GREMLIN Database
gerPA - Spore germination protein gerPA/gerPF
PFAM: PF10676 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 72 (71)
Sequences: 962 (622)
Seq/√Len: 73.8
META: 0.407

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
65_I68_P4.5281.00
37_A42_F4.1581.00
9_K46_D4.0251.00
36_F57_T3.0561.00
2_P23_D2.7461.00
29_P40_G2.3201.00
13_V19_V2.1651.00
8_I21_F2.1401.00
10_I19_V2.1081.00
18_V27_I1.9051.00
43_N48_I1.8411.00
63_D66_D1.5980.99
43_N50_T1.4710.99
61_D66_D1.3300.98
13_V17_G1.2560.97
47_F54_V1.2450.97
34_K61_D1.2450.97
41_S53_G1.2380.97
35_T42_F1.2370.97
39_S52_N1.2290.97
64_V68_P1.2190.96
34_K66_D1.1960.96
24_T27_I1.1730.96
7_P21_F1.1510.95
35_T44_T1.1230.94
63_D71_G1.1200.94
39_S57_T1.1140.94
20_N25_L1.0330.91
8_I19_V1.0320.91
39_S51_N1.0310.91
4_I9_K1.0170.91
32_N67_Q1.0050.90
38_G55_S1.0050.90
9_K68_P0.9820.89
48_I67_Q0.9460.87
17_G27_I0.9420.87
32_N69_I0.9370.87
11_N48_I0.9340.87
54_V58_N0.9190.86
36_F59_T0.8920.84
49_S53_G0.8920.84
10_I28_S0.8880.84
43_N67_Q0.8780.83
22_G61_D0.8750.83
23_D38_G0.8690.82
19_V47_F0.8590.82
29_P32_N0.8380.80
35_T55_S0.8310.80
26_Q67_Q0.8030.77
51_N62_P0.7730.74
6_G23_D0.7570.73
15_S19_V0.7480.72
46_D63_D0.7470.72
15_S18_V0.7430.71
17_G28_S0.7380.71
64_V69_I0.7320.70
25_L32_N0.7200.69
19_V64_V0.7140.68
8_I43_N0.7120.68
10_I23_D0.7120.68
52_N55_S0.7110.68
17_G43_N0.6910.66
60_L70_V0.6910.66
17_G29_P0.6700.64
7_P25_L0.6500.61
11_N14_G0.6420.60
18_V40_G0.6210.58
12_S38_G0.6170.57
50_T53_G0.6170.57
47_F56_A0.6140.57
42_F68_P0.6140.57
16_S26_Q0.6050.56
38_G59_T0.6040.56
29_P44_T0.6020.55
14_G35_T0.5990.55
30_K58_N0.5970.55
9_K48_I0.5960.55
54_V68_P0.5950.55
6_G42_F0.5870.54
13_V50_T0.5820.53
56_A65_I0.5800.53
12_S61_D0.5770.52
62_P67_Q0.5750.52
13_V34_K0.5720.52
24_T29_P0.5700.51
45_G50_T0.5660.51
40_G55_S0.5620.50
52_N58_N0.5600.50
27_I49_S0.5560.50
55_S59_T0.5540.49
61_D65_I0.5460.48
3_A10_I0.5450.48
24_T71_G0.5430.48
4_I7_P0.5400.48
9_K71_G0.5350.47
20_N26_Q0.5310.47
20_N24_T0.5290.46
23_D29_P0.5290.46
41_S55_S0.5250.46
28_S32_N0.5220.45
11_N49_S0.5180.45
45_G55_S0.5070.44
32_N44_T0.5060.44
18_V29_P0.5050.43
12_S46_D0.5020.43
22_G34_K0.5000.43
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  
3wv7A 3 0.5972 1.5 0.908 Contact Map
4axgC 1 0 1.1 0.915 Contact Map
4tw1A 3 0.8889 1.1 0.915 Contact Map
1bkuA 1 0.1389 1 0.917 Contact Map
2jxzA 1 0.1389 1 0.917 Contact Map
3w1eA 1 0.4306 0.7 0.926 Contact Map
4tw1B 1 0.7917 0.7 0.926 Contact Map
5a1uG 1 0.4722 0.7 0.927 Contact Map
1mkfA 4 0.3333 0.6 0.929 Contact Map
3f83A 1 0.8611 0.6 0.929 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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