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ID: 1507661466 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 424 (406)
Sequences: 5116 (4363.9)
Seq/Len: 12.601
Nf(neff/√len): 216.6

Jackhmmer Results: (2016_04)
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: 12.601).

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
182_D214_R4.0631.00
216_M358_M3.8781.00
189_M220_V3.8321.00
197_Q223_A3.7681.00
12_D90_R3.3061.00
185_A211_V3.2111.00
132_F211_V3.1131.00
36_S39_E2.9881.00
24_E53_R2.9381.00
139_M159_G2.9101.00
193_H220_V2.8551.00
131_V199_I2.8231.00
205_G230_I2.7541.00
189_M218_R2.7301.00
8_E34_S2.7251.00
14_L90_R2.6501.00
32_G35_Q2.6021.00
18_L54_L2.5451.00
129_R199_I2.5371.00
203_L207_I2.5061.00
37_F42_A2.4911.00
155_G197_Q2.4911.00
11_L33_R2.4811.00
13_E16_S2.4461.00
34_S83_A2.3601.00
133_H184_Y2.3221.00
23_A30_S2.3021.00
196_L220_V2.2861.00
210_E214_R2.2541.00
72_L75_Q2.2271.00
400_N403_S2.1941.00
188_L211_V2.1641.00
12_D33_R2.1071.00
128_L156_S2.0591.00
7_S30_S2.0191.00
163_A183_D2.0181.00
368_E398_E2.0031.00
43_D46_I2.0031.00
361_I388_C1.9941.00
11_L83_A1.9931.00
33_R82_V1.9891.00
360_D391_E1.9841.00
19_A82_V1.9641.00
55_R70_D1.9571.00
22_W82_V1.9371.00
36_S80_P1.9161.00
21_L50_V1.9121.00
17_I57_K1.9111.00
176_L179_T1.9101.00
185_A214_R1.9061.00
210_E213_R1.8601.00
187_C190_A1.8451.00
189_M196_L1.8321.00
8_E33_R1.8251.00
12_D16_S1.7951.00
53_R57_K1.7921.00
128_L155_G1.7701.00
160_V188_L1.7571.00
124_Q156_S1.7421.00
127_L197_Q1.7391.00
21_L54_L1.7351.00
22_W42_A1.7321.00
16_S20_K1.7201.00
142_F201_Y1.7121.00
18_L86_A1.6991.00
19_A33_R1.6971.00
399_G403_S1.6921.00
360_D390_G1.6881.00
178_E210_E1.6761.00
75_Q88_F1.6581.00
367_S396_T1.6501.00
214_R218_R1.6351.00
191_T196_L1.6271.00
183_D187_C1.6221.00
216_M359_G1.6141.00
365_L396_T1.6051.00
19_A31_I1.6031.00
163_A180_V1.5841.00
81_T84_D1.5801.00
186_E218_R1.5771.00
25_A50_V1.5701.00
134_A141_I1.5651.00
388_C391_E1.5561.00
150_K418_E1.5531.00
395_I416_L1.5481.00
79_Y88_F1.5041.00
14_L17_I1.4971.00
367_S398_E1.4771.00
217_E355_L1.4711.00
365_L394_V1.4601.00
126_G155_G1.4441.00
213_R355_L1.4401.00
178_E214_R1.4381.00
132_F160_V1.4341.00
15_E33_R1.4241.00
38_Y42_A1.4201.00
181_A214_R1.4040.99
228_I404_C1.3940.99
134_A201_Y1.3850.99
226_V364_L1.3840.99
398_E412_R1.3790.99
131_V157_I1.3770.99
397_I404_C1.3700.99
38_Y77_L1.3620.99
129_R157_I1.3570.99
24_E57_K1.3550.99
17_I20_K1.3440.99
61_D70_D1.3350.99
148_H411_S1.3320.99
216_M357_Y1.3260.99
126_G152_Q1.3250.99
177_I181_A1.3130.99
399_G404_C1.3100.99
185_A189_M1.3080.99
360_D393_G1.3060.99
203_L346_S1.3050.99
134_A142_F1.3050.99
116_V119_P1.3030.99
22_W37_F1.2940.99
213_R217_E1.2920.99
185_A188_L1.2880.99
130_V191_T1.2850.99
181_A211_V1.2700.99
130_V188_L1.2690.99
342_V346_S1.2530.99
191_T194_S1.2460.98
127_L223_A1.2410.98
128_L158_V1.2390.98
19_A23_A1.2360.98
11_L15_E1.2340.98
197_Q224_D1.2310.98
31_I40_H1.2270.98
79_Y84_D1.2270.98
410_V414_A1.2270.98
116_V187_C1.2200.98
226_V417_L1.2190.98
227_L230_I1.2170.98
202_S229_D1.2160.98
214_R217_E1.2120.98
209_V352_Y1.2110.98
133_H201_Y1.2060.98
364_L416_L1.2050.98
18_L82_V1.1930.98
23_A29_V1.1920.98
132_F198_L1.1890.98
381_L385_Q1.1830.98
20_K57_K1.1760.98
7_S32_G1.1650.97
148_H414_A1.1640.97
49_Q53_R1.1410.97
121_G150_K1.1350.97
50_V76_M1.1260.97
25_A46_I1.1240.97
412_R415_Q1.1230.97
119_P122_T1.1190.96
35_Q40_H1.1190.96
117_L120_Y1.1100.96
17_I58_L1.1010.96
199_I226_V1.0980.96
175_E179_T1.0980.96
269_A273_M1.0970.96
358_M389_L1.0950.96
225_L361_I1.0920.96
382_S385_Q1.0910.96
362_R393_G1.0890.96
8_E83_A1.0880.96
51_A76_M1.0880.96
361_I392_L1.0880.96
174_A183_D1.0880.96
224_D362_R1.0820.96
14_L58_L1.0760.95
393_G420_P1.0740.95
178_E352_Y1.0660.95
143_R147_E1.0640.95
332_P335_M1.0600.95
74_R78_N1.0570.95
18_L21_L1.0570.95
207_I211_V1.0560.95
164_D173_S1.0540.95
22_W85_L1.0530.95
191_T220_V1.0520.95
133_H180_V1.0490.94
213_R357_Y1.0450.94
181_A210_E1.0450.94
144_P407_E1.0450.94
133_H137_G1.0440.94
210_E352_Y1.0440.94
43_D73_L1.0380.94
277_E280_G1.0330.94
199_I228_I1.0320.94
117_L121_G1.0260.94
51_A55_R1.0240.93
14_L89_I1.0200.93
133_H139_M1.0200.93
345_Q349_A1.0130.93
362_R395_I1.0100.93
139_M146_L1.0100.93
127_L191_T1.0090.93
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  
2vz8A20.00941000.431Contact Map
3tejA20.751000.495Contact Map
2vsqA10.6911000.519Contact Map
2px6A20.601499.90.689Contact Map
2jgpA10.851499.90.697Contact Map
2cb9A10.490699.90.716Contact Map
1jmkC20.537799.90.719Contact Map
1kezA30.599199.80.744Contact Map
4r0mB20.19199.80.745Contact Map
2k2qB10.55999.80.745Contact 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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