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ID: 1504545730 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 363 (350)
Sequences: 3845 (2802.3)
Seq/Len: 10.986
Nf(neff/√len): 149.8

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: 10.986).

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
37_D163_R3.5371.00
33_E36_A3.3261.00
68_L96_Q3.0021.00
99_V118_M2.8701.00
72_G120_D2.8551.00
331_T343_Q2.7241.00
22_L259_G2.7101.00
169_G212_I2.6871.00
210_D234_R2.6841.00
54_I118_M2.6301.00
235_L259_G2.6271.00
67_D121_F2.5901.00
73_N93_P2.5891.00
56_Q136_Y2.5731.00
106_I118_M2.5591.00
142_L168_I2.4461.00
136_Y139_A2.4441.00
210_D227_S2.4341.00
35_N38_V2.3961.00
123_A132_L2.3691.00
104_R185_E2.3431.00
328_V345_P2.3321.00
39_R159_Y2.2921.00
70_T96_Q2.2661.00
52_Y171_A2.2511.00
105_G111_G2.2231.00
323_L348_V2.2111.00
37_D144_N2.1661.00
98_P101_Q2.1401.00
106_I115_C2.1331.00
171_A175_D2.1151.00
208_N230_E2.0941.00
126_Q150_V2.0571.00
48_M225_V2.0291.00
20_Y32_A2.0261.00
49_M137_V2.0261.00
163_R167_L1.9801.00
25_Y236_I1.9721.00
128_A131_G1.9691.00
251_E254_K1.9671.00
49_M145_T1.9651.00
229_T232_Q1.9121.00
237_S252_S1.8841.00
267_N270_K1.8821.00
169_G225_V1.8581.00
228_A260_F1.8201.00
64_K67_D1.8021.00
50_T115_C1.7911.00
131_G135_S1.7831.00
51_S106_I1.7821.00
340_T343_Q1.7741.00
335_Q340_T1.7631.00
125_S128_A1.7551.00
291_G349_L1.7551.00
68_L98_P1.7301.00
45_L165_M1.7271.00
69_V117_A1.7051.00
45_L225_V1.6941.00
71_I117_A1.6861.00
72_G75_A1.6801.00
22_L235_L1.6611.00
140_L171_A1.6591.00
19_S40_R1.6471.00
69_V121_F1.6431.00
328_V331_T1.6421.00
39_R144_N1.6401.00
329_V348_V1.6361.00
142_L167_L1.6261.00
66_T100_S1.6181.00
327_Q348_V1.6161.00
319_L329_V1.6161.00
178_N181_S1.6061.00
217_T220_A1.6061.00
42_P160_S1.5641.00
154_D219_K1.5601.00
51_S107_N1.5571.00
324_Q351_E1.5541.00
267_N297_Y1.5521.00
100_S104_R1.5351.00
19_S162_A1.5321.00
170_Q236_I1.5241.00
105_G114_A1.5071.00
145_T160_S1.5051.00
333_N343_Q1.4691.00
63_F121_F1.4621.00
226_A252_S1.4581.00
18_E241_G1.4531.00
264_E302_R1.4471.00
123_A128_A1.4441.00
57_A62_K1.4431.00
162_A240_M1.4251.00
135_S139_A1.4141.00
54_I99_V1.4091.00
229_T234_R1.3900.99
65_E103_I1.3830.99
165_M225_V1.3760.99
74_D120_D1.3700.99
325_K351_E1.3620.99
108_L185_E1.3600.99
89_M105_G1.3560.99
54_I106_I1.3550.99
288_A348_V1.3420.99
51_S103_I1.3400.99
104_R108_L1.3390.99
52_Y136_Y1.3390.99
146_H159_Y1.3300.99
311_S335_Q1.3220.99
21_I163_R1.3100.99
209_V226_A1.3070.99
20_Y34_Q1.2950.99
104_R188_F1.2880.99
71_I91_L1.2840.99
324_Q327_Q1.2830.99
293_D345_P1.2740.99
333_N340_T1.2710.99
132_L135_S1.2700.99
312_Y346_L1.2690.99
59_K178_N1.2520.99
289_S349_L1.2340.98
22_L237_S1.2330.98
17_A242_G1.2280.98
48_M172_L1.2230.98
242_G251_E1.2200.98
183_Y212_I1.2200.98
128_A132_L1.2190.98
220_A223_N1.2180.98
73_N77_A1.2130.98
75_A120_D1.2120.98
173_I180_Y1.2090.98
227_S234_R1.2070.98
24_D233_M1.2010.98
110_S213_K1.1950.98
65_E100_S1.1940.98
45_L240_M1.1840.98
19_S35_N1.1750.98
37_D161_S1.1710.98
100_S181_S1.1670.97
144_N161_S1.1610.97
21_I36_A1.1590.97
41_D154_D1.1540.97
186_K203_W1.1510.97
137_V142_L1.1480.97
23_I166_A1.1470.97
100_S182_I1.1410.97
265_T297_Y1.1400.97
148_Q155_A1.1260.97
180_Y227_S1.1210.97
290_L329_V1.1170.96
253_K257_T1.1100.96
348_V351_E1.1060.96
110_S214_T1.1040.96
21_I30_V1.0970.96
205_N257_T1.0910.96
280_V321_A1.0860.96
53_V57_A1.0840.96
41_D219_K1.0840.96
115_C150_V1.0790.95
267_N295_D1.0750.95
277_S287_R1.0750.95
170_Q174_R1.0750.95
136_Y171_A1.0700.95
48_M169_G1.0700.95
14_Q34_Q1.0640.95
226_A256_L1.0610.95
228_A256_L1.0590.95
116_V126_Q1.0510.94
46_T158_Q1.0470.94
28_G170_Q1.0450.94
180_Y234_R1.0420.94
269_L292_V1.0320.94
16_D251_E1.0230.93
239_V252_S1.0230.93
189_T194_R1.0210.93
58_M63_F1.0150.93
181_S184_K1.0100.93
52_Y175_D1.0030.93
135_S138_N1.0020.92
39_R161_S1.0010.92
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  
3mzfA10.97251000.162Contact Map
3itaA40.95871000.198Contact Map
4k91A20.94491000.201Contact Map
3a3jA10.93941000.211Contact Map
1xp4A40.92561000.225Contact Map
3mfdA20.8761000.235Contact Map
1tvfA20.89261000.346Contact Map
3hunA20.88981000.35Contact Map
4pprA10.75481000.443Contact Map
4ryeA40.6971000.454Contact 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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