GREMLIN Database
YMFJ - Uncharacterized protein YmfJ
UniProt: O31768 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 85 (80)
Sequences: 273 (191)
Seq/√Len: 21.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
70_A74_M4.5891.00
65_K68_Q2.6610.99
67_E77_K2.3550.97
57_A61_S2.2750.96
22_Q80_E2.0660.93
10_W75_M1.8940.90
21_A26_M1.8120.88
35_A76_V1.7780.87
15_G79_V1.7460.86
17_R20_Y1.6980.84
63_A71_I1.6760.83
69_H74_M1.6750.83
4_L53_E1.6320.82
47_E54_K1.6320.82
34_L38_I1.5860.80
48_S54_K1.5720.79
36_T40_S1.4900.75
63_A74_M1.4820.75
62_V77_K1.4140.71
3_V13_F1.3650.68
18_L79_V1.3550.68
3_V75_M1.3530.68
46_V49_K1.2870.64
10_W39_G1.2810.63
15_G18_L1.2390.61
54_K57_A1.2230.60
18_L24_K1.2140.59
52_Q58_D1.2140.59
10_W46_V1.2090.59
58_D61_S1.1980.58
41_Y53_E1.1860.57
59_L74_M1.1670.56
62_V78_L1.1650.56
2_S23_D1.1210.53
4_L17_R1.1170.53
7_W52_Q1.1110.52
36_T65_K1.1100.52
29_D68_Q1.0860.51
64_S67_E1.0840.50
6_N16_D1.0780.50
19_N81_N1.0730.50
36_T68_Q1.0690.49
10_W13_F1.0610.49
42_L56_L1.0600.49
33_D68_Q1.0400.48
12_N61_S0.9990.45
55_V67_E0.9930.44
16_D20_Y0.9820.44
55_V71_I0.9720.43
69_H73_N0.9700.43
21_A31_I0.9670.43
4_L56_L0.9510.42
44_N63_A0.9480.41
9_S48_S0.9440.41
22_Q48_S0.9150.39
27_S30_T0.8990.38
41_Y68_Q0.8910.38
5_E70_A0.8690.36
23_D28_Q0.8680.36
64_S77_K0.8650.36
57_A64_S0.8510.35
7_W17_R0.8410.35
13_F75_M0.8370.34
16_D63_A0.8250.34
63_A66_D0.8190.33
36_T69_H0.8140.33
58_D63_A0.8100.33
2_S5_E0.7950.32
59_L81_N0.7900.32
30_T37_E0.7540.30
5_E51_E0.7500.29
30_T69_H0.7470.29
11_K79_V0.7310.28
18_L55_V0.7260.28
3_V54_K0.7200.28
55_V58_D0.7090.27
19_N59_L0.7080.27
48_S57_A0.7040.27
12_N16_D0.7030.27
34_L37_E0.6990.27
54_K61_S0.6900.26
37_E43_A0.6670.25
30_T38_I0.6610.25
37_E40_S0.6590.25
59_L63_A0.6570.24
49_K56_L0.6570.24
32_T73_N0.6520.24
31_I69_H0.6510.24
53_E67_E0.6350.23
27_S31_I0.6330.23
34_L61_S0.6250.23
7_W58_D0.6200.23
13_F46_V0.6160.23
76_V79_V0.5990.22
6_N53_E0.5900.21
4_L49_K0.5810.21
38_I43_A0.5670.20
24_K66_D0.5650.20
7_W63_A0.5640.20
7_W62_V0.5640.20
5_E81_N0.5580.20
68_Q79_V0.5560.20
9_S57_A0.5560.20
29_D73_N0.5550.20
47_E68_Q0.5520.20
38_I81_N0.5420.19
41_Y45_E0.5420.19
8_D22_Q0.5390.19
44_N80_E0.5360.19
7_W32_T0.5360.19
24_K45_E0.5360.19
10_W31_I0.5340.19
11_K59_L0.5320.19
31_I34_L0.5320.19
14_L77_K0.5270.19
19_N45_E0.5230.18
7_W75_M0.5130.18
8_D44_N0.5100.18
9_S12_N0.5040.18
38_I66_D0.5000.18
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  
3d0wA 2 0.9647 100 0.112 Contact Map
3q23A 1 0.9412 19.4 0.921 Contact Map
3ivpA 2 1 18.6 0.922 Contact Map
3equA 1 0.9059 18 0.922 Contact Map
3viuA 1 0.7059 15.8 0.924 Contact Map
2ragA 2 0.6235 14.2 0.926 Contact Map
1ej5A 1 0.8824 14 0.926 Contact Map
2q01A 3 0.8824 13.1 0.927 Contact Map
1x9nA 1 1 12.6 0.927 Contact Map
1o2dA 1 0.6588 11.9 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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