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FZD5CRD

ID: 1499875723 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 123 (117)
Sequences: 1396 (892.1)
Seq/Len: 11.932
Nf(neff/√len): 82.5

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: 11.932).

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
11_V64_T3.2181.00
7_Q33_Q2.6221.00
80_S111_V2.1101.00
8_E21_L1.9421.00
16_G56_R1.8981.00
79_R111_V1.8711.00
79_R83_E1.8401.00
85_A88_G1.8211.00
52_S85_A1.7531.00
19_Y22_T1.7521.00
90_S94_R1.6961.00
52_S88_G1.6891.00
51_C89_C1.6721.00
32_T35_E1.6681.00
54_D84_R1.6251.00
26_N30_H1.5911.00
83_E87_A1.5141.00
84_R88_G1.4771.00
62_M104_M1.4681.00
25_P30_H1.4381.00
24_M36_A1.4361.00
66_I121_M1.4341.00
62_M109_L1.4301.00
51_C67_C1.4211.00
66_I81_V1.3960.99
101_P104_M1.3560.99
33_Q36_A1.3040.99
59_L63_Y1.2760.99
93_M98_F1.2690.99
77_P121_M1.2640.99
9_I19_Y1.2360.98
13_M47_V1.2300.98
44_W48_E1.2130.98
37_G41_H1.1960.98
83_E86_K1.1870.98
66_I75_L1.1510.97
113_G118_V1.1500.97
112_L118_V1.1430.97
57_F61_S1.1390.97
86_K100_W1.1250.97
86_K90_S1.1250.97
40_V47_V1.1220.97
115_D118_V1.1160.96
42_Q49_I1.1150.96
9_I17_I1.1110.96
41_H49_I1.0700.95
24_M33_Q1.0680.95
52_S84_R1.0670.95
29_N35_E1.0610.95
25_P28_F1.0570.95
44_W98_F1.0560.95
49_I96_Y1.0400.94
83_E111_V1.0360.94
50_Q92_L1.0080.93
46_L55_L1.0060.93
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  
1ijyA20.97561000.064Contact Map
5bpbA401000.076Contact Map
1ijxA60.95121000.091Contact Map
4c7aA20.88621000.191Contact Map
2mahA10.88621000.192Contact Map
3hklA20.9593980.739Contact Map
4ywtA4018.50.913Contact Map
3odnA10.886210.50.922Contact Map
4km6A10.89435.90.931Contact Map
1hdlA10.39842.20.944Contact 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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