GREMLIN Database
DUF2178 - Predicted membrane protein (DUF2178)
PFAM: PF09946 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 106 (101)
Sequences: 993 (826)
Seq/√Len: 82.2
META: 0.909

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
54_R57_E4.6561.00
82_R85_Y3.2391.00
62_R65_Q2.6681.00
67_F71_I2.6321.00
97_Y100_C2.3901.00
11_V15_V2.2851.00
98_S101_F2.0581.00
53_Y56_S2.0401.00
100_C104_I2.0261.00
54_R58_K2.0171.00
60_A64_L1.8861.00
48_E52_T1.8341.00
92_G95_L1.7251.00
79_I92_G1.6851.00
52_T60_A1.6841.00
81_L84_E1.6751.00
98_S102_L1.5961.00
20_G24_L1.5911.00
9_A12_G1.5821.00
6_A12_G1.5411.00
4_I7_V1.5361.00
32_G38_L1.5120.99
75_G79_I1.4700.99
94_T97_Y1.4680.99
57_E60_A1.4600.99
62_R66_I1.4120.99
7_V15_V1.4100.99
34_L99_A1.3900.99
85_Y88_Y1.3580.99
81_L85_Y1.3200.98
82_R89_E1.3080.98
82_R86_P1.2940.98
56_S61_R1.2920.98
52_T56_S1.2880.98
8_G12_G1.2510.98
6_A9_A1.2460.98
95_L99_A1.2250.98
73_L77_V1.1970.97
7_V14_A1.1870.97
38_L42_R1.1740.97
67_F102_L1.1660.97
75_G99_A1.1520.96
67_F98_S1.1120.96
60_A65_Q1.0980.95
4_I8_G1.0770.95
75_G92_G1.0650.94
4_I12_G1.0220.93
92_G99_A1.0170.93
91_L94_T1.0110.93
53_Y61_R1.0100.93
31_I42_R0.9980.92
9_A13_L0.9920.92
64_L68_L0.9870.92
74_L101_F0.9790.91
48_E53_Y0.9720.91
48_E62_R0.9700.91
13_L38_L0.9560.90
14_A25_A0.9460.90
61_R65_Q0.9450.90
93_Y97_Y0.9370.90
76_I80_A0.9140.88
52_T58_K0.9090.88
39_L73_L0.9040.88
54_R64_L0.9040.88
7_V11_V0.8950.87
6_A11_V0.8760.86
51_R59_A0.8750.86
84_E88_Y0.8740.86
25_A40_R0.8670.86
12_G15_V0.8620.85
10_L57_E0.8620.85
74_L88_Y0.8520.85
101_F105_L0.8380.84
40_R79_I0.8370.84
69_I91_L0.8360.84
26_I30_I0.8270.83
74_L80_A0.8220.82
69_I75_G0.8110.82
75_G78_L0.8080.81
9_A34_L0.7960.80
24_L40_R0.7930.80
33_I36_L0.7780.79
35_L97_Y0.7770.79
7_V32_G0.7760.79
91_L97_Y0.7720.78
8_G18_I0.7650.78
22_P27_I0.7640.78
21_N25_A0.7610.77
87_E90_Q0.7590.77
67_F105_L0.7570.77
26_I31_I0.7550.77
90_Q94_T0.7430.76
3_I21_N0.7360.75
11_V29_V0.7250.74
5_I11_V0.7180.73
61_R78_L0.7140.73
53_Y65_Q0.7090.72
67_F77_V0.7050.72
40_R46_V0.7040.72
59_A67_F0.6900.70
64_L74_L0.6820.69
6_A14_A0.6690.68
63_T100_C0.6680.68
4_I9_A0.6600.67
75_G80_A0.6580.67
77_V83_G0.6570.66
27_I47_I0.6480.65
9_A14_A0.6470.65
100_C103_L0.6410.64
93_Y101_F0.6400.64
95_L102_L0.6330.64
92_G97_Y0.6300.63
72_A76_I0.6280.63
4_I19_I0.6270.63
45_E63_T0.6230.62
27_I33_I0.6200.62
9_A18_I0.6140.61
5_I15_V0.6130.61
38_L104_I0.6090.61
8_G48_E0.5950.59
29_V103_L0.5950.59
33_I37_Y0.5800.57
32_G45_E0.5750.56
52_T78_L0.5590.54
11_V66_I0.5580.54
40_R52_T0.5580.54
93_Y96_A0.5570.54
37_Y82_R0.5570.54
15_V28_A0.5480.53
63_T105_L0.5460.52
28_A34_L0.5440.52
52_T64_L0.5420.52
3_I44_K0.5420.52
31_I37_Y0.5410.52
13_L19_I0.5360.51
71_I98_S0.5360.51
29_V86_P0.5330.51
69_I79_I0.5330.51
90_Q93_Y0.5320.51
58_K68_L0.5300.50
6_A35_L0.5290.50
59_A97_Y0.5280.50
19_I33_I0.5220.49
5_I40_R0.5180.49
34_L59_A0.5140.48
89_E92_G0.5110.48
80_A84_E0.5090.48
36_L46_V0.5070.47
35_L74_L0.5040.47
55_I59_A0.5030.47
70_V101_F0.5010.47
71_I85_Y0.5000.46
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  
3l1lA 2 0.4906 22.8 0.841 Contact Map
3giaA 1 0.5 6.4 0.876 Contact Map
3aqpA 1 0.9434 4.1 0.887 Contact Map
3qe7A 2 0.3962 4 0.887 Contact Map
4u4vA 1 0.4245 3.8 0.889 Contact Map
1vd7A 1 0.217 3.7 0.889 Contact Map
3qnqA 2 0.5472 3.6 0.889 Contact Map
3v5uA 1 0.3774 3.6 0.889 Contact Map
4ldsA 2 0.4151 3.5 0.89 Contact Map
4bwzA 2 0.4717 3.5 0.89 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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