GREMLIN Database
YWCD - Uncharacterized membrane protein YwcD
UniProt: P39602 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 127 (120)
Sequences: 541 (453)
Seq/√Len: 41.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
36_W40_V3.7561.00
66_L70_F2.9811.00
5_M46_T2.5611.00
87_L98_A2.5171.00
13_N35_A2.5071.00
54_Q65_E2.4901.00
16_S38_L2.3971.00
32_T99_K2.3761.00
33_V77_L2.2481.00
80_D84_M2.2451.00
83_M87_L2.1660.99
5_M8_F2.1540.99
14_I103_N2.1390.99
17_F95_E2.1100.99
72_V113_A2.0930.99
21_V95_E1.8980.99
41_L66_L1.8940.99
8_F42_F1.7370.97
41_L70_F1.7150.97
93_T98_A1.6890.97
10_T43_A1.6670.97
48_K56_T1.6590.97
7_V10_T1.5910.96
3_I107_V1.5660.95
83_M102_D1.5490.95
64_K68_A1.5070.94
44_Y62_L1.4860.94
105_V109_V1.4690.93
32_T81_L1.4680.93
78_G82_G1.4560.93
13_N80_D1.4490.93
48_K65_E1.4170.92
82_G86_I1.3950.91
72_V118_V1.3880.91
20_L34_A1.3440.90
79_I109_V1.3170.89
17_F32_T1.3150.89
28_Y84_M1.3120.89
17_F99_K1.3020.88
75_L79_I1.2980.88
28_Y89_G1.2800.87
35_A39_S1.2710.87
42_F46_T1.2380.86
36_W77_L1.2180.85
44_Y63_L1.2140.84
45_I49_L1.1690.82
80_D102_D1.1640.82
17_F77_L1.1450.81
80_D103_N1.1450.81
28_Y88_V1.1260.80
56_T61_S1.1250.80
14_I100_I1.1120.79
86_I90_Q1.1080.79
12_V16_S1.0930.78
104_A108_V1.0810.77
11_I15_A1.0660.76
32_T84_M1.0640.76
79_I83_M1.0520.75
29_K85_I1.0390.74
4_I7_V1.0390.74
9_T43_A1.0260.73
98_A102_D1.0200.73
16_S35_A1.0160.72
3_I7_V0.9940.71
48_K62_L0.9920.70
71_S75_L0.9810.70
37_I41_L0.9760.69
87_L93_T0.9630.68
35_A38_L0.9590.68
88_V95_E0.9560.68
83_M98_A0.9510.67
87_L102_D0.9470.67
9_T40_V0.9230.65
34_A37_I0.9220.65
44_Y65_E0.9190.64
2_Y6_G0.9010.63
79_I105_V0.8990.63
27_D89_G0.8830.61
9_T107_V0.8790.61
80_D99_K0.8610.59
44_Y48_K0.8490.58
13_N17_F0.8480.58
103_N106_I0.8450.58
29_K32_T0.8360.57
5_M42_F0.8180.55
76_S109_V0.8150.55
45_I48_K0.8030.54
32_T80_D0.8020.54
26_V34_A0.8000.54
7_V97_L0.7910.53
17_F36_W0.7870.53
74_V78_G0.7760.52
44_Y66_L0.7760.52
13_N103_N0.7730.51
72_V84_M0.7670.51
12_V104_A0.7520.49
77_L88_V0.7480.49
4_I98_A0.7380.48
25_N64_K0.7380.48
49_L62_L0.7370.48
26_V31_A0.7330.48
12_V39_S0.7330.48
13_N99_K0.7290.47
56_T62_L0.7280.47
49_L56_T0.7200.46
85_I89_G0.7180.46
109_V113_A0.7090.45
40_V77_L0.6980.44
87_L105_V0.6950.44
46_T107_V0.6940.44
44_Y103_N0.6840.43
63_L105_V0.6790.43
25_N91_F0.6760.42
45_I62_L0.6690.42
55_K67_T0.6670.41
68_A86_I0.6640.41
29_K81_L0.6620.41
71_S108_V0.6610.41
45_I71_S0.6560.40
18_Y96_T0.6560.40
8_F46_T0.6490.40
7_V33_V0.6470.40
54_Q106_I0.6460.40
3_I10_T0.6410.39
13_N106_I0.6380.39
81_L84_M0.6360.39
37_I70_F0.6340.39
31_A95_E0.6340.39
25_N90_Q0.6260.38
75_L90_Q0.6120.37
113_A118_V0.6080.36
3_I108_V0.6040.36
27_D30_A0.6040.36
76_S107_V0.6000.36
45_I55_K0.5980.35
37_I121_K0.5980.35
99_K105_V0.5980.35
49_L55_K0.5870.34
29_K89_G0.5870.34
108_V118_V0.5830.34
56_T65_E0.5830.34
57_H61_S0.5790.34
38_L117_L0.5790.34
36_W84_M0.5790.34
30_A112_V0.5760.34
62_L65_E0.5750.33
27_D85_I0.5720.33
112_V116_W0.5690.33
31_A89_G0.5650.33
11_I112_V0.5650.33
44_Y105_V0.5650.33
3_I40_V0.5610.32
13_N39_S0.5610.32
93_T101_L0.5590.32
114_S118_V0.5560.32
97_L101_L0.5550.32
62_L85_I0.5540.32
32_T113_A0.5520.32
4_I8_F0.5470.31
16_S30_A0.5470.31
13_N41_L0.5430.31
39_S80_D0.5410.31
7_V43_A0.5400.31
4_I55_K0.5390.31
57_H122_T0.5300.30
12_V68_A0.5290.30
63_L67_T0.5280.30
39_S43_A0.5260.30
39_S70_F0.5250.29
33_V78_G0.5190.29
44_Y56_T0.5170.29
19_I64_K0.5120.28
94_N101_L0.5110.28
17_F21_V0.5100.28
33_V81_L0.5100.28
10_T107_V0.5090.28
33_V37_I0.5090.28
82_G122_T0.5030.28
101_L108_V0.5010.28
86_I98_A0.5000.28
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  
2kv5A 1 0.2598 6.6 0.945 Contact Map
3w4tA 1 0.4488 2.3 0.956 Contact Map
3mktA 1 0.5039 1.7 0.959 Contact Map
3aqpA 1 0.9055 1.5 0.96 Contact Map
3oduA 2 0.3386 1.4 0.961 Contact Map
1hcuA 1 0.2677 1.4 0.961 Contact Map
3l32A 2 0.3543 1.3 0.962 Contact Map
3uonA 1 0.2598 1.2 0.963 Contact Map
3pblA 1 0.2677 1.2 0.963 Contact Map
4lz6A 1 0.4488 1.2 0.963 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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