GREMLIN Database
GERPF - Probable spore germination protein GerPF
UniProt: O06716 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 72 (71)
Sequences: 193 (130)
Seq/√Len: 15.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
36_L41_G3.3210.99
64_N67_D3.3050.99
34_S41_G3.2950.99
10_I18_V2.8130.97
5_V40_A2.4170.93
19_N24_F2.0730.86
16_G48_L1.9550.82
35_A56_T1.9260.81
47_L66_Q1.8600.79
14_S57_N1.8500.79
54_N58_Y1.7900.76
9_A51_N1.7710.75
9_A45_D1.6700.71
25_Y66_Q1.6070.68
8_I20_F1.5910.67
35_A38_S1.5690.66
49_L64_N1.5470.65
38_S51_N1.5000.62
43_T57_N1.4730.61
4_I14_S1.3530.54
15_G30_S1.3000.51
14_S51_N1.2300.47
9_A69_V1.1940.45
57_N62_D1.1930.45
10_I36_L1.1560.43
27_S49_L1.1360.42
58_Y69_V1.1200.41
7_P40_A1.1130.41
33_K43_T1.1000.40
17_V26_L1.0910.39
18_V23_S1.0860.39
63_V68_M1.0690.38
10_I20_F0.9970.34
30_S54_N0.9590.33
50_N61_P0.9580.32
46_F49_L0.9530.32
29_K46_F0.9520.32
31_S61_P0.9270.31
38_S47_L0.9170.30
8_I55_A0.8990.30
13_I52_A0.8900.29
15_G65_D0.8880.29
8_I26_L0.8840.29
27_S52_A0.8730.28
52_A61_P0.8490.27
9_A67_D0.8450.27
67_D70_G0.8400.27
27_S54_N0.8320.26
66_Q71_N0.8280.26
40_A59_I0.8210.26
56_T60_D0.8100.26
32_S52_A0.8050.25
29_K38_S0.8010.25
10_I23_S0.7950.25
4_I55_A0.7860.25
11_N41_G0.7660.24
3_A20_F0.7610.23
12_S30_S0.7470.23
32_S48_L0.7470.23
17_V40_A0.7420.23
7_P10_I0.7410.23
4_I26_L0.7310.22
8_I12_S0.7160.22
7_P46_F0.7040.21
19_N52_A0.6900.21
44_G60_D0.6890.21
25_Y50_N0.6870.21
5_V12_S0.6820.20
34_S55_A0.6820.20
3_A68_M0.6690.20
47_L61_P0.6660.20
45_D62_D0.6660.20
45_D67_D0.6480.19
23_S26_L0.6480.19
13_I36_L0.6440.19
18_V24_F0.6400.19
7_P71_N0.6330.19
14_S32_S0.6300.19
35_A41_G0.6230.18
15_G50_N0.6200.18
15_G59_I0.6130.18
54_N59_I0.6040.18
26_L53_V0.5910.17
46_F50_N0.5870.17
35_A58_Y0.5840.17
3_A15_G0.5840.17
31_S66_Q0.5790.17
9_A71_N0.5720.17
4_I25_Y0.5690.17
48_L51_N0.5560.16
58_Y64_N0.5550.16
20_F46_F0.5500.16
38_S48_L0.5490.16
20_F32_S0.5430.16
49_L59_I0.5300.15
27_S51_N0.5300.15
29_K53_V0.5280.15
19_N25_Y0.5270.15
6_G51_N0.5250.15
4_I51_N0.5200.15
11_N17_V0.5160.15
36_L54_N0.5150.15
59_I70_G0.5070.15
17_V58_Y0.5070.15
13_I18_V0.5050.15
31_S53_V0.5000.14
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  
1mkfA 4 0.3333 3.6 0.932 Contact Map
1xzzA 1 0.7083 3.1 0.935 Contact Map
2x3hA 3 0.6528 2.8 0.936 Contact Map
2ws94 3 0.2917 2.8 0.936 Contact Map
1qqp4 3 0.375 2.7 0.937 Contact Map
4gh4D 3 0.4306 2.6 0.937 Contact Map
4axgC 1 0 2.5 0.937 Contact Map
3uj4A 1 0.6806 1.4 0.945 Contact Map
1gksA 1 0.3333 1.4 0.946 Contact Map
2ey4C 1 0.3889 1.4 0.946 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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