GREMLIN Database
YolD - YolD-like protein
PFAM: PF08863 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 94 (91)
Sequences: 2336 (1796)
Seq/√Len: 188.2
META: 0.553

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
72_R84_K2.6421.00
21_K89_D2.6071.00
6_V10_R2.4421.00
49_T56_Y2.3411.00
18_K54_G2.2221.00
47_T58_T2.1751.00
61_G75_L2.0841.00
33_N37_Q2.0811.00
28_Q31_E2.0591.00
71_K88_D2.0191.00
47_T60_T1.9461.00
43_G62_I1.9221.00
24_L32_I1.8891.00
28_Q92_D1.7601.00
59_V75_L1.7561.00
52_K57_E1.6941.00
19_V56_Y1.6221.00
7_E11_E1.6211.00
86_P89_D1.5871.00
8_A11_E1.5501.00
15_E18_K1.5381.00
22_P91_I1.5221.00
11_E15_E1.5131.00
8_A12_L1.4341.00
67_D70_N1.4091.00
39_A63_V1.3661.00
65_K74_K1.3421.00
39_A46_V1.2801.00
32_I93_I1.2441.00
74_K84_K1.2371.00
30_E34_R1.2351.00
22_P56_Y1.2231.00
64_K76_V1.2201.00
28_Q32_I1.2111.00
21_K51_Y1.1941.00
14_K55_E1.1931.00
21_K88_D1.1911.00
50_Y59_V1.1841.00
24_L29_L1.1721.00
39_A62_I1.1691.00
6_V16_Q1.1461.00
51_Y54_G1.1381.00
72_R86_P1.1281.00
5_H8_A1.1271.00
40_L43_G1.1171.00
25_D28_Q1.1111.00
18_K55_E1.0781.00
10_R13_K1.0691.00
12_L16_Q1.0621.00
45_E62_I1.0551.00
45_E60_T1.0551.00
56_Y91_I0.9700.99
49_T58_T0.9650.99
6_V9_L0.9560.99
49_T92_D0.9420.99
35_K46_V0.9260.99
37_Q41_E0.9230.99
32_I35_K0.9070.99
73_L90_I0.8990.99
14_K17_E0.8980.99
2_L5_H0.8930.99
29_L33_N0.8900.99
38_E44_E0.8830.99
6_V12_L0.8720.99
2_L6_V0.8670.99
9_L13_K0.8490.98
27_D51_Y0.8370.98
28_Q35_K0.8350.98
2_L13_K0.8040.98
19_V55_E0.8020.98
70_N84_K0.7970.97
3_P6_V0.7910.97
66_I87_F0.7860.97
20_E51_Y0.7830.97
40_L63_V0.7730.97
40_L65_K0.7410.96
22_P39_A0.7220.95
2_L8_A0.7220.95
19_V54_G0.7050.95
11_E14_K0.7040.95
21_K24_L0.6980.95
31_E35_K0.6970.94
13_K17_E0.6940.94
6_V13_K0.6870.94
13_K16_Q0.6860.94
61_G85_I0.6810.94
38_E42_E0.6800.94
50_Y85_I0.6800.94
48_I93_I0.6710.93
36_L73_L0.6710.93
26_E30_E0.6710.93
26_E29_L0.6710.93
8_A16_Q0.6700.93
39_A91_I0.6510.92
31_E92_D0.6480.92
64_K74_K0.6340.91
27_D30_E0.6330.91
2_L7_E0.6310.91
60_T78_E0.6290.91
75_L85_I0.6280.91
40_L64_K0.6160.90
57_E60_T0.6120.90
33_N50_Y0.6090.89
81_E84_K0.6080.89
40_L66_I0.6070.89
28_Q63_V0.6010.89
48_I61_G0.6010.89
48_I59_V0.6000.89
35_K93_I0.5990.89
29_L36_L0.5880.88
7_E13_K0.5870.88
19_V22_P0.5870.88
41_E44_E0.5810.87
17_E55_E0.5760.87
61_G76_V0.5750.87
35_K44_E0.5720.86
18_K53_D0.5680.86
6_V15_E0.5650.86
23_E29_L0.5570.85
34_R68_P0.5510.84
35_K38_E0.5500.84
12_L15_E0.5500.84
50_Y93_I0.5500.84
52_K89_D0.5440.84
37_Q68_P0.5430.83
45_E78_E0.5420.83
75_L81_E0.5410.83
75_L78_E0.5400.83
87_F91_I0.5370.83
3_P7_E0.5370.83
3_P16_Q0.5340.82
4_E9_L0.5330.82
5_H12_L0.5030.79
48_I90_I0.5030.79
2_L88_D0.5010.78
25_D65_K0.5000.78
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  
1vw4Q 1 0.4787 23.8 0.856 Contact Map
4x9cA 3 0.6064 20.8 0.86 Contact Map
4hczA 1 0.5851 14.7 0.87 Contact Map
4mf9A 1 0.9894 13.1 0.872 Contact Map
2j0pA 1 0.9574 12.8 0.873 Contact Map
4cdpA 1 0.9681 12.7 0.873 Contact Map
3s6wA 1 0.5319 10 0.879 Contact Map
2vc8A 1 0.5319 9.8 0.879 Contact Map
4a53A 1 0.6383 9.7 0.879 Contact Map
2rrfA 1 0.7128 8.7 0.882 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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