.1760.98
5_Q147_Q1.1710.98
77_I95_L1.1620.97
155_N229_R1.1610.97
78_I96_E1.1610.97
127_V212_V1.1570.97
151_P183_G1.1570.97
18_L58_V1.1560.97
10_S106_H1.1530.97
58_V61_R1.1310.97
8_P11_K1.1290.97
38_W240_Y1.1270.97
42_A211_V1.1250.97
70_Q107_V1.1210.97
32_S40_L1.1200.96
14_W206_W1.1090.96
44_H91_D1.1060.96
89_G176_R1.1000.96
46_V77_I1.0970.96
15_Q130_W1.0820.96
80_H83_F1.0780.95
7_A147_Q1.0500.94
178_D233_Y1.0470.94
84_Y87_Q1.0330.94
41_T93_A1.0320.94
182_A198_L1.0190.93
198_L227_Y1.0140.93
132_D136_D1.0140.93
63_Q144_P1.0120.93
33_L39_V1.0040.93
112_L234_L1.0020.92
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  
2f83A10.8689100-0.021Contact Map
4nzqA10.9467100-0.009Contact Map
2xxlA20.9426100-0.001Contact Map
3nxpA10.93851000.001Contact Map
4kkdA20.96311000.007Contact Map
2b9lA10.97131000.016Contact Map
1z8gA10.94671000.023Contact Map
2f9nA40.98361000.025Contact Map
4crgA10.93851000.03Contact Map
2anyA10.95491000.031Contact 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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