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OPENSEQ.org

T3gp10

ID: 1485024510 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 347 (320)
Sequences: 388 (312.5)
Seq/Len: 1.212
Nf(neff/√len): 17.5

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: 1.212).

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
197_K212_D2.6961.00
196_T205_R2.5991.00
48_R293_Q2.3430.99
245_F292_F2.2860.99
103_V125_L2.2610.99
207_F292_F2.1470.98
199_Y251_P1.9770.97
131_M199_Y1.9260.96
191_A340_I1.8130.94
191_A292_F1.8050.94
191_A338_G1.7980.93
195_L200_V1.7570.92
61_Q90_E1.7210.91
299_G332_L1.6740.90
192_R196_T1.6580.89
95_I303_L1.6550.89
78_N315_N1.6280.88
185_I242_V1.5770.86
331_G334_P1.5430.84
317_Q324_K1.5410.84
209_T217_I1.5290.83
242_V247_V1.4610.79
144_L338_G1.4600.79
108_I326_A1.4470.78
62_F332_L1.4420.78
205_R294_H1.4140.76
105_I110_D1.4000.75
62_F299_G1.4000.75
287_N341_V1.3990.75
22_D105_I1.3960.75
73_L100_T1.3890.74
185_I220_A1.3830.74
290_G342_L1.3780.73
128_S132_A1.3770.73
34_E119_A1.3730.73
141_L293_Q1.3690.73
45_T137_V1.3670.72
237_G244_G1.3650.72
6_G10_I1.3580.72
66_G118_R1.3570.72
88_H121_Y1.3470.71
208_Y293_Q1.3420.70
123_A242_V1.3370.70
6_G11_G1.3340.70
213_N342_L1.3300.69
189_T219_A1.3230.69
240_R246_E1.3220.69
196_T249_E1.3210.69
236_R241_N1.3150.68
141_L298_V1.3090.68
141_L291_L1.3040.67
248_V293_Q1.3000.67
88_H333_R1.2980.67
163_V343_P1.2980.67
41_R199_Y1.2960.67
193_A212_D1.2880.66
112_M303_L1.2860.66
139_A143_G1.2830.65
48_R206_T1.2810.65
8_Q20_A1.2810.65
63_P115_Y1.2700.64
105_I321_I1.2680.64
197_K202_A1.2570.63
272_A275_A1.2540.63
261_T266_P1.2440.62
102_D322_I1.2360.61
205_R245_F1.2330.61
187_Q340_I1.2290.61
59_S92_V1.2250.60
228_Y321_I1.2240.60
97_G112_M1.2210.60
302_K305_D1.2200.60
261_T268_D1.2190.60
277_S281_V1.2160.59
189_T192_R1.2070.58
93_I201_P1.2060.58
86_I121_Y1.2040.58
266_P269_Q1.2030.58
95_I111_A1.2030.58
99_L317_Q1.1920.57
4_I9_Q1.1910.57
210_T255_A1.1840.56
59_S94_H1.1760.55
188_L207_F1.1740.55
85_D195_L1.1680.55
192_R245_F1.1670.55
6_G9_Q1.1670.55
6_G20_A1.1620.54
4_I11_G1.1550.53
52_R93_I1.1550.53
5_Q8_Q1.1540.53
79_L317_Q1.1470.53
63_P90_E1.1470.53
210_T288_V1.1430.52
220_A223_P1.1430.52
195_L338_G1.1420.52
5_Q23_K1.1390.52
311_A314_A1.1350.52
91_K195_L1.1330.51
66_G128_S1.1330.51
201_P205_R1.1320.51
224_N251_P1.1290.51
197_K249_E1.1270.51
157_G251_P1.1240.50
125_L323_A1.1210.50
261_T269_Q1.1180.50
143_G339_A1.1160.50
101_A128_S1.1150.50
207_F245_F1.1140.49
189_T243_M1.1130.49
104_L318_A1.1090.49
52_R120_E1.1030.48
211_P249_E1.1010.48
124_Q199_Y1.1000.48
94_H105_I1.0990.48
168_K183_A1.0990.48
127_E188_L1.0980.48
146_N197_K1.0950.48
211_P250_V1.0940.48
126_G130_A1.0930.47
231_L246_E1.0910.47
221_L225_A1.0900.47
50_M93_I1.0860.47
183_A216_A1.0820.46
143_G338_G1.0810.46
312_R319_D1.0760.46
68_T86_I1.0740.46
195_L309_E1.0700.45
8_Q23_K1.0690.45
36_L297_A1.0680.45
186_A193_A1.0670.45
20_A23_K1.0660.45
214_Y249_E1.0590.44
107_D317_Q1.0530.44
164_L167_V1.0510.43
101_A125_L1.0480.43
4_I8_Q1.0450.43
317_Q322_I1.0450.43
196_T211_P1.0450.43
144_L191_A1.0440.43
91_K247_V1.0370.42
5_Q9_Q1.0360.42
188_L245_F1.0330.42
209_T340_I1.0320.42
131_M187_Q1.0310.41
102_D320_Q1.0310.41
144_L259_G1.0290.41
119_A305_D1.0290.41
29_K59_S1.0280.41
96_D145_V1.0230.41
241_N249_E1.0210.40
312_R320_Q1.0190.40
142_A236_R1.0170.40
33_G214_Y1.0160.40
145_V339_A1.0150.40
146_N337_A1.0150.40
169_P266_P1.0150.40
20_A274_P1.0140.40
4_I10_I1.0120.40
64_V333_R1.0110.40
107_D324_K1.0090.39
56_S116_D1.0080.39
191_A195_L1.0060.39
145_V160_K1.0040.39
239_I244_G1.0040.39
266_P281_V1.0040.39
68_T103_V1.0020.39
159_G181_G1.0020.39
100_T106_Y1.0000.39
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  
4bmlA70.86741000.333Contact Map
3j7wA70.95971000.342Contact Map
2xd8A70.94241000.381Contact Map
4an5A70.642799.60.757Contact Map
2xyyA70.821399.30.789Contact Map
1ohgA70.789698.80.831Contact Map
3qprA70.720598.80.831Contact Map
4pt2P30.775297.20.885Contact Map
3dktA100.749396.70.893Contact Map
2e0zA30.677296.60.894Contact 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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