GREMLIN Database
Paramecium_SA - Paramecium surface antigen domain
PFAM: PF01508 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 63 (61)
Sequences: 1718 (1427)
Seq/√Len: 182.8
META: 0.02

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
4_H15_T3.1111.00
2_T6_E2.5181.00
51_N58_V2.4791.00
27_P33_Y2.4261.00
4_H8_Q2.3841.00
4_H26_K2.2421.00
5_E9_S2.2011.00
52_G55_T2.1081.00
29_T32_S2.1021.00
19_N22_G1.8601.00
42_D46_G1.7061.00
47_K60_K1.6091.00
26_K41_K1.5711.00
28_T32_S1.5641.00
17_N21_T1.5561.00
34_T50_W1.4081.00
15_T26_K1.3641.00
36_Q50_W1.3631.00
17_N20_G1.3401.00
31_S59_D1.3301.00
58_V61_T1.3151.00
35_T38_Q1.3101.00
8_Q11_L1.2811.00
8_Q26_K1.2641.00
3_T6_E1.2341.00
16_T38_Q1.2261.00
3_T16_T1.2091.00
4_H16_T1.1461.00
42_D59_D1.1451.00
10_Y22_G1.1101.00
42_D45_G1.0981.00
6_E9_S1.0571.00
27_P32_S0.9830.99
16_T19_N0.9730.99
45_G59_D0.9470.99
33_Y38_Q0.8970.99
28_T33_Y0.8780.98
49_Y52_G0.8640.98
49_Y60_K0.8590.98
41_K47_K0.8560.98
31_S45_G0.8530.98
31_S56_K0.8160.98
18_S46_G0.8000.97
57_C62_C0.7660.96
36_Q55_T0.7600.96
14_C62_C0.7600.96
40_V58_V0.7520.96
33_Y46_G0.7490.96
10_Y13_G0.7370.96
24_I27_P0.7210.95
5_E18_S0.7180.95
51_N56_K0.7110.95
15_T33_Y0.7070.94
40_V47_K0.6820.93
27_P42_D0.6680.93
51_N55_T0.6520.92
8_Q15_T0.6430.91
37_E61_T0.6400.91
16_T33_Y0.6370.91
26_K33_Y0.6340.91
5_E40_V0.6260.90
38_Q50_W0.6220.90
26_K50_W0.6150.89
8_Q13_G0.6070.89
7_C23_C0.6040.88
13_G25_D0.6040.88
34_T56_K0.6010.88
16_T22_G0.6000.88
8_Q12_S0.5950.88
23_C57_C0.5930.87
49_Y61_T0.5920.87
5_E8_Q0.5910.87
53_S63_S0.5650.85
52_G56_K0.5640.85
34_T41_K0.5580.84
5_E12_S0.5450.83
59_D62_C0.5430.82
13_G63_S0.5270.81
16_T20_G0.5250.80
24_I40_V0.5240.80
4_H10_Y0.5210.80
30_C57_C0.5160.79
10_Y49_Y0.5140.79
25_D47_K0.5130.79
28_T52_G0.5130.79
34_T42_D0.5070.78
2_T21_T0.5060.78
42_D50_W0.5060.78
53_S56_K0.5050.78
44_S63_S0.5020.77
49_Y59_D0.5010.77
11_L35_T0.5000.77
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
4fwwA 1 0.9206 3.6 0.834 Contact Map
2oo4A 1 0.5873 3 0.839 Contact Map
2mquA 1 0.381 2.2 0.852 Contact Map
3etoA 1 0.9365 1.9 0.856 Contact Map
3i08A 2 0.9365 1.6 0.863 Contact Map
1ne5A 1 0.5556 1.5 0.864 Contact Map
2xl1A 1 0.2381 1.2 0.873 Contact Map
3augA 1 0.2381 1.2 0.873 Contact Map
1co7I 1 0.1429 1.1 0.875 Contact Map
3al9A 2 0.8254 1 0.877 Contact Map

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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