GREMLIN Database
Ycf66_N - Ycf66 protein N-terminus
PFAM: PF07444 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 76 (75)
Sequences: 600 (322)
Seq/√Len: 37.2
META: 0.747

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
11_G36_G3.4261.00
50_L54_L2.4881.00
51_D54_L2.4521.00
47_G51_D2.3141.00
12_L16_F2.1370.99
18_R27_D2.0440.99
46_Q53_I1.9820.98
28_Y31_F1.9110.98
48_W52_P1.8370.97
36_G70_W1.7640.97
5_I23_E1.7440.97
48_W54_L1.7330.96
35_V66_I1.6420.95
49_R52_P1.6140.95
42_I48_W1.6020.94
15_Y22_P1.5990.94
48_W51_D1.5030.92
18_R25_S1.4860.92
35_V60_L1.4480.91
6_A12_L1.4260.90
47_G54_L1.3950.89
46_Q54_L1.3880.89
28_Y68_F1.3760.88
8_A19_F1.3730.88
47_G52_P1.3100.86
8_A40_G1.3050.86
61_L67_F1.2950.85
46_Q51_D1.2750.84
53_I56_F1.2480.83
2_L6_A1.1990.80
56_F60_L1.1920.80
49_R54_L1.1860.79
26_R71_E1.1640.78
4_G40_G1.1180.75
55_L70_W1.0750.72
42_I46_Q1.0390.70
68_F72_T1.0330.69
48_W53_I1.0320.69
2_L74_R1.0230.69
65_L68_F0.9760.65
9_L20_F0.9280.61
61_L65_L0.9250.61
37_L50_L0.9240.61
59_V70_W0.9140.60
54_L58_Q0.9090.59
19_F32_W0.8960.58
3_L58_Q0.8860.57
17_L23_E0.8830.57
42_I51_D0.8780.57
7_L62_V0.8640.55
11_G40_G0.8510.54
35_V63_G0.8490.54
39_Y46_Q0.8430.54
3_L6_A0.8340.53
34_A62_V0.8190.51
16_F40_G0.8170.51
4_G11_G0.8170.51
2_L8_A0.8060.50
10_G24_L0.7870.49
4_G56_F0.7840.48
40_G63_G0.7770.48
14_L21_R0.7700.47
11_G33_S0.7630.46
6_A57_G0.7500.45
73_I76_R0.7460.45
61_L66_I0.7430.45
17_L60_L0.7340.44
41_L50_L0.7200.43
16_F37_L0.7150.42
28_Y67_F0.7140.42
67_F71_E0.7130.42
30_I33_S0.7080.42
43_L58_Q0.7040.41
26_R43_L0.7000.41
7_L31_F0.6790.39
33_S63_G0.6750.39
13_A53_I0.6710.39
2_L5_I0.6710.39
9_L12_L0.6660.38
18_R32_W0.6610.38
71_E75_L0.6600.38
33_S73_I0.6550.37
34_A37_L0.6390.36
4_G66_I0.6270.35
53_I59_V0.6250.35
68_F73_I0.6060.33
3_L44_W0.6030.33
42_I56_F0.6000.33
30_I36_G0.5990.33
42_I52_P0.5990.33
45_F53_I0.5970.33
26_R32_W0.5910.32
10_G69_G0.5890.32
40_G45_F0.5840.32
7_L28_Y0.5810.31
35_V43_L0.5800.31
21_R24_L0.5660.30
6_A11_G0.5650.30
40_G46_Q0.5650.30
9_L16_F0.5650.30
7_L39_Y0.5620.30
7_L10_G0.5550.29
55_L58_Q0.5510.29
15_Y18_R0.5500.29
21_R26_R0.5360.28
47_G58_Q0.5320.28
6_A10_G0.5190.27
4_G18_R0.5170.27
47_G53_I0.5150.27
25_S30_I0.5100.26
32_W64_L0.5070.26
30_I56_F0.5000.26
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  
3wajA 1 0.9342 8.1 0.891 Contact Map
3rceA 1 0.9211 6.5 0.896 Contact Map
4xnjA 1 0.3158 3.8 0.907 Contact Map
3pjzA 2 0.9868 3.3 0.91 Contact Map
3ne5A 3 0.8947 3.1 0.911 Contact Map
1cd1A 1 0 2.8 0.913 Contact Map
4o9uB 2 0.8947 2.8 0.913 Contact Map
3j1zP 8 0.9474 2.5 0.915 Contact Map
1xioA 2 0.6974 2.4 0.916 Contact Map
4mt1A 3 0.9605 2.2 0.918 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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