GREMLIN Database
YNFA - UPF0060 membrane protein YnfA
UniProt: P76169 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13839
Length: 108 (102)
Sequences: 1100 (498)
Seq/√Len: 49.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
93_I100_I6.7711.00
76_R83_L3.6761.00
26_L50_T3.1411.00
68_V94_A3.0991.00
39_G43_A2.7991.00
95_L99_L2.3471.00
56_S79_D2.0921.00
12_A70_T1.9770.99
88_W92_L1.8050.99
86_Y104_G1.7990.99
98_M102_V1.7850.99
33_W36_L1.6860.98
85_L88_W1.6300.98
14_C41_S1.6150.98
59_V79_D1.5750.97
60_Y75_L1.5670.97
20_F24_L1.5650.97
30_A68_V1.5490.97
22_P46_V1.5480.97
69_C91_A1.4990.96
72_L98_M1.4370.95
25_W35_L1.4340.95
7_L14_C1.4230.95
7_L10_A1.3430.93
27_K38_A1.3270.93
45_F67_Y1.2860.92
55_A81_V1.2710.91
9_F70_T1.2640.91
9_F69_C1.2350.90
41_S44_L1.2280.90
73_M77_V1.2010.89
89_T100_I1.1610.87
41_S49_L1.1540.87
21_L59_V1.1450.86
72_L91_A1.1360.86
46_V56_S1.1350.86
10_A13_L1.1210.85
14_C48_L1.1160.85
26_L62_A1.1020.84
56_S59_V1.0950.84
85_L89_T1.0910.84
35_L39_G1.0760.83
82_K85_L1.0720.82
66_V99_L1.0380.80
76_R82_K1.0370.80
89_T96_C1.0170.79
99_L103_A1.0140.79
91_A99_L0.9840.77
71_A98_M0.9800.76
56_S67_Y0.9800.76
13_L17_I0.9690.76
30_A34_L0.9630.75
8_F24_L0.9480.74
51_L55_A0.9470.74
62_A66_V0.9410.73
83_L103_A0.9400.73
49_L67_Y0.9390.73
25_W31_S0.9330.73
13_L73_M0.9180.72
49_L75_L0.9060.71
45_F56_S0.9040.70
19_C49_L0.8970.70
45_F49_L0.8880.69
94_A97_G0.8800.68
84_T104_G0.8690.67
17_I38_A0.8650.67
36_L100_I0.8640.67
94_A98_M0.8470.65
52_H59_V0.8330.64
21_L79_D0.8290.64
19_C41_S0.8240.63
62_A102_V0.8150.62
94_A103_A0.8070.62
92_L96_C0.8070.62
9_F13_L0.8060.61
8_F21_L0.8050.61
12_A19_C0.8030.61
31_S34_L0.7840.59
39_G71_A0.7830.59
22_P52_H0.7810.59
40_I44_L0.7770.59
56_S70_T0.7760.59
72_L101_I0.7700.58
6_L48_L0.7680.58
34_L41_S0.7560.57
22_P39_G0.7550.56
19_C67_Y0.7540.56
45_F75_L0.7520.56
12_A39_G0.7510.56
77_V101_I0.7460.56
11_T16_I0.7450.55
76_R87_D0.7410.55
9_F73_M0.7400.55
26_L44_L0.7380.55
19_C60_Y0.7360.55
24_L30_A0.7330.54
22_P30_A0.7080.52
46_V67_Y0.7030.51
19_C45_F0.7030.51
67_Y75_L0.6910.50
88_W101_I0.6850.49
57_G102_V0.6850.49
26_L35_L0.6830.49
39_G53_P0.6780.49
54_A102_V0.6760.48
16_I71_A0.6700.48
24_L71_A0.6650.47
33_W37_P0.6640.47
90_G97_G0.6620.47
26_L47_W0.6590.47
72_L80_G0.6590.47
23_W27_K0.6520.46
32_I36_L0.6490.46
38_A84_T0.6490.46
68_V98_M0.6470.45
47_W51_L0.6410.45
43_A49_L0.6370.44
28_R38_A0.6300.44
65_G91_A0.6270.43
16_I93_I0.6230.43
34_L49_L0.6200.43
4_T14_C0.6160.42
17_I71_A0.6080.42
11_T52_H0.6070.41
11_T70_T0.6070.41
21_L24_L0.6030.41
22_P43_A0.5940.40
24_L28_R0.5930.40
8_F89_T0.5910.40
30_A46_V0.5890.40
8_F48_L0.5880.40
5_T89_T0.5870.40
3_K14_C0.5780.39
21_L34_L0.5690.38
23_W59_V0.5660.37
23_W38_A0.5660.37
25_W56_S0.5530.36
27_K34_L0.5530.36
5_T95_L0.5520.36
10_A93_I0.5420.35
14_C44_L0.5410.35
92_L100_I0.5400.35
7_L53_P0.5360.35
3_K40_I0.5340.34
7_L72_L0.5300.34
21_L52_H0.5280.34
65_G104_G0.5270.34
83_L91_A0.5260.34
73_M92_L0.5180.33
3_K6_L0.5160.33
93_I96_C0.5150.33
66_V95_L0.5030.32
10_A71_A0.5000.31
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 0.7037 96 0.858 Contact Map
3b5dA 2 0.9259 95.1 0.866 Contact Map
4tphA 2 0.7593 25.5 0.932 Contact Map
4q65A 1 0.75 19.8 0.936 Contact Map
3wajA 1 0.9815 15.9 0.938 Contact Map
3o7qA 1 1 13.4 0.94 Contact Map
3wxwA 1 0.963 12.2 0.941 Contact Map
4oh3A 2 0.8519 12.1 0.942 Contact Map
3wdoA 1 0.8519 11.9 0.942 Contact Map
4ldsA 2 0.7037 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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