GREMLIN Database
YRAD - Spore coat protein F-like protein YraD
UniProt: O06010 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 99 (89)
Sequences: 202 (165)
Seq/√Len: 17.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
23_L64_L3.0000.99
58_L86_N2.6200.97
23_L60_M2.4780.96
78_N81_E2.3420.94
21_M85_L2.3300.94
67_Y74_Y2.3210.94
85_L89_N2.2510.93
65_S76_P2.1470.91
10_G92_T1.9760.87
32_R87_L1.9380.86
69_M76_P1.9280.85
8_L12_N1.8930.84
59_D63_Q1.8890.84
34_Y53_H1.8130.82
42_G58_L1.7200.78
75_H81_E1.6680.76
16_D53_H1.6490.75
57_A83_V1.6290.74
19_I45_E1.5220.69
66_S76_P1.4750.66
31_V39_T1.4270.64
21_M47_K1.4050.62
62_E66_S1.3630.60
47_K90_I1.3420.59
16_D82_Q1.3410.59
27_A57_A1.3330.58
9_T13_V1.2890.55
41_A58_L1.2870.55
14_L60_M1.2830.55
10_G15_T1.2830.55
32_R36_M1.2820.55
15_T74_Y1.2530.53
44_P55_E1.2420.53
17_Q73_W1.2270.52
46_V79_P1.2190.51
17_Q96_L1.2100.51
36_M81_E1.1960.50
58_L78_N1.1630.48
29_N72_G1.1580.48
78_N95_Q1.1370.46
34_Y70_E1.1170.45
46_V77_W1.1120.45
8_L74_Y1.0640.42
69_M82_Q1.0590.42
52_R56_E1.0580.42
80_D91_D1.0460.41
29_N65_S1.0320.40
69_M75_H1.0300.40
13_V43_T1.0090.39
10_G14_L0.9970.38
38_A47_K0.9870.37
8_L17_Q0.9760.37
39_T77_W0.9460.35
30_G96_L0.9450.35
14_L86_N0.9310.34
51_I66_S0.9270.34
27_A35_A0.9170.34
65_S95_Q0.9160.34
56_E87_L0.9090.33
31_V38_A0.9000.33
46_V80_D0.8970.32
75_H82_Q0.8890.32
59_D93_A0.8860.32
23_L32_R0.8730.31
19_I22_D0.8620.31
21_M96_L0.8260.29
19_I82_Q0.8150.28
49_V83_V0.8060.28
63_Q71_K0.8030.28
71_K89_N0.7880.27
20_A35_A0.7800.27
27_A49_V0.7720.26
74_Y96_L0.7650.26
70_E84_K0.7500.25
47_K62_E0.7480.25
42_G77_W0.7450.25
67_Y73_W0.7310.24
29_N95_Q0.7240.24
35_A61_H0.7200.24
71_K85_L0.7190.24
27_A30_G0.7150.24
21_M89_N0.7150.24
47_K89_N0.7080.23
38_A51_I0.7040.23
38_A42_G0.7010.23
35_A67_Y0.6930.23
81_E84_K0.6890.23
9_T12_N0.6890.23
12_N74_Y0.6780.22
49_V62_E0.6720.22
22_D62_E0.6700.22
65_S75_H0.6690.22
9_T72_G0.6590.21
12_N96_L0.6520.21
61_H72_G0.6410.21
62_E88_K0.6360.20
73_W85_L0.6350.20
22_D58_L0.6350.20
18_I74_Y0.6320.20
13_V96_L0.6170.20
21_M73_W0.6150.20
30_G91_D0.6130.19
43_T53_H0.6020.19
35_A45_E0.6020.19
77_W94_I0.6020.19
59_D88_K0.5970.19
49_V69_M0.5910.19
42_G68_M0.5900.19
8_L96_L0.5900.19
41_A46_V0.5820.18
22_D26_S0.5760.18
48_E92_T0.5670.18
13_V29_N0.5620.18
46_V75_H0.5610.18
23_L33_N0.5600.18
43_T75_H0.5530.17
20_A36_M0.5510.17
88_K91_D0.5460.17
53_H79_P0.5350.17
9_T74_Y0.5320.17
41_A62_E0.5290.16
55_E58_L0.5280.16
70_E80_D0.5270.16
63_Q95_Q0.5250.16
22_D81_E0.5230.16
18_I82_Q0.5210.16
15_T87_L0.5190.16
26_S48_E0.5190.16
36_M65_S0.5150.16
26_S82_Q0.5140.16
20_A68_M0.5120.16
45_E71_K0.5110.16
64_L88_K0.5060.16
27_A64_L0.5000.16
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  
2rbdA 4 0.8283 99.5 0.651 Contact Map
4etrA 1 0.7071 17.8 0.935 Contact Map
1oefA 1 0.2222 10.3 0.941 Contact Map
4wsoA 1 0.7677 9.3 0.943 Contact Map
2ltlA 1 0.5859 7.3 0.945 Contact Map
4g2kA 3 0.6162 7.3 0.945 Contact Map
3uo9A 3 0.9899 6.5 0.946 Contact Map
1k4mA 3 0.7273 6.4 0.947 Contact Map
4iggA 2 0.9899 6.3 0.947 Contact Map
2ebfX 1 0.4242 5.6 0.948 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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