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OPENSEQ.org
prot 1E-06
ID: 1387278335 Query Sequence

 Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 101 (101)
Sequences: 161 (133.2)
Seq/Len: 1.594
Nf(neff/√len): 13.3
HHblits Results: (2013_03)
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: 1.594).

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
8_Y15_R2.2150.99
33_V76_I2.1600.99
4_K82_D1.9050.97
20_V34_I1.9030.97
34_I63_M1.7810.96
54_V63_M1.7440.95
2_Q67_D1.6720.93
19_D31_R1.6630.93
3_F6_Y1.5170.88
2_Q8_Y1.4800.86
32_M97_M1.4540.85
2_Q64_M1.4510.85
5_V97_M1.4230.83
72_P83_L1.4180.83
28_P65_T1.4120.83
39_A60_S1.4110.83
37_A43_S1.3800.81
56_I68_M1.3760.80
2_Q98_F1.3760.80
18_V90_I1.3430.78
34_I65_T1.2940.74
32_M98_F1.2660.72
64_M67_D1.2450.70
1_M94_I1.2240.68
2_Q99_W1.2080.67
24_I100_G1.2080.67
8_Y17_F1.2040.67
21_Q59_E1.2020.66
8_Y16_L1.1910.65
36_L50_L1.1860.65
56_I83_L1.1830.65
67_D91_K1.1690.63
51_Y66_T1.1600.62
19_D96_L1.1570.62
87_E95_N1.1330.60
54_V83_L1.1310.59
48_R63_M1.1170.58
53_V81_A1.1140.58
25_I91_K1.1130.58
7_T56_I1.1120.57
18_V65_T1.0960.56
22_S77_G1.0950.56
62_R66_T1.0880.55
74_S98_F1.0810.54
34_I91_K1.0550.52
47_S51_Y1.0380.50
4_K93_A1.0270.49
24_I71_V1.0260.48
2_Q91_K1.0250.48
17_F76_I1.0200.48
77_G92_N1.0170.48
55_H85_H1.0140.47
17_F34_I1.0120.47
7_T57_G1.0050.46
40_R84_S1.0000.46
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: (08Feb14)
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  
3vubA1199.90.415Contact Map
2kmtA2199.70.518Contact Map
4mdxA20.9703860.87Contact Map
1m1fA20.930783.30.875Contact Map
1ub4A20.881282.40.876Contact Map
3j32A20.94068.70.932Contact Map
4eagA10.40597.30.934Contact Map
3t4nA10.44556.10.937Contact Map
4h63H10.306960.937Contact Map
2qrdA20.47525.90.937Contact 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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