GREMLIN Database
YDFQ - Thioredoxin-like protein YdfQ
UniProt: P96695 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 112 (100)
Sequences: 11833 (8096)
Seq/√Len: 809.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
59_A66_A2.5111.00
44_I95_F2.4631.00
8_H55_G2.1511.00
48_Q99_E2.1341.00
10_L64_E2.1141.00
14_E68_R2.0761.00
48_Q95_F2.0721.00
94_H97_Q2.0651.00
85_E88_R1.9681.00
78_L88_R1.9421.00
49_F99_E1.8291.00
99_E103_K1.7991.00
69_F80_F1.7421.00
58_N61_D1.6751.00
10_L65_V1.6651.00
42_L54_L1.6641.00
23_S53_K1.6451.00
78_L85_E1.6351.00
21_K53_K1.5971.00
59_A74_V1.5721.00
32_C35_C1.5521.00
14_E18_K1.5341.00
41_Q44_I1.5321.00
26_Y56_H1.5221.00
8_H16_F1.4971.00
12_S16_F1.4791.00
16_F53_K1.4681.00
9_S12_S1.4201.00
41_Q95_F1.4171.00
97_Q100_Q1.4041.00
89_E93_V1.4021.00
49_F103_K1.3951.00
87_L101_K1.3751.00
30_P58_N1.3721.00
10_L62_V1.3651.00
45_V54_L1.3191.00
24_F42_L1.3181.00
6_G16_F1.3101.00
24_F77_L1.2941.00
95_F99_E1.2881.00
22_F79_L1.2771.00
45_V99_E1.2761.00
38_V77_L1.2611.00
89_E101_K1.2231.00
23_S55_G1.2181.00
92_F97_Q1.1941.00
6_G53_K1.1131.00
45_V95_F1.1031.00
87_L105_V1.0671.00
79_L105_V1.0501.00
26_Y39_L1.0491.00
9_S62_V1.0291.00
16_F23_S1.0291.00
57_I65_V1.0241.00
63_A67_G1.0231.00
39_L43_R1.0101.00
93_V97_Q1.0051.00
38_V41_Q0.9951.00
79_L101_K0.9751.00
25_I80_F0.9751.00
39_L56_H0.9741.00
22_F81_I0.9621.00
28_S56_H0.9611.00
45_V49_F0.9321.00
7_L56_H0.9181.00
27_I69_F0.8911.00
81_I86_F0.8891.00
43_R56_H0.8751.00
37_A92_F0.8731.00
77_L98_L0.8711.00
38_V98_L0.8371.00
64_E68_R0.8341.00
42_L77_L0.8281.00
17_I23_S0.8271.00
41_Q94_H0.8131.00
52_I102_L0.8051.00
27_I71_V0.7931.00
100_Q103_K0.7931.00
13_I17_I0.7861.00
79_L102_L0.7851.00
38_V93_V0.7831.00
30_P60_D0.7721.00
15_N18_K0.7601.00
101_K105_V0.7581.00
46_L54_L0.7501.00
57_I66_A0.7491.00
7_L61_D0.7481.00
27_I59_A0.7431.00
8_H12_S0.7421.00
12_S55_G0.7391.00
28_S58_N0.7291.00
24_F54_L0.7291.00
45_V98_L0.7261.00
27_I78_L0.7221.00
96_E100_Q0.7141.00
20_H82_D0.7131.00
93_V101_K0.7091.00
49_F52_I0.7081.00
33_T36_H0.7011.00
12_S15_N0.6911.00
21_K82_D0.6891.00
41_Q45_V0.6861.00
44_I47_D0.6831.00
64_E67_G0.6811.00
51_N103_K0.6791.00
28_S74_V0.6751.00
25_I55_G0.6711.00
26_Y34_V0.6641.00
27_I57_I0.6601.00
72_F88_R0.6581.00
33_T37_A0.6421.00
47_D50_P0.6401.00
62_V65_V0.6371.00
80_F85_E0.6331.00
63_A66_A0.6281.00
30_P36_H0.6211.00
13_I69_F0.6201.00
13_I27_I0.6201.00
8_H25_I0.6141.00
13_I65_V0.6141.00
24_F79_L0.6081.00
101_K104_R0.6071.00
77_L89_E0.6051.00
65_V68_R0.6001.00
26_Y38_V0.5941.00
20_H23_S0.5941.00
16_F19_Q0.5881.00
31_G36_H0.5861.00
38_V42_L0.5831.00
24_F102_L0.5681.00
34_V37_A0.5641.00
38_V92_F0.5631.00
21_K51_N0.5591.00
34_V73_T0.5581.00
31_G60_D0.5521.00
7_L28_S0.5471.00
30_P61_D0.5441.00
24_F98_L0.5381.00
57_I62_V0.5381.00
96_E99_E0.5341.00
16_F55_G0.5331.00
10_L68_R0.5281.00
71_V76_V0.5221.00
19_Q53_K0.5171.00
102_L105_V0.5151.00
81_I84_T0.5141.00
7_L55_G0.5091.00
6_G55_G0.5041.00
70_S88_R0.5011.00
42_L102_L0.5001.00
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 0.9821 99.8 0.165 Contact Map
2r2jA 2 0.9554 99.8 0.169 Contact Map
2b5eA 1 1 99.8 0.178 Contact Map
3apoA 1 0.9286 99.8 0.185 Contact Map
4ekzA 1 1 99.8 0.204 Contact Map
3us3A 2 0.9911 99.8 0.223 Contact Map
1sjiA 2 0.9911 99.8 0.226 Contact Map
3ed3A 1 1 99.8 0.228 Contact Map
4kcaA 2 0.9643 99.8 0.241 Contact Map
3t58A 1 1 99.7 0.245 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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