GREMLIN Database
TrbI_Ftype - Type-F conjugative transfer system protein (TrbI_Ftype)
PFAM: PF09677 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 106 (101)
Sequences: 706 (547)
Seq/√Len: 54.4
META: 0.761

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
30_V81_V5.2921.00
40_E99_R3.1581.00
32_V37_I2.7081.00
33_D36_G2.6691.00
33_D84_A2.4731.00
30_V94_I2.4601.00
51_S54_Q2.2591.00
73_Y94_I2.1721.00
65_A69_A2.1111.00
69_A101_A2.1051.00
55_V59_T2.1001.00
81_V94_I1.9621.00
82_L87_V1.9011.00
101_A104_R1.7510.99
7_L18_T1.7360.99
37_I99_R1.7330.99
15_A18_T1.7110.99
73_Y77_H1.6040.98
35_K39_G1.5370.98
56_K60_R1.5020.97
83_V88_V1.4910.97
74_A79_V1.4860.97
39_G88_V1.4840.97
69_A98_V1.4710.97
11_L15_A1.4250.96
41_F62_F1.4230.96
61_R65_A1.3930.96
5_L10_A1.3420.95
4_V7_L1.3230.95
96_P99_R1.3020.94
34_L83_V1.2920.94
41_F65_A1.2750.93
74_A89_A1.2220.92
17_V21_L1.2010.91
4_V10_A1.1980.91
22_L25_P1.1940.91
83_V86_A1.1910.91
70_L81_V1.1650.90
66_L80_V1.1540.89
32_V73_Y1.1490.89
58_L61_R1.1090.87
5_L9_A1.0990.87
17_V52_P1.0780.86
65_A98_V1.0730.86
45_L55_V1.0710.85
38_V42_V1.0700.85
9_A13_W1.0680.85
70_L80_V1.0500.84
100_A104_R1.0370.84
34_L86_A1.0360.84
60_R64_A1.0210.83
29_I80_V1.0140.82
38_V88_V1.0070.82
38_V67_E1.0060.82
34_L47_R0.9910.81
33_D73_Y0.9910.81
7_L10_A0.9910.81
57_A78_G0.9440.77
37_I40_E0.9390.77
31_T90_G0.9380.77
88_V91_A0.9290.76
92_P97_E0.9170.75
31_T84_A0.9160.75
29_I36_G0.9160.75
17_V20_L0.8990.74
40_E44_A0.8880.73
13_W18_T0.8870.73
23_R60_R0.8740.72
67_E71_Q0.8620.71
16_W19_R0.8290.68
53_E56_K0.8280.68
6_A9_A0.8160.66
9_A14_G0.7980.65
30_V73_Y0.7970.65
62_F66_L0.7870.64
29_I38_V0.7870.64
59_T63_M0.7860.64
54_Q58_L0.7850.63
12_L18_T0.7790.63
13_W16_W0.7750.62
31_T91_A0.7730.62
16_W94_I0.7680.62
11_L22_L0.7670.62
26_Q30_V0.7530.60
39_G58_L0.7460.59
41_F94_I0.7440.59
22_L68_A0.7380.59
18_T23_R0.7380.59
33_D85_E0.7360.58
8_L11_L0.7320.58
16_W22_L0.6950.54
85_E88_V0.6930.54
29_I41_F0.6920.54
47_R70_L0.6920.54
35_K38_V0.6890.53
35_K41_F0.6820.53
56_K79_V0.6810.53
30_V61_R0.6810.53
49_G88_V0.6720.52
28_R54_Q0.6650.51
32_V94_I0.6620.51
32_V88_V0.6550.50
66_L70_L0.6470.49
43_Q47_R0.6410.48
68_A72_E0.6380.48
41_F45_L0.6330.47
28_R92_P0.6280.47
32_V63_M0.6220.46
74_A90_G0.6190.46
38_V55_V0.6080.45
60_R70_L0.6040.44
59_T67_E0.5990.44
51_S73_Y0.5980.44
38_V96_P0.5950.43
26_Q78_G0.5890.43
42_V52_P0.5790.42
51_S55_V0.5780.42
79_V83_V0.5760.41
4_V11_L0.5740.41
7_L66_L0.5730.41
49_G52_P0.5690.41
47_R51_S0.5670.41
59_T89_A0.5640.40
31_T89_A0.5620.40
71_Q75_A0.5570.40
39_G55_V0.5540.39
33_D50_L0.5530.39
83_V91_A0.5530.39
65_A102_V0.5500.39
88_V92_P0.5370.37
73_Y79_V0.5360.37
63_M66_L0.5360.37
72_E101_A0.5350.37
52_P56_K0.5340.37
68_A76_R0.5340.37
8_L100_A0.5330.37
69_A102_V0.5280.37
85_E95_T0.5280.37
71_Q78_G0.5200.36
4_V9_A0.5180.36
45_L85_E0.5130.35
53_E92_P0.5120.35
12_L64_A0.5110.35
16_W20_L0.5060.34
37_I98_V0.5050.34
28_R59_T0.5040.34
57_A71_Q0.5040.34
66_L82_L0.5030.34
42_V84_A0.5030.34
64_A101_A0.5020.34
41_F63_M0.5010.34
37_I54_Q0.5000.34
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  
1u2mA 3 0.7547 94 0.765 Contact Map
4kqtA 1 0.8585 87.1 0.801 Contact Map
1scfA 4 0 27.5 0.872 Contact Map
3b09A 2 0.5094 11.9 0.891 Contact Map
2hsgA 1 0.3774 11.8 0.892 Contact Map
1qpzA 2 0.3679 10.5 0.894 Contact Map
4gycB 2 0.2075 8.8 0.898 Contact Map
3gcgB 1 0.6038 8.7 0.898 Contact Map
4ldfA 2 0.4717 8.1 0.899 Contact Map
2o20A 2 0 7.8 0.9 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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