GREMLIN Database
NDUF_B7 - NADH-ubiquinone oxidoreductase B18 subunit (NDUFB7)
PFAM: PF05676 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 63 (61)
Sequences: 663 (452)
Seq/√Len: 57.8
META: 0.528

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
5_E9_A3.3601.00
3_T6_E2.9451.00
2_A25_I2.7721.00
19_Y22_H2.7651.00
7_M12_L2.3751.00
7_M21_A2.2841.00
34_N40_K2.2471.00
46_H49_E2.0511.00
55_D62_E2.0121.00
57_V61_K1.9321.00
43_H47_A1.7990.99
43_H46_H1.7030.99
50_K54_E1.4200.97
55_D58_R1.3860.96
27_L38_P1.3420.96
45_R49_E1.2220.93
58_R62_E1.1960.92
28_N49_E1.1640.91
19_Y58_R1.1420.90
19_Y55_D1.1420.90
7_M10_A1.1340.90
10_A29_K1.1300.90
56_Y60_M1.1120.89
56_Y59_R1.1080.89
12_L24_L1.0970.88
27_L49_E1.0860.88
2_A19_Y1.0150.84
24_L27_L1.0100.84
24_L48_Y0.9960.83
23_L26_P0.9910.83
23_L48_Y0.9880.83
47_A50_K0.9750.82
18_D52_Q0.9720.82
28_N31_R0.9720.82
35_F38_P0.9670.81
29_K33_E0.9470.80
31_R38_P0.9470.80
12_L15_A0.9420.79
5_E8_K0.9300.79
4_Q14_L0.9240.78
37_L40_K0.9110.77
55_D59_R0.8430.71
55_D61_K0.8300.70
44_E53_Y0.8230.70
24_L28_N0.8140.69
14_L35_F0.8020.68
31_R49_E0.7860.66
32_R36_Y0.7760.65
57_V60_M0.7710.64
16_Y50_K0.7630.64
2_A12_L0.7500.62
31_R53_Y0.7330.61
34_N44_E0.7100.58
19_Y57_V0.7080.58
52_Q55_D0.7000.57
12_L16_Y0.6980.57
27_L31_R0.6960.57
10_A25_I0.6900.56
11_K16_Y0.6790.55
21_A42_E0.6740.54
22_H58_R0.6630.53
6_E10_A0.6610.53
35_F40_K0.6610.53
28_N48_Y0.6440.51
8_K29_K0.6440.51
8_K14_L0.6440.51
6_E9_A0.6300.49
3_T10_A0.6120.47
24_L52_Q0.6020.46
19_Y61_K0.5890.45
53_Y57_V0.5840.44
41_C51_C0.5800.44
26_P39_W0.5710.43
31_R39_W0.5700.43
8_K11_K0.5690.43
42_E58_R0.5640.42
38_P44_E0.5610.42
42_E45_R0.5570.41
27_L39_W0.5510.41
23_L47_A0.5500.41
47_A54_E0.5440.40
11_K35_F0.5430.40
19_Y47_A0.5430.40
28_N38_P0.5380.39
34_N45_R0.5360.39
32_R35_F0.5340.39
34_N54_E0.5230.38
25_I29_K0.5220.38
29_K48_Y0.5200.38
9_A25_I0.5160.37
19_Y54_E0.5110.37
23_L44_E0.5000.35
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  
1ei0A 1 0.6032 11.2 0.891 Contact Map
2lqtA 1 0.7302 6.2 0.902 Contact Map
3nppA 4 0.3333 3.4 0.914 Contact Map
3j61L 1 0.7302 2.9 0.917 Contact Map
3j39L 1 0.7302 2.9 0.917 Contact Map
4w20L 1 0.7302 2.6 0.919 Contact Map
3zf7N 1 0.7302 2.6 0.919 Contact Map
2lqlA 1 0.873 2.5 0.919 Contact Map
4a18U 1 0.7302 2.5 0.919 Contact Map
4uf0A 2 0.9524 2.5 0.919 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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