GREMLIN Database
YOLD - SPBc2 prophage-derived uncharacterized protein YolD
UniProt: O31991 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 110 (105)
Sequences: 187 (162)
Seq/√Len: 15.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
4_D9_K3.2640.99
11_T14_M3.1490.99
9_K12_S2.4550.94
8_I11_T2.2170.90
54_E77_H2.2050.90
56_N78_Y2.0980.87
5_R9_K2.0450.86
4_D12_S2.0390.86
9_K14_M2.0120.85
98_I101_N1.9910.84
4_D11_T1.9790.84
27_I59_L1.9520.83
14_M19_L1.9440.83
24_Q28_D1.8680.80
88_V98_I1.8270.79
8_I19_L1.7460.75
80_N87_H1.7330.75
78_Y88_V1.6770.72
35_P74_G1.6430.71
53_L77_H1.6380.70
6_G9_K1.5960.68
3_R78_Y1.5880.68
62_K69_V1.5860.68
18_H22_L1.5330.65
8_I12_S1.5130.64
13_M18_H1.4980.63
6_G10_W1.4900.63
58_E100_M1.4750.62
20_T24_Q1.4160.59
19_L23_K1.3720.56
86_L100_M1.3320.54
64_F67_G1.3200.53
14_M18_H1.2950.52
41_Q72_V1.2890.51
49_V106_V1.2850.51
76_V103_I1.2750.51
65_H83_Q1.2450.49
46_D106_V1.2410.49
61_F86_L1.2320.48
50_S53_L1.2310.48
8_I52_A1.2250.48
31_K67_G1.2100.47
46_D94_N1.1940.46
14_M22_L1.1800.45
80_N106_V1.1740.45
56_N75_R1.1680.45
41_Q48_L1.1100.41
15_L20_T1.1020.41
72_V88_V1.0940.40
9_K23_K1.0600.38
12_S15_L1.0540.38
5_R12_S1.0440.38
90_D106_V1.0370.37
84_Q101_N1.0330.37
99_N102_N1.0010.35
51_E55_F0.9960.35
59_L65_H0.9810.34
8_I14_M0.9770.34
37_L88_V0.9660.33
46_D61_F0.9470.33
37_L58_E0.9330.32
33_E58_E0.9290.32
41_Q105_G0.9130.31
37_L84_Q0.9000.30
28_D31_K0.8990.30
33_E95_T0.8860.30
9_K21_Q0.8860.30
80_N83_Q0.8750.29
63_L93_D0.8750.29
35_P104_I0.8620.28
89_K95_T0.8570.28
44_E57_K0.8550.28
15_L34_K0.8540.28
34_K52_A0.8450.28
88_V96_V0.8440.28
40_Q63_L0.8400.27
51_E89_K0.8330.27
36_S75_R0.8250.27
24_Q60_Q0.8090.26
8_I18_H0.8080.26
49_V58_E0.8070.26
45_M54_E0.7950.25
4_D23_K0.7940.25
8_I62_K0.7870.25
35_P67_G0.7820.25
4_D8_I0.7790.25
21_Q44_E0.7720.24
33_E76_V0.7580.24
53_L100_M0.7480.23
5_R74_G0.7460.23
7_T11_T0.7440.23
9_K19_L0.7390.23
22_L98_I0.7340.23
3_R48_L0.7230.22
11_T15_L0.7140.22
43_E73_T0.7090.22
27_I49_V0.7050.22
12_S23_K0.7010.21
50_S77_H0.7000.21
7_T12_S0.6960.21
63_L100_M0.6920.21
3_R59_L0.6900.21
13_M19_L0.6860.21
79_I107_T0.6840.21
20_T73_T0.6810.21
32_I60_Q0.6750.20
49_V68_F0.6730.20
44_E47_I0.6680.20
42_I105_G0.6650.20
3_R9_K0.6650.20
8_I23_K0.6620.20
16_P23_K0.6580.20
25_D28_D0.6570.20
78_Y87_H0.6530.20
15_L25_D0.6500.20
30_S70_E0.6500.20
83_Q104_I0.6480.19
53_L78_Y0.6470.19
62_K103_I0.6470.19
85_K97_Y0.6420.19
41_Q98_I0.6310.19
28_D61_F0.6310.19
72_V84_Q0.6300.19
48_L51_E0.6300.19
34_K44_E0.6240.19
46_D84_Q0.6220.19
23_K26_L0.6190.18
26_L69_V0.6140.18
58_E86_L0.6110.18
86_L90_D0.6060.18
56_N79_I0.6060.18
64_F103_I0.6020.18
36_S40_Q0.6010.18
62_K73_T0.5930.18
90_D103_I0.5930.18
48_L86_L0.5870.17
13_M43_E0.5790.17
31_K86_L0.5750.17
15_L18_H0.5710.17
32_I69_V0.5700.17
34_K101_N0.5610.17
47_I98_I0.5600.16
37_L45_M0.5600.16
3_R20_T0.5510.16
54_E78_Y0.5430.16
12_S40_Q0.5360.16
70_E98_I0.5330.16
73_T91_Q0.5330.16
3_R31_K0.5270.15
52_A104_I0.5220.15
42_I86_L0.5210.15
22_L38_D0.5180.15
60_Q101_N0.5090.15
54_E87_H0.5070.15
18_H98_I0.5060.15
73_T92_N0.5060.15
52_A87_H0.5060.15
48_L76_V0.5000.15
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  
4x9cA 3 0.5273 21.6 0.928 Contact Map
2ph0A 2 0.8273 16.5 0.931 Contact Map
2oviA 2 0.8455 16 0.932 Contact Map
4oh8B 1 0.4182 11.9 0.935 Contact Map
3kdfA 2 0.5909 11.6 0.936 Contact Map
1sg5A 1 0.6818 10.3 0.937 Contact Map
4hczA 1 0.5273 10.2 0.937 Contact Map
4n06A 2 0.4091 8.2 0.94 Contact Map
1ss6A 1 0.5545 7.4 0.941 Contact Map
4cdpA 1 0.9818 7 0.942 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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