GREMLIN Database
YIFE - UPF0438 protein YifE
UniProt: P0ADN2 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11450
Length: 112 (100)
Sequences: 192 (119)
Seq/√Len: 11.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
41_A50_R5.1111.00
31_E80_K4.6721.00
42_F74_A2.8800.94
44_E50_R2.3700.86
22_S70_P2.3110.84
10_R28_T2.1950.81
14_N28_T2.1460.79
17_Y42_F1.8130.66
63_V75_E1.7680.64
34_L77_V1.7360.63
24_H33_Q1.7350.63
36_E50_R1.7110.62
34_L74_A1.6790.60
7_T73_E1.6210.57
19_R28_T1.6150.57
12_F33_Q1.5830.56
31_E89_K1.5830.56
50_R53_V1.5520.54
16_H85_I1.4590.49
88_P92_H1.3830.46
38_H73_E1.3450.44
38_H41_A1.3310.43
7_T32_A1.3300.43
90_R94_L1.3290.43
57_E60_F1.3190.42
70_P75_E1.3090.42
102_E106_D1.3070.42
56_E72_T1.2880.41
63_V92_H1.2850.41
16_H62_A1.2780.40
48_G57_E1.2780.40
46_D64_C1.2540.39
30_K76_R1.2380.39
21_F78_W1.2320.38
46_D70_P1.2310.38
12_F93_T1.2120.37
42_F48_G1.1970.37
17_Y24_H1.1820.36
36_E41_A1.1790.36
24_H27_F1.1450.34
28_T95_S1.1310.34
41_A44_E1.1080.33
63_V79_S1.1020.32
76_R97_G1.1010.32
12_F28_T1.0980.32
19_R93_T1.0950.32
70_P83_T1.0580.30
52_P60_F1.0510.30
59_L68_R1.0480.30
47_L55_E1.0430.30
44_E53_V0.9950.28
58_K101_V0.9890.28
83_T87_R0.9870.28
75_E95_S0.9850.27
96_G99_P0.9780.27
11_Y85_I0.9600.26
61_V103_G0.9590.26
18_P66_G0.9470.26
28_T60_F0.9450.26
19_R92_H0.9340.25
15_K61_V0.9300.25
43_N47_L0.9220.25
53_V59_L0.9110.25
43_N46_D0.8810.23
46_D92_H0.8740.23
66_G76_R0.8700.23
7_T40_Y0.8550.23
34_L57_E0.8510.22
31_E64_C0.8450.22
51_E102_E0.8450.22
36_E54_T0.8360.22
11_Y30_K0.8350.22
12_F106_D0.8340.22
16_H23_R0.8290.22
26_D84_R0.8230.21
56_E75_E0.8200.21
46_D54_T0.8190.21
38_H49_K0.8160.21
12_F56_E0.8100.21
103_G106_D0.8010.21
17_Y88_P0.7950.21
50_R57_E0.7820.20
22_S88_P0.7760.20
17_Y84_R0.7750.20
66_G92_H0.7540.19
41_A95_S0.7500.19
23_R36_E0.7460.19
56_E68_R0.7370.19
23_R32_A0.7320.19
55_E67_E0.7270.18
91_F96_G0.7240.18
84_R94_L0.7150.18
46_D82_M0.7090.18
21_F75_E0.7030.18
19_R82_M0.7000.18
28_T90_R0.6990.18
77_V88_P0.6960.18
23_R86_K0.6910.17
72_T78_W0.6810.17
58_K62_A0.6800.17
69_E76_R0.6760.17
52_P61_V0.6750.17
15_K68_R0.6750.17
63_V70_P0.6740.17
10_R76_R0.6730.17
96_G105_E0.6670.17
64_C77_V0.6660.17
54_T99_P0.6590.16
9_N33_Q0.6580.16
60_F90_R0.6490.16
44_E103_G0.6470.16
41_A57_E0.6380.16
51_E106_D0.6300.16
18_P56_E0.6230.15
26_D44_E0.6220.15
97_G102_E0.6190.15
51_E68_R0.6130.15
29_I75_E0.6110.15
29_I54_T0.6060.15
14_N60_F0.6040.15
58_K79_S0.6040.15
80_K89_K0.5990.15
17_Y34_L0.5910.15
37_R86_K0.5910.15
7_T41_A0.5900.15
82_M86_K0.5890.15
7_T27_F0.5880.15
55_E62_A0.5870.15
7_T29_I0.5860.15
56_E103_G0.5860.15
42_F60_F0.5790.14
21_F100_Q0.5790.14
52_P64_C0.5730.14
15_K89_K0.5650.14
59_L72_T0.5630.14
67_E71_V0.5610.14
32_A101_V0.5580.14
85_I94_L0.5560.14
46_D94_L0.5540.14
17_Y27_F0.5530.14
23_R46_D0.5510.14
14_N43_N0.5480.14
84_R87_R0.5390.13
69_E83_T0.5380.13
54_T75_E0.5320.13
23_R41_A0.5290.13
19_R90_R0.5160.13
18_P59_L0.5130.13
37_R77_V0.5090.13
28_T36_E0.5000.13
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  
3e6pL 1 0.3393 11 0.942 Contact Map
2qdjA 1 0.4375 7.3 0.947 Contact Map
4krdB 1 0.6071 6.3 0.948 Contact Map
1wgxA 1 0.6518 5.7 0.949 Contact Map
4eljA 1 0.3571 4.3 0.952 Contact Map
2hpiA 2 0.875 3.8 0.954 Contact Map
2j7aA 5 0.8393 3.7 0.954 Contact Map
4p6zV 1 0.0089 3.2 0.955 Contact Map
1l0oC 1 0 2.8 0.957 Contact Map
4c9rA 2 0.5 2.8 0.957 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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