OPENSEQ.org
TssGmeta

ID: 1518568460 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 303 (273)
Sequences: 8456 (5641.9)
Seq/Len: 30.974
Nf(neff/√len): 341.5

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: 30.974).

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
154_R184_T4.2191.00
198_T201_E3.5931.00
120_L140_L3.4381.00
133_G222_Y3.2501.00
191_L230_R3.0421.00
31_Y59_L2.7801.00
199_G203_Q2.7771.00
155_R189_Q2.7251.00
150_W193_Q2.6941.00
147_A194_L2.6681.00
148_R193_Q2.6211.00
138_V147_A2.5931.00
25_V67_I2.5801.00
9_K26_T2.5651.00
48_Q52_H2.4281.00
189_Q230_R2.3991.00
11_A23_V2.3411.00
204_G211_L2.3191.00
190_V229_V2.2421.00
111_A217_A2.2271.00
172_S175_S2.2021.00
190_V223_L2.1971.00
198_T239_L2.1691.00
193_Q234_C2.1481.00
149_V192_L2.1241.00
204_G210_H2.1221.00
165_M177_P2.0831.00
201_E204_G2.0801.00
12_V22_I2.0731.00
172_S176_R2.0691.00
109_N114_V2.0461.00
45_I55_A2.0221.00
89_D92_S1.9911.00
64_H68_T1.9761.00
198_T236_E1.9641.00
142_A215_L1.9621.00
28_M67_I1.9311.00
203_Q255_Q1.9221.00
191_L232_Q1.9061.00
192_L219_L1.8871.00
150_W191_L1.8801.00
60_D63_S1.8421.00
131_A151_H1.8381.00
193_Q232_Q1.8361.00
263_R267_K1.8261.00
201_E211_L1.8071.00
134_L222_Y1.8011.00
160_K163_L1.7681.00
155_R185_D1.7511.00
135_T149_V1.7451.00
56_A60_D1.6721.00
117_F221_V1.6621.00
135_T139_T1.6601.00
31_Y63_S1.6391.00
83_F115_S1.6141.00
190_V227_L1.6121.00
135_T148_R1.6091.00
124_M222_Y1.5841.00
153_D191_L1.5821.00
156_R182_H1.5701.00
142_A205_W1.5621.00
129_R222_Y1.5601.00
96_L107_A1.5471.00
197_Q233_L1.5391.00
74_W81_A1.5351.00
236_E239_L1.5121.00
138_V192_L1.5041.00
137_L218_L1.4961.00
158_P182_H1.4651.00
53_E57_D1.4561.00
10_D24_H1.4501.00
150_W153_D1.4361.00
96_L118_L1.4331.00
145_T194_L1.4241.00
189_Q228_D1.4020.99
215_L231_L1.3970.99
161_T164_T1.3840.99
111_A213_S1.3790.99
194_L197_Q1.3770.99
101_L221_V1.3680.99
11_A21_P1.3610.99
202_V235_V1.3530.99
146_Q195_S1.3510.99
211_L214_D1.3290.99
57_D60_D1.3230.99
31_Y45_I1.3120.99
243_A254_P1.3120.99
156_R184_T1.3090.99
119_A140_L1.3060.99
157_I185_D1.3060.99
137_L222_Y1.2980.99
170_P176_R1.2960.99
14_P22_I1.2940.99
131_A149_V1.2940.99
153_D189_Q1.2840.99
130_T133_G1.2800.99
195_S234_C1.2770.99
5_A9_K1.2770.99
55_A59_L1.2720.99
112_T218_L1.2700.99
255_Q258_R1.2480.99
124_M221_V1.2430.98
155_R228_D1.2280.98
14_P20_P1.2280.98
134_L219_L1.2260.98
28_M66_L1.2210.98
208_G255_Q1.2200.98
123_L136_S1.2150.98
99_A121_L1.2120.98
255_Q259_T1.2100.98
220_H225_S1.2040.98
97_G102_G1.2030.98
199_G241_P1.2020.98
75_R85_A1.1920.98
243_A260_A1.1920.98
132_E136_S1.1900.98
126_L130_T1.1830.98
45_I56_A1.1730.98
185_D188_G1.1710.98
132_E135_T1.1620.97
108_Q114_V1.1570.97
190_V219_L1.1550.97
199_G259_T1.1530.97
141_L214_D1.1510.97
145_T205_W1.1480.97
83_F92_S1.1450.97
83_F89_D1.1300.97
165_M171_V1.1200.96
94_Y97_G1.1190.96
47_Q50_E1.1130.96
13_I21_P1.0940.96
159_L178_V1.0940.96
123_L133_G1.0760.95
123_L130_T1.0680.95
197_Q201_E1.0640.95
74_W78_S1.0600.95
216_L220_H1.0580.95
244_R247_C1.0540.95
141_L218_L1.0500.94
71_Y74_W1.0400.94
164_T181_D1.0300.94
203_Q259_T1.0280.94
12_V24_H1.0270.94
44_D48_Q1.0200.93
63_S67_I1.0180.93
219_L229_V1.0150.93
14_P21_P1.0110.93
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  
2csiA10.151825.90.963Contact Map
2egeA10.148523.50.964Contact Map
2mioA10.13221.50.965Contact Map
2ct4A10.155119.30.966Contact Map
1ugvA10.1518190.966Contact Map
4z88A12018.20.966Contact Map
4z8aA1017.20.966Contact Map
1ckaA10.13216.70.967Contact Map
2eyxA10.141916.20.967Contact Map
2gtjA10.174916.20.967Contact 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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