GREMLIN Database
YmaF - YmaF family
PFAM: PF12788 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 96 (92)
Sequences: 824 (569)
Seq/√Len: 59.3
META: 0.686

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
43_I59_G3.9601.00
45_G57_I3.4741.00
29_T61_T3.2161.00
40_V60_T3.1901.00
9_G25_F2.8171.00
7_F45_G2.6721.00
7_F27_G2.6441.00
38_S64_A2.4501.00
78_G90_F2.2471.00
59_G90_F2.2081.00
42_E58_R2.0981.00
19_D84_D2.0651.00
35_T38_S2.0641.00
13_L20_G2.0561.00
67_V70_G1.9721.00
35_T63_P1.8281.00
67_V73_V1.7710.99
67_V75_F1.7700.99
79_V87_R1.6890.99
2_T32_A1.5700.99
44_E56_E1.5430.98
44_E58_R1.4970.98
61_T94_T1.4160.97
17_G20_G1.3650.96
43_I76_V1.3610.96
46_N54_F1.3020.95
82_V87_R1.2820.95
6_E48_D1.2610.94
34_P38_S1.1710.92
38_S63_P1.1560.91
14_A19_D1.1410.91
36_G64_A1.1290.90
6_E10_S1.1250.90
43_I90_F1.1240.90
34_P37_G1.1120.90
30_G42_E1.0910.89
69_N91_R1.0550.87
42_E54_F1.0120.85
76_V92_F1.0100.85
59_G78_G1.0080.85
7_F57_I0.9950.84
17_G51_D0.9930.84
10_S24_R0.9820.83
54_F83_N0.9770.83
23_H53_H0.9620.82
35_T40_V0.9400.80
62_G65_I0.9330.80
51_D84_D0.9320.80
22_N48_D0.9190.79
6_E26_A0.9100.78
29_T94_T0.9010.77
19_D51_D0.8990.77
27_G43_I0.8970.77
35_T58_R0.8800.76
10_S22_N0.8630.74
73_V93_A0.8520.73
6_E24_R0.8460.73
71_K91_R0.8420.72
85_G90_F0.8250.71
30_G33_I0.8160.70
40_V44_E0.8110.69
20_G71_K0.8110.69
7_F11_T0.8060.69
8_L48_D0.7810.66
24_R73_V0.7810.66
12_S91_R0.7750.66
1_Q49_F0.7720.66
5_H39_H0.7660.65
42_E59_G0.7560.64
20_G51_D0.7400.62
56_E65_I0.7350.62
68_G71_K0.7310.61
42_E60_T0.7270.61
27_G61_T0.7190.60
52_G84_D0.7180.60
27_G57_I0.7120.59
2_T83_N0.7110.59
66_P70_G0.7010.58
54_F58_R0.7000.58
24_R48_D0.6950.57
31_P49_F0.6930.57
67_V93_A0.6840.56
2_T34_P0.6790.56
46_N49_F0.6790.56
30_G58_R0.6650.54
7_F43_I0.6630.54
27_G45_G0.6590.54
87_R90_F0.6560.53
59_G76_V0.6440.52
79_V89_E0.6380.51
6_E28_V0.6340.51
41_H55_H0.6300.50
48_D54_F0.6290.50
27_G59_G0.6220.49
25_F57_I0.6170.49
49_F52_G0.6120.48
90_F94_T0.6050.47
50_F84_D0.5980.47
39_H80_T0.5970.47
75_F93_A0.5910.46
45_G59_G0.5880.46
10_S48_D0.5860.45
35_T64_A0.5860.45
61_T78_G0.5780.45
19_D69_N0.5660.43
20_G49_F0.5640.43
35_T79_V0.5630.43
32_A76_V0.5600.43
28_V75_F0.5500.41
6_E22_N0.5480.41
34_P64_A0.5480.41
51_D69_N0.5450.41
11_T52_G0.5360.40
20_G50_F0.5340.40
12_S89_E0.5320.40
81_T92_F0.5280.39
39_H74_H0.5250.39
30_G44_E0.5250.39
65_I70_G0.5240.39
14_A89_E0.5210.38
40_V54_F0.5200.38
28_V49_F0.5180.38
49_F75_F0.5180.38
11_T20_G0.5170.38
21_H55_H0.5170.38
22_N54_F0.5130.37
5_H11_T0.5120.37
7_F92_F0.5120.37
13_L22_N0.5090.37
44_E66_P0.5070.37
6_E75_F0.5070.37
24_R50_F0.5060.37
35_T60_T0.5040.37
46_N56_E0.5020.36
41_H53_H0.5010.36
31_P46_N0.5000.36
4_V46_N0.5000.36
7_F78_G0.5000.36
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  
2xgfA 3 0.9583 78.4 0.853 Contact Map
3i2tA 2 0.3646 0.4 0.963 Contact Map
2eocA 1 0.3958 0.4 0.963 Contact Map
2pebA 2 0.3229 0.3 0.965 Contact Map
3r2gA 3 0.1771 0.3 0.967 Contact Map
2mhrA 1 0.3646 0.3 0.968 Contact Map
1ef5A 1 0.2188 0.3 0.968 Contact Map
3l5aA 1 0.1562 0.3 0.968 Contact Map
2hmqA 5 0.3646 0.3 0.969 Contact Map
1ymmC 1 0.1458 0.2 0.969 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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