GREMLIN Database
YVDC - Uncharacterized protein YvdC
UniProt: O32263 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 106 (104)
Sequences: 113 (80)
Seq/√Len: 7.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
40_R66_L3.5560.94
6_A75_G2.3430.70
39_A65_E2.3140.69
71_G95_H2.3080.69
20_T75_G2.2060.65
17_R50_D1.9630.55
28_V80_L1.9480.55
53_D76_N1.9460.55
53_D71_G1.8030.49
53_D95_H1.7710.48
6_A82_D1.7610.47
51_R71_G1.6300.42
62_Q103_F1.6000.41
51_R76_N1.5700.40
17_R99_L1.5690.40
13_F24_P1.5530.39
6_A78_A1.5430.39
51_R95_H1.5240.38
6_A20_T1.5190.38
8_K85_G1.5050.37
71_G76_N1.5020.37
44_A66_L1.4980.37
76_N95_H1.4680.36
32_M80_L1.3970.33
51_R91_V1.3530.32
8_K101_K1.3490.31
6_A51_R1.3180.30
12_E77_I1.2960.30
2_Q86_V1.2870.29
10_M51_R1.2860.29
45_Y66_L1.2690.29
20_T65_E1.2630.28
13_F42_V1.2610.28
55_K61_E1.2350.28
6_A71_G1.2160.27
13_F80_L1.2080.27
93_K97_E1.2060.27
28_V93_K1.2050.27
7_E38_L1.1910.26
45_Y58_S1.1910.26
6_A95_H1.1850.26
45_Y70_M1.1770.26
61_E97_E1.1690.25
55_K101_K1.1540.25
8_K90_D1.1490.25
29_G35_A1.1350.24
12_E58_S1.1280.24
23_G51_R1.0990.23
12_E60_A1.0970.23
10_M95_H1.0900.23
6_A24_P1.0710.23
60_A85_G1.0630.22
20_T78_A1.0580.22
26_I80_L1.0550.22
23_G83_M1.0410.22
35_A92_M1.0390.22
71_G96_Q1.0380.22
42_V80_L1.0330.21
38_L66_L1.0180.21
40_R45_Y1.0170.21
35_A42_V1.0070.21
38_L86_V1.0070.21
28_V63_K0.9970.21
20_T82_D0.9970.21
39_A104_E0.9930.20
13_F103_F0.9890.20
53_D96_Q0.9870.20
23_G67_I0.9850.20
75_G78_A0.9790.20
49_R54_E0.9670.20
8_K60_A0.9650.20
71_G91_V0.9560.19
91_V95_H0.9530.19
59_R103_F0.9470.19
81_A87_S0.9450.19
38_L79_I0.9400.19
23_G38_L0.9310.19
71_G88_L0.9260.19
29_G75_G0.9160.18
24_P80_L0.9090.18
30_F50_D0.8930.18
50_D99_L0.8890.18
78_A82_D0.8840.18
22_Y50_D0.8750.17
6_A91_V0.8640.17
38_L45_Y0.8610.17
5_D101_K0.8500.17
7_E103_F0.8490.17
20_T79_I0.8460.17
88_L95_H0.8460.17
6_A53_D0.8340.17
15_E78_A0.8310.16
79_I83_M0.8210.16
57_S67_I0.7970.16
15_E97_E0.7930.16
29_G63_K0.7830.15
71_G81_A0.7780.15
78_A91_V0.7760.15
28_V40_R0.7680.15
6_A10_M0.7640.15
53_D91_V0.7430.15
25_F51_R0.7390.15
32_M59_R0.7280.14
44_A74_I0.7270.14
13_F22_Y0.7260.14
65_E75_G0.7260.14
40_R65_E0.7250.14
51_R96_Q0.7230.14
55_K97_E0.7190.14
22_Y80_L0.7030.14
18_G22_Y0.6980.14
81_A96_Q0.6940.14
35_A91_V0.6880.14
31_L70_M0.6860.13
57_S97_E0.6780.13
41_A81_A0.6700.13
53_D81_A0.6690.13
16_K100_T0.6560.13
38_L83_M0.6530.13
88_L92_M0.6500.13
20_T32_M0.6460.13
27_R50_D0.6360.13
90_D104_E0.6270.12
86_V90_D0.6180.12
45_Y83_M0.6080.12
12_E61_E0.6070.12
22_Y35_A0.6050.12
14_Y102_R0.5970.12
14_Y52_P0.5970.12
29_G42_V0.5970.12
52_P102_R0.5970.12
21_E74_I0.5950.12
67_I91_V0.5950.12
40_R89_E0.5800.12
11_K63_K0.5770.12
18_G77_I0.5720.11
2_Q5_D0.5710.11
28_V39_A0.5650.11
21_E39_A0.5600.11
57_S63_K0.5590.11
79_I82_D0.5590.11
56_E85_G0.5490.11
44_A62_Q0.5480.11
6_A76_N0.5430.11
55_K63_K0.5430.11
4_A60_A0.5340.11
18_G21_E0.5290.11
26_I79_I0.5280.11
42_V59_R0.5260.11
59_R100_T0.5230.11
8_K61_E0.5200.11
65_E78_A0.5170.11
76_N88_L0.5110.10
22_Y26_I0.5080.10
40_R44_A0.5070.10
67_I90_D0.5000.10
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  
4qgpA 4 0.9528 99.7 0.657 Contact Map
2a3qA 3 0.9717 99.7 0.661 Contact Map
2gtaA 4 0.9151 99.7 0.665 Contact Map
2q5zA 4 0.8868 99.6 0.694 Contact Map
4dk2A 2 0.7453 99.5 0.709 Contact Map
2oieA 3 0.8962 99.5 0.714 Contact Map
2q73A 4 0.8585 99.4 0.724 Contact Map
1vmgA 4 0.7642 99.2 0.759 Contact Map
2yxhA 2 0.8396 99 0.777 Contact Map
3craA 2 0.8019 98.9 0.784 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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