GREMLIN Database
YHJD - Uncharacterized protein YhjD
UniProt: O07558 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 120 (116)
Sequences: 103 (85)
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
29_L44_K3.0600.88
74_E77_R2.9860.87
19_P113_Y2.9370.86
102_I107_S2.5270.76
22_I51_L2.4740.74
20_M103_R2.3060.68
93_E98_F2.2590.67
60_E67_K2.0950.61
83_L96_R1.9650.56
42_P46_L1.9190.54
32_I79_E1.9150.53
86_F103_R1.8370.50
2_P96_R1.8160.49
102_I106_V1.7960.49
40_K97_Y1.6560.43
65_L69_K1.6200.42
44_K76_E1.5920.40
71_A110_L1.5840.40
27_R31_G1.5650.39
63_K87_V1.4960.37
4_L37_L1.4860.36
30_A56_K1.4340.34
16_L39_L1.4320.34
32_I47_I1.4120.34
25_F47_I1.3820.33
66_R82_T1.3730.32
16_L62_R1.3660.32
93_E100_P1.3500.31
14_R62_R1.3270.31
65_L79_E1.2900.29
107_S111_T1.2710.29
40_K44_K1.2530.28
101_R113_Y1.2510.28
20_M86_F1.2400.28
56_K60_E1.2290.27
83_L94_N1.2290.27
16_L104_E1.2200.27
41_H50_S1.2080.27
48_S62_R1.2040.27
100_P103_R1.1920.26
17_F104_E1.1910.26
12_I84_Y1.1870.26
70_I107_S1.1820.26
5_Q110_L1.1440.25
12_I65_L1.1440.25
2_P85_T1.1400.25
75_T87_V1.1390.25
59_M73_R1.1390.25
51_L54_A1.1240.24
102_I111_T1.1210.24
65_L115_F1.1070.24
50_S114_L1.1070.24
6_E76_E1.1060.24
65_L70_I1.1030.23
31_G54_A1.1030.23
13_E101_R1.0960.23
65_L111_T1.0740.23
84_Y116_A1.0650.22
61_V89_D1.0510.22
9_Y48_S1.0440.22
21_A112_Y1.0430.22
23_T27_R1.0270.21
22_I54_A1.0190.21
57_D70_I1.0190.21
12_I70_I1.0120.21
82_T99_N1.0060.21
40_K110_L0.9990.21
81_F93_E0.9980.21
50_S54_A0.9920.20
15_A55_Q0.9900.20
29_L35_S0.9790.20
21_A41_H0.9780.20
42_P64_E0.9780.20
59_M69_K0.9700.20
20_M97_Y0.9630.20
44_K72_I0.9520.19
14_R103_R0.9400.19
27_R35_S0.9190.19
11_L48_S0.9190.19
57_D113_Y0.9150.18
1_M81_F0.9140.18
79_E86_F0.9140.18
39_L46_L0.8900.18
74_E84_Y0.8860.18
64_E69_K0.8840.18
80_A111_T0.8810.18
64_E68_R0.8540.17
10_D56_K0.8430.17
66_R89_D0.8410.17
56_K91_Y0.8410.17
57_D65_L0.8370.17
41_H102_I0.8280.16
39_L78_D0.8260.16
36_T44_K0.8170.16
68_R73_R0.8170.16
4_L50_S0.8070.16
32_I40_K0.8070.16
5_Q104_E0.8060.16
8_I89_D0.8050.16
14_R61_V0.8040.16
19_P57_D0.8010.16
45_Q57_D0.8000.16
22_I83_L0.7950.16
36_T63_K0.7940.16
25_F70_I0.7910.16
8_I95_H0.7900.16
32_I70_I0.7900.16
70_I85_T0.7860.15
25_F51_L0.7810.15
54_A106_V0.7800.15
86_F97_Y0.7790.15
24_I34_E0.7780.15
15_A19_P0.7770.15
96_R105_Q0.7620.15
25_F114_L0.7500.15
13_E97_Y0.7420.15
56_K67_K0.7150.14
17_F113_Y0.7140.14
11_L68_R0.7120.14
30_A62_R0.7080.14
52_K55_Q0.7050.14
24_I89_D0.7040.14
7_E63_K0.6980.14
77_R111_T0.6940.14
80_A102_I0.6900.14
19_P101_R0.6890.14
38_K103_R0.6780.13
55_Q91_Y0.6730.13
81_F99_N0.6720.13
30_A66_R0.6650.13
14_R24_I0.6640.13
41_H94_N0.6520.13
17_F54_A0.6490.13
24_I27_R0.6470.13
26_N51_L0.6440.13
24_I69_K0.6370.13
18_L27_R0.6340.13
47_I57_D0.6330.12
32_I35_S0.6300.12
15_A62_R0.6300.12
45_Q67_K0.6230.12
84_Y102_I0.6100.12
46_L57_D0.6020.12
51_L91_Y0.5930.12
27_R55_Q0.5930.12
84_Y96_R0.5880.12
32_I42_P0.5880.12
69_K91_Y0.5820.12
77_R102_I0.5780.12
43_Y46_L0.5770.12
10_D82_T0.5730.11
80_A83_L0.5710.11
47_I114_L0.5700.11
29_L116_A0.5700.11
7_E69_K0.5640.11
54_A66_R0.5560.11
9_Y72_I0.5550.11
71_A78_D0.5540.11
54_A61_V0.5540.11
112_Y116_A0.5510.11
13_E109_L0.5510.11
8_I50_S0.5450.11
74_E102_I0.5400.11
33_E56_K0.5400.11
92_E106_V0.5360.11
15_A25_F0.5360.11
25_F49_E0.5350.11
6_E11_L0.5320.11
6_E65_L0.5230.11
70_I74_E0.5110.10
3_N96_R0.5100.10
85_T116_A0.5090.10
100_P106_V0.5030.10
44_K84_Y0.5000.10
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  
4bouA 2 0.4917 6.1 0.95 Contact Map
4d7sA 3 0.6083 6.1 0.95 Contact Map
3uknA 2 0.5917 5.3 0.951 Contact Map
4ltoA 3 0.5417 4.9 0.952 Contact Map
3vn0A 2 0.3583 4.9 0.952 Contact Map
1pp9F 1 0.5 4.7 0.952 Contact Map
2ptmA 3 0.6083 4.1 0.954 Contact Map
1mw9X 1 0.5917 3.7 0.955 Contact Map
1th5A 1 0.5417 3.6 0.955 Contact Map
4cbcA 3 0.2417 3.4 0.955 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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