GREMLIN Database
PF10646 - (80-191) Spore germination protein GerM
UniProt: P39072 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 110 (104)
Sequences: 2488 (2086)
Seq/√Len: 204.5
META: 0.838

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
27_A91_T4.0141.00
48_V87_S3.8281.00
68_D104_R3.4371.00
71_N106_N3.2991.00
64_T100_K3.0431.00
102_K109_E2.7061.00
30_Y33_Q2.4821.00
56_N68_D2.3961.00
66_I104_R2.1701.00
63_G99_D2.1691.00
15_L30_Y1.9861.00
88_V103_L1.9841.00
68_D107_G1.9311.00
27_A95_F1.8861.00
69_F73_F1.8621.00
86_Q90_W1.8411.00
25_K29_E1.7591.00
59_I65_A1.7461.00
89_T93_T1.6851.00
82_Q86_Q1.5671.00
74_K105_I1.5591.00
104_R109_E1.5441.00
31_L91_T1.5361.00
42_P45_F1.4941.00
5_D9_Y1.4831.00
28_L32_V1.4261.00
55_V67_A1.3391.00
28_L88_V1.2901.00
91_T95_F1.2881.00
69_F88_V1.2781.00
64_T102_K1.2701.00
66_I102_K1.2271.00
95_F98_I1.2171.00
3_L34_G1.2161.00
24_A65_A1.2051.00
73_F85_V1.2011.00
22_S25_K1.1911.00
31_L87_S1.1821.00
59_I98_I1.1321.00
76_Y84_I1.1281.00
88_V101_V1.1061.00
57_V65_A1.0411.00
65_A92_L1.0331.00
80_D83_K1.0291.00
70_S106_N1.0201.00
49_L84_I1.0081.00
56_N106_N0.9951.00
28_L92_L0.9871.00
26_Q30_Y0.9851.00
67_A88_V0.9370.99
85_V89_T0.9320.99
67_A92_L0.9320.99
77_K80_D0.9320.99
88_V93_T0.9290.99
32_V55_V0.9270.99
28_L55_V0.9150.99
32_V69_F0.9080.99
3_L35_G0.8940.99
69_F105_I0.8930.99
3_L8_G0.8920.99
57_V67_A0.8720.99
65_A101_V0.8660.99
92_L98_I0.8620.99
9_Y12_A0.8610.99
82_Q85_V0.8600.99
47_A87_S0.8410.99
52_D76_Y0.8370.99
49_L53_T0.8360.99
89_T101_V0.8340.99
24_A59_I0.8320.99
73_F84_I0.8320.99
28_L67_A0.8150.98
22_S26_Q0.8050.98
78_K82_Q0.8020.98
28_L69_F0.7970.98
52_D72_E0.7890.98
47_A51_A0.7850.98
24_A92_L0.7830.98
56_N70_S0.7830.98
24_A57_V0.7790.98
76_Y81_E0.7780.98
4_I83_K0.7750.98
26_Q29_E0.7740.98
54_T70_S0.7640.97
63_G66_I0.7610.97
15_L36_P0.7460.97
17_L26_Q0.7400.97
65_A90_W0.7360.97
1_L31_L0.7360.97
72_E75_N0.7280.97
55_V69_F0.7230.96
23_T97_S0.7170.96
90_W93_T0.7150.96
24_A97_S0.7120.96
59_I95_F0.7110.96
19_K22_S0.7070.96
53_T69_F0.6980.96
12_A45_F0.6830.95
90_W94_Q0.6710.95
78_K81_E0.6700.95
6_K9_Y0.6640.94
63_G98_I0.6590.94
48_V84_I0.6540.94
104_R107_G0.6510.94
22_S97_S0.6430.93
3_L13_Q0.6430.93
14_T62_D0.6370.93
20_S26_Q0.6300.93
81_E84_I0.6250.92
73_F76_Y0.6240.92
4_I48_V0.6240.92
10_V15_L0.6170.92
85_V90_W0.6140.92
3_L15_L0.6110.91
46_R78_K0.6020.91
32_V53_T0.6020.91
76_Y80_D0.5960.90
85_V103_L0.5780.89
32_V67_A0.5770.89
1_L94_Q0.5760.89
73_F94_Q0.5750.89
28_L34_G0.5730.89
11_V45_F0.5710.88
20_S23_T0.5710.88
30_Y35_G0.5660.88
80_D84_I0.5650.88
48_V83_K0.5620.88
4_I8_G0.5600.87
37_V42_P0.5550.87
53_T56_N0.5550.87
53_T76_Y0.5540.87
21_E43_N0.5530.87
25_K56_N0.5520.87
77_K84_I0.5520.87
1_L86_Q0.5500.87
13_Q17_L0.5400.86
49_L88_V0.5390.85
1_L30_Y0.5380.85
1_L15_L0.5340.85
36_P42_P0.5320.85
83_K86_Q0.5280.84
91_T94_Q0.5220.84
36_P76_Y0.5190.83
93_T101_V0.5180.83
71_N74_K0.5150.83
31_L88_V0.5150.83
23_T26_Q0.5110.82
10_V83_K0.5100.82
4_I7_N0.5060.82
21_E26_Q0.5060.82
81_E89_T0.5050.82
57_V60_K0.5030.81
15_L35_G0.5030.81
68_D106_N0.5020.81
27_A65_A0.5010.81
77_K81_E0.5000.81
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  
4b0mA 1 0.3909 35 0.868 Contact Map
3cq1A 2 0.7636 29.4 0.873 Contact Map
3bwuD 1 0.3818 28.6 0.874 Contact Map
1uwdA 1 0.7818 28.3 0.874 Contact Map
3lnoA 1 0.8091 26.5 0.875 Contact Map
3rfzB 2 0.1727 23.5 0.879 Contact Map
3pe9A 1 0.4 10.5 0.896 Contact Map
1jfuA 1 0.3 7.5 0.903 Contact Map
2vvfA 3 0.5091 7 0.905 Contact Map
2idlA 2 0.9273 6.8 0.905 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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