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PRMT5 1-300

ID: 1515484907 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 300 (290)
Sequences: 435 (350.1)
Seq/Len: 1.500
Nf(neff/√len): 20.6

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: 1.500).

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
84_G119_L4.0621.00
226_I257_L3.1891.00
286_Y290_N2.2210.99
239_N283_Y2.1050.99
142_I202_I2.0170.98
253_L257_L1.9640.98
208_I253_L1.9330.97
239_N251_Q1.7820.95
248_K251_Q1.7560.95
213_P250_H1.7550.95
245_V251_Q1.7010.93
78_W82_I1.6900.93
218_I253_L1.6890.93
229_A257_L1.5940.90
125_P154_R1.5730.89
189_W225_P1.5710.89
127_N134_L1.5580.89
212_L250_H1.5490.88
70_D73_L1.5350.88
92_P123_L1.5240.87
151_F265_I1.4850.85
152_W263_Q1.4660.84
84_G122_F1.4590.84
33_V41_L1.4480.83
125_P134_L1.4400.83
47_H52_R1.4200.82
237_L247_S1.3990.80
73_L80_T1.3890.80
89_W106_A1.3890.80
89_W103_S1.3770.79
170_N173_T1.3690.78
190_H193_R1.3650.78
272_H282_Q1.3570.78
243_F287_L1.3480.77
239_N244_P1.3460.77
83_V121_A1.3290.75
295_N298_E1.3290.75
90_I103_S1.3290.75
276_E279_S1.3240.75
266_I284_L1.3210.75
155_V203_A1.3150.74
121_A152_W1.2930.73
38_F147_H1.2920.72
239_N245_V1.2880.72
212_L249_M1.2820.72
205_A230_I1.2800.71
87_S90_I1.2760.71
82_I184_K1.2740.71
37_G204_V1.2730.71
221_W224_E1.2710.71
82_I296_A1.2590.70
66_Q109_Q1.2500.69
45_V113_F1.2480.69
251_Q283_Y1.2440.68
142_I196_C1.2400.68
107_M210_A1.2390.68
109_Q117_L1.2320.67
126_L134_L1.2290.67
203_A227_K1.2280.67
104_E136_R1.2190.66
38_F245_V1.2150.66
196_C202_I1.2100.65
265_I284_L1.2060.65
76_R298_E1.2030.65
244_P283_Y1.2020.64
226_I240_K1.2010.64
95_K266_I1.2010.64
246_L251_Q1.1910.63
185_T188_W1.1880.63
74_S113_F1.1820.63
111_L151_F1.1800.62
99_I284_L1.1700.61
50_F54_F1.1690.61
100_R104_E1.1560.60
241_K245_V1.1540.60
18_R22_C1.1510.60
245_V283_Y1.1500.59
155_V206_L1.1460.59
187_M222_L1.1430.59
264_F284_L1.1400.58
67_T70_D1.1400.58
93_D267_T1.1370.58
19_D85_K1.1330.58
67_T157_L1.1320.58
125_P212_L1.1300.57
94_S103_S1.1290.57
133_N223_G1.1280.57
186_W189_W1.1250.57
70_D250_H1.1140.56
47_H68_R1.1060.55
239_N243_F1.1060.55
297_Y300_F1.1040.55
57_E61_N1.1000.54
233_T268_G1.0930.54
232_P280_Y1.0930.54
18_R157_L1.0880.53
222_L293_P1.0820.53
87_S186_W1.0810.52
208_I229_A1.0760.52
63_P138_L1.0760.52
246_L283_Y1.0730.52
247_S250_H1.0700.51
76_R79_N1.0690.51
50_F97_E1.0680.51
184_K220_R1.0670.51
272_H275_K1.0670.51
136_R201_R1.0640.51
193_R198_Y1.0630.51
40_F250_H1.0620.50
93_D104_E1.0580.50
149_S155_V1.0560.50
242_G282_Q1.0540.50
38_F234_S1.0520.49
82_I93_D1.0480.49
43_M86_L1.0410.48
107_M111_L1.0410.48
119_L166_D1.0410.48
189_W193_R1.0380.48
131_N229_A1.0330.47
187_M290_N1.0260.47
247_S277_F1.0220.46
106_A138_L1.0220.46
94_S146_H1.0190.46
110_E113_F1.0190.46
160_P209_G1.0190.46
124_L134_L1.0180.46
147_H150_M1.0180.46
208_I284_L1.0170.46
58_P61_N1.0150.46
94_S99_I1.0090.45
94_S156_P1.0080.45
97_E104_E1.0070.45
13_R21_N1.0060.45
167_I170_N1.0050.45
170_N174_T1.0040.44
73_L78_W1.0040.44
78_W93_D1.0040.44
175_H178_E1.0020.44
233_T297_Y1.0020.44
214_S290_N1.0000.44
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  
4gqbA10.961000.211Contact Map
3ua3A20.91000.255Contact Map
4hnoA10.8496.40.931Contact Map
1qtwA10.843395.40.936Contact Map
3tc3A20.826792.20.945Contact Map
3aalA10.8691.90.945Contact Map
3obeA20.906789.80.948Contact Map
3kwsA20.806788.70.949Contact Map
2j6vA20.776788.40.949Contact Map
3ktcA20.873388.40.949Contact 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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