GREMLIN Database
YGAM - Uncharacterized protein YgaM
UniProt: P0ADQ7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13285
Length: 109 (98)
Sequences: 459 (273)
Seq/√Len: 27.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
81_F87_W3.7231.00
79_D83_R3.0371.00
98_I104_L2.5970.99
85_R88_C2.4300.99
43_A71_A2.2170.98
87_W90_V2.2000.98
31_V78_A2.1390.97
17_I61_M2.0970.97
99_F104_L2.0490.97
42_E45_A2.0250.96
89_S98_I2.0110.96
58_R70_A2.0060.96
72_R79_D1.9060.95
25_A57_T1.8110.93
13_G17_I1.7440.92
56_E60_R1.7130.91
61_M107_R1.7070.91
79_D82_V1.7010.91
35_W43_A1.6440.89
76_G83_R1.6330.89
48_S52_A1.5860.88
27_S30_S1.5000.85
20_D23_Q1.4680.83
32_L74_A1.4520.83
43_A54_L1.4440.82
58_R62_H1.3260.76
96_V104_L1.3010.75
86_P106_M1.2910.74
24_L44_E1.2650.73
42_E71_A1.2610.73
68_Q75_V1.2260.70
79_D93_A1.2170.70
35_W75_V1.1600.66
52_A55_K1.1600.66
31_V60_R1.1460.65
28_L64_R1.1290.64
41_G69_Q1.1250.64
68_Q72_R1.1120.63
85_R98_I1.1080.62
103_L107_R1.1030.62
42_E98_I1.0930.61
39_A43_A1.0810.61
47_R105_S1.0590.59
78_A85_R1.0530.58
42_E49_K1.0460.58
48_S55_K1.0450.58
33_K49_K1.0420.58
43_A51_Q1.0290.57
14_V39_A1.0270.57
62_H65_T1.0230.56
47_R95_A1.0160.56
78_A93_A1.0110.55
50_A53_L0.9950.54
26_D77_C0.9950.54
76_G85_R0.9890.54
25_A40_K0.9880.54
92_T96_V0.9700.52
50_A64_R0.9690.52
39_A81_F0.9450.50
51_Q93_A0.9370.50
79_D84_E0.9240.49
15_Q45_A0.9210.48
30_S49_K0.9150.48
20_D36_G0.9130.48
92_T99_F0.9060.47
62_H76_G0.8890.46
44_E47_R0.8810.45
86_P94_A0.8780.45
44_E90_V0.8690.45
93_A97_G0.8580.44
77_C88_C0.8570.44
62_H104_L0.8480.43
19_N91_G0.8270.41
47_R58_R0.8250.41
46_A80_S0.8250.41
29_E58_R0.8150.41
85_R105_S0.8120.40
76_G79_D0.8030.40
38_D89_S0.8010.40
14_V23_Q0.7840.38
60_R90_V0.7790.38
95_A102_A0.7750.38
22_N96_V0.7670.37
13_G104_L0.7660.37
17_I91_G0.7650.37
22_N75_V0.7620.37
93_A105_S0.7560.36
37_S100_I0.7270.34
26_D83_R0.7270.34
50_A54_L0.7230.34
27_S82_V0.7100.33
69_Q75_V0.7050.33
20_D45_A0.7040.33
45_A49_K0.7020.33
33_K85_R0.6990.32
39_A45_A0.6990.32
71_A104_L0.6990.32
21_V90_V0.6980.32
36_G48_S0.6970.32
90_V95_A0.6930.32
36_G77_C0.6850.31
95_A100_I0.6730.31
22_N68_Q0.6710.31
23_Q41_G0.6670.30
38_D83_R0.6580.30
79_D90_V0.6540.29
13_G100_I0.6500.29
56_E73_D0.6470.29
28_L86_P0.6330.28
21_V57_T0.6320.28
45_A100_I0.6310.28
33_K91_G0.6290.28
46_A88_C0.6220.27
16_D30_S0.6160.27
77_C81_F0.6140.27
20_D24_L0.6090.27
23_Q49_K0.6090.27
32_L90_V0.6020.26
21_V27_S0.5970.26
46_A50_A0.5950.26
77_C89_S0.5930.26
21_V71_A0.5900.26
84_E92_T0.5810.25
35_W107_R0.5720.25
29_E65_T0.5700.24
32_L87_W0.5660.24
60_R106_M0.5650.24
27_S89_S0.5650.24
35_W38_D0.5570.24
96_V100_I0.5560.24
28_L32_L0.5550.24
14_V31_V0.5490.23
92_T95_A0.5310.22
28_L53_L0.5290.22
57_T66_R0.5260.22
49_K96_V0.5220.22
59_A80_S0.5200.22
10_V49_K0.5160.22
27_S35_W0.5120.21
21_V31_V0.5120.21
35_W39_A0.5100.21
25_A50_A0.5080.21
41_G89_S0.5050.21
41_G68_Q0.5030.21
55_K65_T0.5030.21
50_A107_R0.5010.21
34_S49_K0.5000.21
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  
2f9yA 2 0.7982 24.6 0.914 Contact Map
1v9dA 3 0.945 23.3 0.915 Contact Map
3obvE 2 0.9266 23.1 0.915 Contact Map
4dndA 1 0.6881 21 0.917 Contact Map
4j2cA 1 0.7615 19.2 0.919 Contact Map
2lomA 1 0.4495 17.3 0.92 Contact Map
4aurA 1 0.7523 17.2 0.92 Contact Map
4kblA 2 0.6147 16.6 0.921 Contact Map
3ph0A 1 0.4771 14.7 0.923 Contact Map
2qywA 1 0.633 14.4 0.923 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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