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ID: 1514270473 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 246 (245)
Sequences: 17367 (10735.2)
Seq/Len: 70.886
Nf(neff/√len): 685.8

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: 70.886).

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
22_A105_S4.0091.00
160_F164_Q3.6601.00
22_A71_V3.3421.00
163_A167_K2.5111.00
52_K56_Y2.4291.00
74_V104_V2.3731.00
51_N55_A2.3711.00
80_Y85_H2.3291.00
80_Y164_Q2.2841.00
63_M109_I2.2311.00
157_V161_I2.2301.00
54_Y130_V2.2161.00
164_Q167_K2.1041.00
29_V64_A2.0151.00
67_A108_A1.9741.00
200_K245_I1.9381.00
80_Y84_C1.9291.00
26_W67_A1.9271.00
59_T63_M1.8931.00
24_A27_E1.8391.00
205_H235_V1.7961.00
155_F202_L1.7911.00
73_L161_I1.7871.00
71_V101_L1.7661.00
164_Q168_H1.7581.00
36_F39_S1.7551.00
47_N50_V1.7461.00
85_H88_K1.7341.00
27_E242_N1.7231.00
227_L231_S1.7221.00
18_T101_L1.7071.00
78_D82_A1.6161.00
172_Y176_R1.6021.00
159_S163_A1.5911.00
124_C130_V1.5601.00
74_V100_I1.5571.00
168_H171_K1.5191.00
94_D97_R1.5141.00
81_F85_H1.5131.00
26_W105_S1.5021.00
226_R230_V1.5021.00
59_T116_F1.4931.00
21_I25_A1.4911.00
237_I241_C1.4821.00
167_K171_K1.4731.00
17_N20_L1.4731.00
30_L239_A1.4641.00
22_A101_L1.4531.00
113_T117_F1.4411.00
9_R12_Q1.4351.00
26_W68_A1.4281.00
77_I161_I1.4281.00
80_Y160_F1.4261.00
100_I104_V1.4201.00
211_D231_S1.4151.00
67_A71_V1.4131.00
166_S170_S1.4050.99
162_A165_V1.3860.99
223_T227_L1.3840.99
78_D93_G1.3820.99
88_K92_F1.3800.99
67_A105_S1.3720.99
80_Y161_I1.3650.99
96_A99_K1.3600.99
145_I149_L1.3540.99
211_D227_L1.3460.99
71_V105_S1.3400.99
51_N120_S1.3350.99
88_K91_R1.3340.99
12_Q17_N1.3290.99
242_N246_Y1.3290.99
27_E68_A1.3190.99
84_C168_H1.3180.99
33_A36_F1.2970.99
73_L157_V1.2910.99
14_P17_N1.2900.99
187_D190_R1.2840.99
188_Q192_Q1.2770.99
52_K55_A1.2710.99
76_A162_A1.2650.99
63_M112_A1.2620.99
72_V158_L1.2370.98
70_W107_F1.2350.98
66_Q150_L1.2290.98
162_A169_M1.2270.98
206_L210_L1.2260.98
121_V128_V1.2200.98
10_S13_W1.2040.98
17_N21_I1.2040.98
77_I81_F1.2000.98
108_A112_A1.2000.98
104_V108_A1.1960.98
210_L214_E1.1920.98
81_F92_F1.1660.97
187_D191_D1.1640.97
19_C75_M1.1590.97
202_L206_L1.1570.97
166_S191_D1.1570.97
95_T99_K1.1500.97
82_A87_L1.1480.97
34_S38_Y1.1470.97
103_L107_F1.1430.97
62_N112_A1.1350.97
23_L71_V1.1320.97
70_W73_L1.1200.96
28_I31_M1.1200.96
158_L198_I1.1130.96
165_V169_M1.1000.96
22_A26_W1.0990.96
82_A89_H1.0960.96
162_A166_S1.0890.96
200_K241_C1.0690.95
158_L162_A1.0640.95
115_R118_E1.0640.95
151_Y206_L1.0640.95
31_M240_G1.0630.95
32_C36_F1.0610.95
190_R194_L1.0600.95
93_G97_R1.0570.95
232_N236_M1.0520.95
82_A86_P1.0500.94
193_L196_I1.0490.94
69_V201_F1.0430.94
240_G243_V1.0420.94
196_I245_I1.0410.94
69_V154_P1.0380.94
204_C241_C1.0340.94
147_G152_S1.0320.94
166_S169_M1.0290.94
237_I240_G1.0220.93
3_C21_I1.0190.93
73_L158_L1.0190.93
70_W108_A1.0190.93
239_A243_V1.0180.93
23_L27_E1.0140.93
19_C78_D1.0120.93
113_T116_F1.0120.93
150_L154_P1.0110.93
81_F89_H1.0080.93
70_W154_P1.0020.92
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  
4iarA10.94721000.044Contact Map
3uonA10.98781000.079Contact Map
2rh1A10.99591000.081Contact Map
4bvnA10.97561000.083Contact Map
4pxzA10.97151000.084Contact Map
3oduA20.99191000.09Contact Map
3pblA20.97151000.094Contact Map
4grvA10.99191000.098Contact Map
3rzeA10.97151000.105Contact Map
3emlA10.98371000.105Contact 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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