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Naa10

ID: 1514419049 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 177 (155)
Sequences: 35041 (25713.8)
Seq/Len: 226.071
Nf(neff/√len): 2065.4

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: 226.071).

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
4_R46_T3.4171.00
132_Q149_H2.6391.00
96_Q150_K2.5911.00
4_R10_D2.5361.00
107_Y149_H2.5131.00
96_Q129_F2.4491.00
110_L123_Y2.4361.00
89_K127_L2.3881.00
131_V146_Y2.3371.00
89_K125_D2.1541.00
120_I124_R2.1521.00
56_V95_S2.1251.00
131_V134_I2.0041.00
20_H79_M2.0021.00
94_Q97_R1.9621.00
58_A95_S1.8171.00
124_R131_V1.8121.00
53_V82_Y1.7371.00
120_I131_V1.7231.00
121_H124_R1.7191.00
100_V152_F1.7071.00
93_V127_L1.7041.00
44_V52_V1.6741.00
54_G78_V1.6301.00
96_Q108_M1.5611.00
89_K93_V1.5601.00
13_G52_V1.5421.00
45_A87_L1.5331.00
82_Y85_L1.5191.00
6_A44_V1.5101.00
94_Q98_A1.5031.00
119_A123_Y1.4731.00
13_G16_N1.4611.00
114_K144_D1.4541.00
43_Y94_Q1.4281.00
131_V148_M1.3970.99
47_D53_V1.3970.99
134_I144_D1.3960.99
92_M127_L1.3850.99
56_V91_L1.3760.99
120_I146_Y1.3620.99
71_G105_A1.3540.99
79_M82_Y1.3370.99
116_N119_A1.3220.99
114_K134_I1.3110.99
2_D46_T1.2970.99
99_M108_M1.2880.99
58_A99_M1.2860.99
107_Y151_D1.2670.99
70_H107_Y1.2640.99
134_I146_Y1.2640.99
42_S57_L1.2570.99
45_A91_L1.2560.99
90_R94_Q1.2550.99
51_R82_Y1.2460.98
46_T52_V1.2440.98
51_R79_M1.2420.98
120_I148_M1.2350.98
98_A101_E1.2280.98
98_A102_V1.2160.98
112_V123_Y1.2030.98
97_R101_E1.1960.98
6_A14_M1.1790.98
13_G51_R1.1670.97
51_R81_S1.1630.97
98_A103_Y1.1560.97
47_D82_Y1.1480.97
12_T28_L1.1440.97
117_R120_I1.1430.97
112_V120_I1.1430.97
7_R10_D1.1340.97
114_K146_Y1.1300.97
88_A122_L1.1270.97
117_R121_H1.0920.96
43_Y98_A1.0710.95
100_V150_K1.0640.95
46_T50_G1.0610.95
115_S143_E1.0420.94
15_Q19_L1.0380.94
122_L127_L1.0350.94
16_N20_H1.0220.93
5_P98_A1.0200.93
20_H81_S1.0190.93
17_C77_S1.0160.93
70_H109_S1.0150.93
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  
4kvxA20.853199.90.264Contact Map
4pv6C160.841899.80.307Contact Map
4r3lA10.847599.80.311Contact Map
2cntA40.830599.80.33Contact Map
2ob0A30.909699.80.333Contact Map
1mk4A20.824999.80.337Contact Map
1n71A40.847599.80.339Contact Map
3kkwA10.824999.80.339Contact Map
2r7hA20.830599.80.34Contact Map
2reeA20.858899.80.344Contact 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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