GREMLIN Database
YFJF - UPF0060 membrane protein YfjF
UniProt: O31553 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 109 (105)
Sequences: 1114 (524)
Seq/√Len: 51.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
95_I102_V6.8971.00
78_W85_P3.6761.00
27_L51_T3.2751.00
70_I96_C3.2021.00
40_A44_I2.8651.00
97_L101_C2.3321.00
58_F81_D2.1591.00
13_G72_L2.0321.00
100_V104_L1.9220.99
88_Y107_P1.8400.99
90_W94_F1.7900.99
87_L90_W1.7260.99
62_Y77_G1.7250.99
31_K70_I1.6710.98
23_V47_G1.6670.98
34_G37_I1.6480.98
71_V93_A1.6390.98
21_Y25_L1.6040.98
61_V81_D1.5650.98
15_A42_I1.5290.97
8_L11_A1.5020.97
8_L15_A1.4380.96
88_Y106_A1.3900.95
10_L71_V1.3870.95
46_Y69_F1.3670.95
26_W36_G1.3660.95
10_L72_L1.3220.94
28_R39_G1.3000.93
47_G58_F1.2450.91
27_L64_A1.2330.91
75_L79_L1.2240.91
74_V93_A1.2200.90
74_V100_V1.2170.90
87_L91_I1.1700.88
15_A49_L1.1670.88
22_L61_V1.1640.88
68_V101_C1.1640.88
57_S83_K1.1590.88
58_F61_V1.1090.86
42_I50_P1.1010.85
42_I45_V1.0930.85
101_C105_F1.0790.84
91_I102_V1.0780.84
58_F69_F1.0630.83
14_L75_L1.0340.81
93_A101_C1.0260.81
14_L18_G1.0160.80
84_T87_L1.0040.79
10_L14_L0.9970.79
50_P69_F0.9940.79
46_Y58_F0.9830.78
78_W84_T0.9740.77
86_D108_R0.9730.77
91_I98_I0.9650.77
9_F25_L0.9640.77
31_K35_Y0.9610.76
11_A14_L0.9510.76
9_F22_L0.9490.75
50_P77_G0.9490.75
36_G40_A0.9440.75
46_Y50_P0.9360.74
85_P107_P0.9290.74
37_I102_V0.9180.73
20_G50_P0.9150.73
26_W32_P0.9120.72
23_V31_K0.9060.72
52_F57_S0.8920.71
96_C99_G0.8820.70
13_G20_G0.8760.69
18_G39_G0.8740.69
64_A68_V0.8580.68
96_C100_V0.8500.67
94_F98_I0.8410.66
53_Q61_V0.8370.66
20_G42_I0.8250.65
35_Y42_I0.8090.63
12_A17_I0.8080.63
46_Y77_G0.8020.63
78_W89_D0.7970.62
29_E39_G0.7930.62
64_A104_L0.7880.61
74_V103_I0.7840.61
22_L81_D0.7810.60
20_G69_F0.7800.60
23_V53_Q0.7780.60
73_A100_V0.7650.59
58_F72_L0.7500.57
9_F49_L0.7500.57
41_L45_V0.7440.57
69_F77_G0.7410.56
20_G62_Y0.7360.56
85_P108_R0.7360.56
47_G69_F0.7360.56
74_V82_R0.7350.56
86_D106_A0.7270.55
86_D107_P0.7260.55
20_G46_Y0.7230.55
13_G40_A0.7000.52
25_L73_A0.6860.51
27_L45_V0.6840.51
17_I73_A0.6830.50
25_L31_K0.6820.50
90_W103_I0.6790.50
23_V40_A0.6750.50
27_L48_I0.6720.49
67_G93_A0.6710.49
24_W28_R0.6580.48
5_T15_A0.6580.48
33_A37_I0.6570.48
59_G104_L0.6560.48
24_W61_V0.6520.47
85_P105_F0.6410.46
22_L108_R0.6320.45
22_L25_L0.6310.45
4_I41_L0.6310.45
40_A73_A0.6300.45
29_E71_V0.6210.44
31_K47_G0.6160.44
34_G38_A0.6120.43
95_I98_I0.6040.42
79_L103_I0.6040.42
4_I15_A0.6020.42
35_Y50_P0.5960.42
12_A53_Q0.5900.41
12_A72_L0.5890.41
98_I101_C0.5840.40
23_V44_I0.5830.40
12_A24_W0.5790.40
39_G86_D0.5780.40
51_T61_V0.5780.40
94_F102_V0.5740.39
68_V97_L0.5730.39
40_A54_S0.5690.39
6_I91_I0.5680.39
49_L71_V0.5590.38
90_W93_A0.5580.38
11_A49_L0.5570.38
4_I7_L0.5560.38
11_A73_A0.5560.38
7_L49_L0.5520.37
56_P83_K0.5500.37
70_I100_V0.5440.36
84_T98_I0.5410.36
8_L54_S0.5400.36
92_G99_G0.5360.36
55_F104_L0.5350.36
7_L90_W0.5280.35
25_L102_V0.5270.35
53_Q69_F0.5250.35
18_G73_A0.5210.34
27_L36_G0.5170.34
8_L53_Q0.5160.34
8_L52_F0.5150.34
45_V101_C0.5070.33
85_P96_C0.5060.33
25_L29_E0.5050.33
7_L68_V0.5050.33
24_W39_G0.5000.32
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  
2i68A 2 0.6972 95.9 0.86 Contact Map
3b5dA 2 0.9174 94.5 0.871 Contact Map
4q65A 1 0.7431 25.7 0.932 Contact Map
4tphA 2 0.7523 25.5 0.932 Contact Map
3o7qA 1 1 14.7 0.939 Contact Map
4pypA 1 0.7156 13.2 0.941 Contact Map
4uvmA 1 0.7982 13 0.941 Contact Map
4m64A 1 0.9725 12.6 0.941 Contact Map
2cfqA 1 0.7798 12.4 0.941 Contact Map
3wajA 1 0.9358 10.8 0.943 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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