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ID: 1504609794 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 283 (264)
Sequences: 183 (150.8)
Seq/Len: 0.693
Nf(neff/√len): 9.3

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: 0.693).

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
108_L154_I2.8520.99
16_H47_W2.8090.99
115_Y119_D1.9200.89
46_I153_I1.8080.85
103_L107_I1.6850.79
25_P28_N1.6700.78
267_R270_I1.6470.76
85_I88_E1.6340.75
21_G35_W1.6290.75
104_R206_P1.5470.70
99_V200_T1.5450.70
14_K43_E1.5130.67
16_H115_Y1.5090.67
50_K130_I1.4810.65
12_D112_G1.4500.62
119_D205_G1.4460.62
268_P271_E1.4440.62
31_V35_W1.4420.62
107_I162_I1.4420.62
104_R115_Y1.4240.60
18_I115_Y1.4210.60
110_A159_G1.4170.60
234_D237_Y1.4150.60
17_F49_D1.4010.58
63_L67_S1.3790.57
86_R89_L1.3620.55
163_I167_A1.3390.53
49_D151_N1.3230.52
115_Y206_P1.3120.51
12_D158_K1.3080.51
31_V121_L1.3080.51
250_Y253_Q1.3080.51
72_V210_F1.3070.51
149_L152_D1.3050.50
130_I252_P1.3030.50
49_D122_C1.2990.50
46_I53_A1.2830.49
19_W35_W1.2810.48
101_D119_D1.2800.48
85_I89_L1.2790.48
155_L209_L1.2760.48
250_Y254_N1.2580.46
176_A179_S1.2370.45
62_I72_V1.2350.45
11_I155_L1.2310.44
104_R205_G1.2190.43
32_V36_A1.2170.43
109_A164_Q1.2150.43
47_W260_S1.2140.43
45_I158_K1.2140.43
124_A206_P1.2100.42
75_I120_I1.2060.42
101_D206_P1.1980.42
21_G97_G1.1970.41
61_F90_D1.1960.41
234_D238_L1.1940.41
267_R271_E1.1920.41
17_F21_G1.1850.40
125_P177_R1.1800.40
20_V167_A1.1770.40
48_V52_I1.1730.39
57_E61_F1.1720.39
60_L87_H1.1720.39
157_S220_N1.1710.39
57_E249_F1.1610.39
19_W111_E1.1600.38
65_M69_G1.1570.38
245_E248_Y1.1560.38
66_K70_I1.1540.38
18_I103_L1.1460.37
60_L72_V1.1430.37
97_G260_S1.1340.36
66_K73_K1.1320.36
240_D246_P1.1290.36
186_Y190_K1.1250.36
108_L127_P1.1240.36
39_N101_D1.1170.35
35_W49_D1.1130.35
151_N205_G1.1100.35
42_Y101_D1.1100.35
239_I244_K1.1100.35
238_L242_S1.1080.34
47_W98_M1.1050.34
236_R260_S1.0980.34
61_F65_M1.0980.34
42_Y45_I1.0970.34
46_I107_I1.0940.33
48_V200_T1.0930.33
134_F137_L1.0930.33
13_K42_Y1.0910.33
238_L241_G1.0890.33
32_V195_E1.0890.33
138_L207_G1.0830.33
16_H21_G1.0810.32
119_D206_P1.0770.32
26_Q258_D1.0770.32
65_M78_E1.0740.32
184_H187_A1.0700.32
49_D205_G1.0690.31
18_I107_I1.0670.31
47_W261_W1.0630.31
127_P154_I1.0620.31
27_K31_V1.0600.31
266_K269_G1.0600.31
34_E94_P1.0590.31
119_D268_P1.0570.31
40_P249_F1.0510.30
146_N158_K1.0510.30
234_D241_G1.0450.30
61_F71_T1.0440.30
95_N99_V1.0440.30
179_S182_F1.0390.29
255_N258_D1.0360.29
55_A103_L1.0350.29
12_D156_C1.0320.29
205_G269_G1.0310.29
114_I194_G1.0270.29
244_K247_D1.0270.29
164_Q168_D1.0250.28
47_W115_Y1.0180.28
235_Q242_S1.0180.28
184_H190_K1.0170.28
215_K238_L1.0170.28
105_L168_D1.0140.28
135_G139_S1.0120.28
159_G212_Q1.0110.27
63_L80_V1.0090.27
127_P192_T1.0080.27
72_V216_M1.0060.27
64_D68_K1.0050.27
76_N79_G1.0050.27
47_W200_T1.0030.27
104_R112_G1.0030.27
24_M32_V1.0010.27
249_F266_K1.0010.27
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  
4dmvA10.95761000.441Contact Map
2bvlA10.95761000.462Contact Map
2vk9A10.94351000.478Contact Map
4mixA20.78451000.514Contact Map
3jszA10.925898.20.871Contact Map
3tztA20.770374.80.941Contact Map
1ll2A10.805762.70.946Contact Map
4uegA20.795146.10.951Contact Map
1g9rA10.826943.30.952Contact Map
3u2uA20.837541.90.952Contact 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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