GREMLIN Database
Q9HMD0 - Thioredoxin
UniProt: Q9HMD0 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 89 (83)
Sequences: 5052 (3258)
Seq/√Len: 357.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
41_V48_A4.0401.00
4_T35_S2.6361.00
60_V70_R2.4891.00
13_C16_C2.4561.00
76_Q79_Q2.3191.00
22_I77_R2.2391.00
74_V79_Q2.2141.00
5_L23_L2.1651.00
4_T37_E2.0991.00
7_D38_K2.0831.00
25_E77_R2.0221.00
29_D77_R1.9731.00
22_I25_E1.9501.00
51_Y62_E1.8701.00
39_I47_V1.8681.00
26_L36_F1.8641.00
7_D20_D1.7571.00
29_D81_E1.6991.00
5_L59_I1.6991.00
23_L36_F1.5341.00
26_L80_L1.5081.00
20_D24_E1.4971.00
19_Q80_L1.4731.00
26_L81_E1.4181.00
26_L77_R1.3551.00
6_K62_E1.3521.00
34_V84_I1.3421.00
30_Y81_E1.2981.00
20_D38_K1.2621.00
61_V83_A1.2281.00
19_Q22_I1.2101.00
40_D43_E1.1521.00
24_E38_K1.1471.00
22_I76_Q1.1421.00
30_Y85_E1.1201.00
19_Q59_I1.1161.00
22_I26_L1.1061.00
11_D40_D1.0921.00
41_V56_I1.0781.00
9_Y38_K1.0591.00
44_A47_V1.0331.00
79_Q82_D1.0291.00
61_V84_I1.0231.00
78_E82_D1.0041.00
7_D19_Q0.9991.00
26_L30_Y0.9971.00
47_V50_E0.9141.00
18_T22_I0.9101.00
71_F83_A0.8571.00
11_D42_D0.8511.00
15_P55_S0.8321.00
48_A51_Y0.8221.00
42_D45_E0.8031.00
5_L36_F0.7751.00
45_E48_A0.7751.00
30_Y36_F0.7711.00
53_V56_I0.7671.00
60_V68_V0.7651.00
7_D15_P0.7451.00
5_L84_I0.7441.00
81_E85_E0.7381.00
60_V67_V0.7351.00
8_F53_V0.7321.00
39_I48_A0.7291.00
14_G18_T0.7291.00
73_G79_Q0.7251.00
77_R81_E0.7100.99
63_N66_G0.7090.99
6_K37_E0.7060.99
47_V51_Y0.7040.99
27_E36_F0.6980.99
12_W17_K0.6960.99
8_F51_Y0.6920.99
71_F74_V0.6850.99
23_L59_I0.6830.99
23_L84_I0.6790.99
7_D23_L0.6550.99
15_P75_T0.6480.99
39_I44_A0.6460.99
5_L80_L0.6350.99
33_D64_D0.6340.99
53_V58_T0.6320.99
19_Q23_L0.6240.99
15_P18_T0.6200.98
28_A63_N0.6180.98
10_A42_D0.6130.98
67_V70_R0.6110.98
19_Q75_T0.6110.98
12_W42_D0.5970.98
10_A13_C0.5920.98
14_G17_K0.5910.98
72_V78_E0.5880.98
25_E29_D0.5750.97
77_R80_L0.5710.97
25_E28_A0.5710.97
59_I80_L0.5700.97
13_C58_T0.5700.97
14_G21_P0.5650.97
55_S75_T0.5650.97
45_E49_N0.5620.97
46_D50_E0.5610.97
62_E68_V0.5590.97
29_D33_D0.5590.97
39_I46_D0.5540.97
14_G55_S0.5520.97
69_E83_A0.5520.97
42_D56_I0.5510.97
9_Y13_C0.5500.97
34_V61_V0.5410.96
8_F41_V0.5400.96
34_V38_K0.5390.96
11_D43_E0.5370.96
71_F79_Q0.5360.96
29_D85_E0.5330.96
51_Y60_V0.5290.96
82_D85_E0.5280.96
27_E30_Y0.5260.96
8_F62_E0.5260.96
50_E62_E0.5200.95
6_K39_I0.5180.95
10_A21_P0.5170.95
82_D86_S0.5080.95
33_D85_E0.5030.95
10_A16_C0.5000.94
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  
3f8uA 2 1 99.8 0.169 Contact Map
3apoA 1 0.9101 99.8 0.176 Contact Map
2r2jA 2 1 99.8 0.187 Contact Map
2b5eA 1 1 99.8 0.189 Contact Map
4ekzA 1 1 99.8 0.216 Contact Map
3ed3A 1 1 99.8 0.223 Contact Map
1sjiA 2 0.9888 99.7 0.23 Contact Map
3us3A 2 0.9888 99.7 0.232 Contact Map
3uemA 1 0.9775 99.7 0.236 Contact Map
4i6xA 1 0.9888 99.7 0.238 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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