GREMLIN Database
DUF4988 - Domain of unknown function
PFAM: PF16378 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 190 (179)
Sequences: 744 (661)
Seq/√Len: 49.4
META: 0.87

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
123_K131_T5.5151.00
101_D105_N3.8731.00
15_R20_E3.6751.00
12_L16_V3.3561.00
41_D60_D3.2961.00
80_G88_T3.0751.00
8_D13_E2.7161.00
172_D178_T2.5211.00
176_Y188_T2.4011.00
159_G162_G2.3711.00
41_D61_G2.3441.00
58_F64_I2.3331.00
41_D59_S2.2781.00
123_K126_E2.2091.00
135_D139_T2.1911.00
98_W106_K2.1291.00
49_G52_G2.0951.00
69_G72_G2.0921.00
82_D106_K2.0071.00
129_Y142_R1.9830.99
133_S139_T1.9270.99
145_D149_N1.8470.99
125_D131_T1.8090.99
180_T186_T1.7910.99
133_S140_W1.7720.99
5_L9_I1.7310.99
41_D62_T1.7230.99
125_D142_R1.7050.98
48_E52_G1.6410.98
170_T173_D1.5890.97
170_T174_D1.5750.97
6_R10_D1.5660.97
121_Q133_S1.5440.97
48_E51_D1.5280.97
86_Y89_V1.5270.97
45_S57_T1.5210.97
129_Y143_L1.5190.97
133_S137_G1.4940.96
90_T96_T1.4500.96
172_D176_Y1.4270.95
129_Y145_D1.4270.95
11_D15_R1.4180.95
131_T142_R1.4160.95
26_L30_I1.4080.95
19_L23_V1.3850.94
101_D107_I1.3850.94
6_R9_I1.3700.94
7_D10_D1.3490.94
13_E17_T1.3410.93
123_K140_W1.3350.93
86_Y106_K1.2990.92
121_Q140_W1.2590.91
52_G67_Y1.2420.90
114_G117_G1.2400.90
178_T188_T1.2380.90
145_D153_A1.2250.90
47_E52_G1.2120.89
179_F187_I1.2070.89
44_T59_S1.1940.89
89_V107_I1.1940.89
60_D63_T1.1790.88
88_T92_D1.1780.88
56_I179_F1.1550.87
148_G151_V1.1400.86
53_G68_N1.1380.86
117_G130_W1.1220.85
170_T178_T1.1130.85
49_G53_G1.1100.85
169_V179_F1.1010.84
144_G150_P1.0950.84
46_V166_F1.0870.83
170_T180_T1.0710.82
134_Y143_L1.0710.82
46_V56_I1.0670.82
131_T140_W1.0630.82
131_T153_A1.0580.82
47_E51_D1.0570.82
173_D188_T1.0490.81
179_F189_I1.0470.81
99_L102_A1.0410.81
50_D53_G1.0390.81
9_I12_L1.0390.81
135_D140_W1.0360.80
55_T65_T1.0290.80
6_R11_D1.0250.80
158_G161_D1.0210.79
123_K142_R1.0200.79
58_F72_G1.0150.79
58_F71_D1.0070.78
127_D142_R1.0030.78
171_V187_I0.9950.78
124_I146_A0.9880.77
7_D16_V0.9800.76
58_F69_G0.9790.76
170_T176_Y0.9770.76
92_D96_T0.9760.76
15_R65_T0.9680.76
25_Q29_N0.9660.75
178_T187_I0.9650.75
21_E24_K0.9630.75
133_S136_G0.9600.75
143_L146_A0.9540.75
142_R150_P0.9530.74
122_L143_L0.9480.74
91_G94_G0.9480.74
61_G109_A0.9430.74
166_F181_L0.9360.73
9_I16_V0.9320.73
90_T94_G0.9230.72
32_A64_I0.9220.72
72_G76_T0.8970.70
7_D11_D0.8930.70
148_G152_K0.8790.68
12_L15_R0.8780.68
97_E100_L0.8760.68
168_S180_T0.8760.68
41_D58_F0.8730.68
81_V126_E0.8600.67
127_D153_A0.8570.66
100_L103_D0.8570.66
167_K180_T0.8420.65
162_G165_F0.8420.65
5_L71_D0.8410.65
124_I144_G0.8400.65
70_K73_D0.8400.65
46_V140_W0.8320.64
55_T63_T0.8320.64
101_D104_G0.8300.64
64_I69_G0.8230.63
119_T134_Y0.8170.63
56_I66_I0.8170.63
123_K133_S0.8150.62
8_D11_D0.8150.62
26_L122_L0.8100.62
171_V178_T0.8050.61
140_W144_G0.8040.61
12_L18_A0.7960.61
52_G65_T0.7940.60
144_G151_V0.7910.60
29_N67_Y0.7880.60
95_E98_W0.7780.59
16_V20_E0.7710.58
159_G164_S0.7710.58
91_G96_T0.7690.58
14_D18_A0.7660.58
43_I179_F0.7650.57
144_G148_G0.7630.57
77_P130_W0.7630.57
144_G153_A0.7600.57
94_G98_W0.7570.57
142_R145_D0.7470.56
5_L14_D0.7460.56
54_Y69_G0.7460.56
51_D67_Y0.7390.55
125_D129_Y0.7340.54
181_L187_I0.7280.54
4_D10_D0.7200.53
53_G66_I0.7190.53
172_D177_V0.7170.53
129_Y134_Y0.7110.52
108_P116_D0.7110.52
19_L124_I0.7050.51
90_T93_D0.7030.51
29_N32_A0.7020.51
53_G69_G0.7000.51
30_I34_Q0.6960.51
123_K153_A0.6930.50
4_D16_V0.6870.50
26_L67_Y0.6830.49
52_G63_T0.6820.49
51_D55_T0.6800.49
42_Y60_D0.6770.49
38_Q58_F0.6750.48
5_L21_E0.6660.47
8_D12_L0.6600.47
46_V58_F0.6600.47
42_Y158_G0.6580.47
53_G67_Y0.6530.46
66_I179_F0.6500.46
58_F169_V0.6460.45
178_T186_T0.6400.45
132_V141_T0.6370.45
92_D97_E0.6360.44
121_Q136_G0.6360.44
10_D13_E0.6300.44
9_I178_T0.6300.44
22_L34_Q0.6280.44
171_V174_D0.6260.43
12_L30_I0.6250.43
100_L106_K0.6250.43
77_P87_W0.6210.43
76_T89_V0.6200.43
150_P153_A0.6190.43
136_G139_T0.6180.43
20_E24_K0.6180.43
82_D86_Y0.6170.43
59_S62_T0.6170.43
17_T20_E0.6110.42
42_Y59_S0.6090.42
132_V143_L0.6070.42
4_D7_D0.6060.41
18_A21_E0.6040.41
16_V19_L0.6040.41
11_D14_D0.6030.41
7_D24_K0.6030.41
173_D176_Y0.6010.41
145_D151_V0.5960.40
43_I63_T0.5950.40
59_S64_I0.5940.40
86_Y91_G0.5940.40
109_A180_T0.5920.40
58_F68_N0.5910.40
102_A105_N0.5880.40
6_R13_E0.5870.40
88_T91_G0.5860.39
122_L167_K0.5850.39
32_A36_L0.5790.39
87_W120_P0.5790.39
79_I99_L0.5790.39
122_L127_D0.5760.38
177_V182_A0.5650.37
134_Y145_D0.5650.37
55_T90_T0.5640.37
85_G119_T0.5640.37
4_D25_Q0.5550.36
166_F179_F0.5540.36
123_K135_D0.5530.36
6_R141_T0.5520.36
72_G114_G0.5510.36
129_Y132_V0.5500.36
168_S179_F0.5500.36
9_I13_E0.5490.36
84_D88_T0.5490.36
44_T58_F0.5480.36
8_D109_A0.5430.35
40_G89_V0.5410.35
165_F179_F0.5400.35
29_N34_Q0.5340.35
42_Y61_G0.5340.35
3_S10_D0.5310.34
89_V96_T0.5290.34
149_N152_K0.5290.34
122_L142_R0.5280.34
159_G163_D0.5280.34
37_V81_V0.5260.34
68_N72_G0.5250.34
43_I186_T0.5230.34
107_I152_K0.5190.33
144_G149_N0.5190.33
22_L33_L0.5190.33
84_D106_K0.5180.33
84_D97_E0.5160.33
165_F182_A0.5150.33
27_N54_Y0.5150.33
172_D186_T0.5120.33
9_I110_T0.5110.32
24_K63_T0.5080.32
99_L107_I0.5080.32
11_D25_Q0.5070.32
79_I87_W0.5060.32
161_D164_S0.5060.32
21_E25_Q0.5050.32
28_T37_V0.5040.32
4_D9_I0.5030.32
13_E66_I0.5010.32
87_W130_W0.5000.31
43_I173_D0.5000.31
26_L159_G0.5000.31
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  
2pnvA 5 0.1789 74.5 0.912 Contact Map
3zifN 3 0.1684 68 0.916 Contact Map
2yy0A 6 0.1789 65.9 0.917 Contact Map
3w92A 3 0.1632 58.5 0.921 Contact Map
2oqqA 3 0.2053 48.6 0.926 Contact Map
4dznA 3 0.1684 47.7 0.926 Contact Map
4g1aA 3 0.1474 47.6 0.926 Contact Map
3a2aA 2 0.2105 47.1 0.926 Contact Map
1kd8A 1 0.1842 45.3 0.927 Contact Map
2ynyA 3 0.1947 42.9 0.928 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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