GREMLIN Database
DUF3016 - Protein of unknown function (DUF3016)
PFAM: PF11454 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 139 (137)
Sequences: 2001 (1556)
Seq/√Len: 133.0
META: 0.859

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
79_V113_Y4.7811.00
90_R105_E3.4731.00
91_Y106_E2.8451.00
37_H134_D2.7221.00
3_V42_A2.4541.00
35_A39_Q2.4511.00
53_E94_T2.3811.00
55_T90_R2.3191.00
88_D107_K2.2001.00
38_L133_L2.1691.00
124_D127_R2.1651.00
88_D105_E2.1541.00
52_L93_L2.0821.00
92_T103_E2.0721.00
124_D130_K1.9941.00
9_D12_K1.9561.00
6_T55_T1.8961.00
56_V87_I1.8901.00
87_I132_M1.8351.00
116_R135_D1.7991.00
4_E53_E1.7651.00
7_F35_A1.7531.00
66_E80_R1.7521.00
41_L137_F1.7501.00
95_D99_K1.7491.00
8_V55_T1.7261.00
37_H130_K1.6931.00
53_E92_T1.6641.00
110_D116_R1.6461.00
28_E32_K1.6321.00
57_T90_R1.5511.00
38_L56_V1.5251.00
57_T88_D1.5031.00
84_P111_M1.4721.00
81_D114_L1.4591.00
88_D109_R1.4131.00
87_I129_E1.3721.00
4_E51_T1.3691.00
64_D83_Y1.3601.00
73_A76_V1.3381.00
84_P109_R1.3251.00
50_Q93_L1.3081.00
7_F13_F1.3081.00
45_Y137_F1.2761.00
10_P13_F1.2571.00
47_P50_Q1.2311.00
79_V114_L1.2231.00
30_V61_L1.2011.00
85_P113_Y1.2000.99
24_E27_R1.2000.99
14_T58_D1.1930.99
87_I133_L1.1870.99
8_V13_F1.1710.99
60_D64_D1.1530.99
49_G96_A1.1290.99
56_V59_I1.1260.99
50_Q101_L1.0910.99
16_V61_L1.0660.99
95_D98_G1.0620.99
32_K35_A1.0590.99
51_T94_T1.0570.99
86_R107_K1.0450.99
42_A52_L1.0400.99
112_N115_M1.0220.98
39_Q43_A1.0110.98
37_H40_K1.0030.98
34_L126_L1.0020.98
57_T89_L1.0020.98
54_I89_L0.9970.98
60_D86_R0.9880.98
121_S127_R0.9860.98
120_Y127_R0.9860.98
45_Y138_R0.9850.98
33_E36_R0.9400.97
32_K36_R0.9350.97
80_R83_Y0.9340.97
87_I108_L0.9290.97
21_N29_R0.9280.97
36_R39_Q0.8980.96
64_D80_R0.8970.96
100_V103_E0.8920.96
86_R109_R0.8840.96
97_D100_V0.8790.96
79_V84_P0.8670.96
23_R26_D0.8650.95
118_N127_R0.8640.95
37_H41_L0.8610.95
13_F31_L0.8560.95
15_D60_D0.8560.95
8_V57_T0.8550.95
135_D138_R0.8510.95
114_L128_Y0.8500.95
81_D115_M0.8370.95
126_L130_K0.8310.94
66_E69_R0.8300.94
40_K43_A0.8280.94
50_Q96_A0.8250.94
58_D88_D0.8200.94
16_V31_L0.8150.94
31_L35_A0.8070.93
5_V54_I0.8010.93
28_E35_A0.8000.93
56_V89_L0.7970.93
61_L129_E0.7960.93
7_F15_D0.7960.93
89_L106_E0.7940.93
85_P110_D0.7900.93
7_F59_I0.7880.93
110_D131_R0.7760.92
117_I128_Y0.7730.92
6_T53_E0.7730.92
108_L132_M0.7580.91
26_D61_L0.7560.91
114_L117_I0.7550.91
56_V133_L0.7540.91
18_D23_R0.7530.91
69_R73_A0.7350.90
94_T100_V0.7340.90
42_A137_F0.7340.90
38_L54_I0.7290.89
62_A128_Y0.7280.89
46_L49_G0.7260.89
131_R135_D0.7200.89
30_V33_E0.7180.89
89_L108_L0.7170.89
133_L137_F0.7130.88
69_R78_I0.7080.88
23_R27_R0.7040.88
26_D30_V0.7000.88
59_I87_I0.6990.87
69_R74_D0.6990.87
43_A48_P0.6830.86
85_P128_Y0.6780.86
21_N61_L0.6710.85
68_W78_I0.6700.85
41_L44_R0.6690.85
57_T105_E0.6670.85
68_W71_P0.6640.85
15_D30_V0.6620.84
22_R25_R0.6580.84
106_E133_L0.6540.84
131_R134_D0.6540.84
38_L137_F0.6530.84
9_D13_F0.6470.83
84_P132_M0.6450.83
18_D26_D0.6310.82
16_V21_N0.6280.81
37_H54_I0.6260.81
93_L101_L0.6240.81
110_D113_Y0.6230.81
89_L93_L0.6230.81
27_R31_L0.6210.81
92_T100_V0.6200.80
127_R130_K0.6190.80
41_L45_Y0.6070.79
111_M118_N0.6020.78
108_L114_L0.6010.78
17_R30_V0.5960.78
41_L134_D0.5890.77
16_V30_V0.5870.77
31_L56_V0.5860.77
7_F30_V0.5850.76
118_N121_S0.5840.76
70_G73_A0.5820.76
34_L59_I0.5790.76
21_N26_D0.5720.75
38_L46_L0.5690.74
68_W75_D0.5680.74
5_V89_L0.5660.74
18_D21_N0.5620.74
76_V79_V0.5610.73
31_L59_I0.5580.73
60_D63_G0.5570.73
84_P127_R0.5560.73
129_E132_M0.5550.73
43_A47_P0.5530.72
108_L120_Y0.5530.72
14_T86_R0.5520.72
91_Y104_G0.5460.71
21_N25_R0.5440.71
30_V60_D0.5380.70
87_I106_E0.5370.70
67_P73_A0.5350.70
65_F81_D0.5320.69
37_H124_D0.5310.69
120_Y124_D0.5300.69
33_E126_L0.5300.69
90_R103_E0.5290.69
111_M114_L0.5290.69
133_L136_W0.5240.68
10_P31_L0.5240.68
42_A46_L0.5240.68
14_T60_D0.5220.68
104_G108_L0.5210.68
33_E125_P0.5210.68
49_G67_P0.5210.68
46_L54_I0.5200.68
50_Q102_K0.5170.67
16_V55_T0.5160.67
2_T12_K0.5160.67
45_Y60_D0.5140.67
6_T15_D0.5090.66
7_F31_L0.5080.66
55_T67_P0.5050.66
95_D101_L0.5030.65
13_F57_T0.5000.65
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  
4kwyA 1 0.7914 16.9 0.935 Contact Map
4r86A 1 0.4532 15.5 0.936 Contact Map
3ck1A 4 0.8705 11.6 0.939 Contact Map
1iuqA 1 0.4604 11.4 0.94 Contact Map
3qy3A 4 0.8561 10.6 0.941 Contact Map
4qd8A 3 0.7482 9.3 0.942 Contact Map
2k49A 1 0.4604 9.2 0.942 Contact Map
2essA 2 0.8345 9.2 0.942 Contact Map
1j3mA 2 0.3094 9.1 0.942 Contact Map
1sc0A 1 0.7554 7.8 0.944 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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