GREMLIN Database
Y3061 - UPF0033 protein VNG_5061C/VNG_5236C/VNG_6059C/VNG_6467C
UniProt: O54608 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 81 (73)
Sequences: 1054 (651)
Seq/√Len: 76.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
62_E78_R3.6311.00
33_A36_E3.1791.00
14_K72_V3.1761.00
8_T36_E3.1661.00
39_E74_K2.7301.00
10_T39_E2.3681.00
14_K41_L2.1521.00
9_E31_D2.0801.00
9_E32_L1.8571.00
55_A77_V1.8071.00
37_I76_Y1.7891.00
37_I64_V1.6681.00
68_E71_D1.6291.00
41_L72_V1.5650.99
32_L36_E1.5010.99
58_T61_V1.4550.99
14_K43_T1.4510.99
29_I54_W1.4380.99
52_D56_S1.3900.99
25_T51_I1.3360.98
23_V54_W1.3320.98
16_A24_K1.3020.98
47_S75_H1.2630.97
7_I39_E1.2270.97
63_L75_H1.2270.97
47_S73_Y1.1940.96
10_T41_L1.1790.96
9_E36_E1.1280.95
48_M68_E1.0970.94
20_M23_V1.0920.94
48_M66_Q1.0870.94
42_A47_S1.0870.94
26_K30_D1.0580.93
66_Q75_H1.0260.92
20_M24_K1.0210.92
8_T32_L1.0000.91
48_M73_Y0.9870.90
22_V57_G0.9710.89
40_V51_I0.9600.89
25_T40_V0.9480.88
25_T38_L0.9370.88
45_S73_Y0.9350.88
34_E79_K0.9340.88
67_E74_K0.9120.86
41_L74_K0.9030.86
26_K46_G0.8980.85
42_A73_Y0.8970.85
65_D76_Y0.8970.85
48_M52_D0.8780.84
11_L38_L0.8630.83
23_V29_I0.8550.82
16_A20_M0.8490.82
27_S31_D0.8400.81
17_S26_K0.8310.81
28_A32_L0.8280.80
11_L28_A0.7930.77
22_V26_K0.7810.76
37_I78_R0.7700.75
55_A59_A0.7620.75
27_S59_A0.7530.74
6_D71_D0.7480.73
52_D66_Q0.7290.71
41_L76_Y0.7230.71
52_D75_H0.6960.68
28_A31_D0.6930.67
29_I57_G0.6910.67
32_L79_K0.6890.67
9_E28_A0.6860.67
7_I37_I0.6850.67
29_I32_L0.6820.66
9_E38_L0.6620.64
28_A40_V0.6470.62
26_K47_S0.6470.62
39_E76_Y0.6420.62
63_L73_Y0.6270.60
13_V71_D0.6120.58
32_L38_L0.6110.58
11_L25_T0.6040.57
69_G72_V0.6000.56
69_G74_K0.5990.56
55_A63_L0.5950.56
7_I76_Y0.5900.55
67_E76_Y0.5900.55
46_G53_G0.5720.53
46_G54_W0.5660.52
22_V25_T0.5650.52
10_T74_K0.5580.51
26_K58_T0.5550.51
22_V58_T0.5540.51
23_V47_S0.5400.49
66_Q76_Y0.5360.48
15_G69_G0.5360.48
6_D9_E0.5330.48
11_L40_V0.5320.48
13_V53_G0.5290.47
13_V42_A0.5280.47
55_A58_T0.5230.47
72_V78_R0.5220.47
65_D75_H0.5200.46
23_V57_G0.5180.46
16_A34_E0.5170.46
47_S55_A0.5130.45
30_D57_G0.5130.45
25_T79_K0.5110.45
33_A69_G0.5090.45
24_K27_S0.5080.45
45_S57_G0.5080.45
49_S58_T0.5070.45
64_V70_D0.5060.45
6_D56_S0.5000.44
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  
1je3A 1 0.9506 99.9 0.332 Contact Map
1jdqA 1 0.9753 99.9 0.341 Contact Map
1pavA 1 0.963 99.9 0.346 Contact Map
3lvjC 1 0.9259 99.9 0.379 Contact Map
3hz7A 1 0.9012 99.9 0.388 Contact Map
2lxrA 1 0.8642 99.8 0.443 Contact Map
1okgA 1 0.7284 98.6 0.698 Contact Map
2l3mA 1 0.7531 24.6 0.911 Contact Map
1rcqA 2 0.9136 20.9 0.914 Contact Map
1oz2A 1 0.8889 19.6 0.915 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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