GREMLIN Database
YEED - UPF0033 protein YeeD
UniProt: P33014 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11894
Length: 75 (71)
Sequences: 108 (65)
Seq/√Len: 7.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
17_L42_A3.1010.88
56_A73_Q2.9330.85
12_V40_T2.8830.84
24_L27_M2.1120.61
12_V37_F2.0390.58
21_K46_I2.0080.56
58_T73_Q1.9710.55
8_V60_Y1.9420.54
37_F40_T1.9270.53
12_V45_A1.9030.52
5_K36_E1.8380.50
7_D36_E1.8230.49
24_L46_I1.5780.39
40_T45_A1.5430.38
7_D11_Q1.5020.36
59_D69_S1.3890.32
44_E67_A1.3390.31
10_T60_Y1.3310.30
55_H73_Q1.2830.29
17_L21_K1.2650.28
32_E73_Q1.2580.28
20_A33_L1.2490.28
38_D41_Q1.2400.27
9_V36_E1.2370.27
4_K28_V1.2130.26
5_K8_V1.1600.25
52_E61_Q1.1260.24
25_A32_E1.1210.24
11_Q69_S1.1120.23
48_Q67_A1.1070.23
4_K8_V1.0990.23
32_E69_S1.0560.22
40_T72_V1.0500.22
21_K48_Q1.0360.21
52_E73_Q1.0310.21
11_Q25_A1.0300.21
48_Q52_E1.0190.21
5_K46_I1.0040.20
48_Q73_Q0.9930.20
24_L53_E0.9790.20
37_F70_I0.9740.20
22_A45_A0.9630.19
61_Q69_S0.9620.19
44_E48_Q0.9380.19
11_Q23_A0.9380.19
9_V67_A0.9180.18
11_Q44_E0.9040.18
34_V58_T0.8870.18
55_H69_S0.8790.17
36_E63_I0.8770.17
11_Q34_V0.8710.17
23_A26_E0.8590.17
20_A35_I0.8500.17
26_E72_V0.8450.17
18_I67_A0.8420.17
62_Q65_D0.8320.16
63_I67_A0.8270.16
12_V72_V0.8270.16
53_E56_A0.8200.16
29_S45_A0.8080.16
11_Q31_D0.7960.16
23_A54_G0.7630.15
46_I57_I0.7360.14
5_K28_V0.7220.14
25_A29_S0.7200.14
37_F45_A0.7060.14
9_V29_S0.7060.14
53_E65_D0.6950.13
11_Q67_A0.6890.13
15_F19_E0.6880.13
17_L51_A0.6820.13
26_E44_E0.6770.13
19_E22_A0.6740.13
17_L53_E0.6630.13
25_A53_E0.6600.13
5_K52_E0.6530.13
31_D69_S0.6490.13
56_A72_V0.6480.13
44_E74_K0.6430.13
17_L66_A0.6420.13
34_V48_Q0.6420.13
45_A74_K0.6280.12
34_V56_A0.6200.12
36_E42_A0.6150.12
45_A62_Q0.6130.12
5_K64_G0.6120.12
7_D42_A0.6020.12
51_A66_A0.5930.12
27_M59_D0.5920.12
40_T46_I0.5890.12
35_I72_V0.5870.12
31_D71_T0.5580.11
12_V15_F0.5570.11
18_I72_V0.5550.11
22_A59_D0.5550.11
48_Q72_V0.5520.11
23_A34_V0.5470.11
34_V72_V0.5450.11
57_I65_D0.5380.11
28_V63_I0.5350.11
4_K64_G0.5310.11
4_K21_K0.5300.11
34_V55_H0.5220.11
25_A52_E0.5190.11
52_E63_I0.5000.10
35_I42_A0.5000.10
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  
1jdqA 1 1 99.6 0.589 Contact Map
1je3A 1 0.9733 99.5 0.611 Contact Map
3lvjC 1 0.9867 99.5 0.615 Contact Map
1pavA 1 0.9867 99.5 0.619 Contact Map
3hz7A 1 0.96 99.5 0.619 Contact Map
2lxrA 1 0.9333 99.3 0.654 Contact Map
1okgA 1 0.72 96.6 0.828 Contact Map
3fryA 2 0.8 21.1 0.926 Contact Map
2l3mA 1 0.7733 18.3 0.928 Contact Map
3qq5A 3 0.92 17.4 0.928 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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