GREMLIN Database
GERPA - Probable spore germination protein GerPA
UniProt: O06721 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 73 (71)
Sequences: 191 (126)
Seq/√Len: 14.9

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_V68_P3.2760.99
37_A42_F3.1400.98
35_T42_F3.1070.98
5_V41_S2.2600.90
14_G58_N2.0730.85
20_H25_I1.9840.82
10_I19_V1.8700.78
44_T58_N1.7760.74
48_L67_Q1.6760.70
9_K52_N1.6350.68
8_F21_I1.6120.67
17_G49_K1.6100.67
39_A52_N1.5830.65
36_F39_A1.4320.57
36_F57_T1.4080.56
19_V24_C1.3980.55
4_I14_G1.3130.51
16_S41_S1.3040.50
50_V65_V1.2940.50
34_R44_T1.2340.46
18_V41_S1.2010.44
14_G52_N1.1950.44
10_I37_A1.1830.43
10_I21_I1.1800.43
47_S50_V1.1290.40
9_K46_D1.1290.40
24_C27_I1.1140.40
46_D63_D1.1070.39
55_N59_V1.0960.39
7_A10_I1.0530.36
26_T67_Q1.0520.36
8_F19_V1.0370.36
51_M62_N1.0250.35
3_A21_I1.0100.34
13_I53_Y1.0060.34
9_K70_V0.9930.33
32_Q62_N0.9920.33
14_G39_A0.9910.33
64_A69_I0.9800.33
28_S50_V0.9760.32
4_I27_I0.9710.32
21_I47_S0.9680.32
31_A55_N0.9640.32
45_G61_D0.9590.32
12_A49_K0.9350.30
7_A16_S0.9350.30
36_F63_D0.9300.30
18_V27_I0.9280.30
8_F56_A0.9150.30
30_Q47_S0.9150.30
67_Q72_N0.8940.29
7_A41_S0.8940.29
26_T51_M0.8730.28
59_V70_V0.8500.27
43_N58_N0.8470.26
12_A24_C0.8380.26
7_A35_T0.8270.26
7_A47_S0.8270.26
9_K68_P0.8000.24
30_Q39_A0.7910.24
8_F27_I0.7860.24
58_N63_D0.7760.24
33_V49_K0.7720.23
10_I55_N0.7680.23
27_I54_Q0.7590.23
13_I19_V0.7440.22
12_A31_A0.7320.22
3_A24_C0.7310.22
25_I67_Q0.7290.22
4_I56_A0.7240.21
63_D71_A0.7230.21
8_F28_S0.7110.21
39_A48_L0.7110.21
33_V53_Y0.7100.21
53_Y62_N0.7100.21
28_S55_N0.7050.21
49_K52_N0.6870.20
59_V65_V0.6850.20
68_P71_A0.6780.20
4_I26_T0.6750.20
14_G65_V0.6690.19
47_S51_M0.6660.19
19_V64_A0.6650.19
60_Y70_V0.6620.19
36_F42_F0.6310.18
20_H26_T0.6310.18
20_H24_C0.6290.18
7_A26_T0.6250.18
32_Q67_Q0.6240.18
18_V59_V0.6060.17
20_H51_M0.5800.17
30_Q64_A0.5780.16
19_V25_I0.5740.16
7_A72_N0.5730.16
11_N71_A0.5670.16
12_A33_V0.5600.16
7_A21_I0.5580.16
33_V47_S0.5580.16
9_K72_N0.5550.16
32_Q55_N0.5480.16
32_Q37_A0.5430.15
48_L58_N0.5330.15
30_Q51_M0.5330.15
4_I9_K0.5190.15
33_V64_A0.5020.14
20_H53_Y0.5000.14
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  
2ws94 3 0.2877 2.9 0.936 Contact Map
1poiB 1 0.9041 2.5 0.939 Contact Map
4gh4D 3 0.411 2.2 0.94 Contact Map
1p4qA 1 0.3288 1.7 0.944 Contact Map
3vx8D 1 0.3151 1.6 0.945 Contact Map
2x3hA 3 0.6438 1.4 0.947 Contact Map
1qqp4 3 0.3699 1.4 0.947 Contact Map
3uaqA 2 0.0822 1.2 0.949 Contact Map
3j8eG 3 0.5342 1.2 0.949 Contact Map
2ey4C 1 0.3836 1.2 0.949 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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