GREMLIN Database
B12D - NADH-ubiquinone reductase complex 1 MLRQ subunit
PFAM: PF06522 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 69 (65)
Sequences: 1040 (720)
Seq/√Len: 89.3
META: 0.431

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
27_A35_W3.8421.00
22_Y26_L3.1201.00
23_L27_A2.8421.00
17_G21_F2.5811.00
10_A14_A2.3601.00
9_F13_G2.1301.00
5_L8_L1.8941.00
26_L35_W1.8781.00
61_D64_K1.8571.00
26_L30_N1.8351.00
12_V19_A1.7981.00
24_V28_L1.7681.00
60_R63_S1.7341.00
16_V20_A1.7251.00
14_A17_G1.6771.00
11_I15_A1.6501.00
18_G21_F1.4660.99
47_L51_E1.3960.99
36_N39_N1.3710.99
16_V19_A1.3530.99
62_F66_K1.2480.98
42_E45_N1.2450.98
11_I18_G1.2420.98
19_A23_L1.2210.98
8_L11_I1.1940.98
48_D51_E1.1790.98
21_F24_V1.1240.97
44_W49_P1.0580.95
21_F25_R1.0190.94
14_A18_G1.0180.94
2_H5_L1.0040.94
47_L53_G0.9700.93
8_L15_A0.9640.93
40_N44_W0.9640.93
28_L35_W0.9630.92
26_L33_V0.9310.91
25_R30_N0.9270.91
6_I9_F0.9210.91
29_R47_L0.9160.90
63_S66_K0.8890.89
2_H15_A0.8530.87
17_G34_V0.8430.86
20_A45_N0.8390.86
5_L9_F0.8340.86
47_L52_Q0.8250.85
46_V49_P0.8240.85
11_I14_A0.8040.84
4_E7_P0.7880.83
23_L26_L0.7630.80
31_P53_G0.7430.79
18_G36_N0.7420.79
59_N63_S0.7190.76
5_L15_A0.7100.75
61_D65_L0.7100.75
22_Y27_A0.7030.75
45_N48_D0.7020.75
49_P52_Q0.6910.73
17_G20_A0.6710.71
22_Y55_F0.6540.69
41_P55_F0.6500.69
52_Q57_S0.6450.68
42_E49_P0.6350.67
17_G63_S0.6320.67
42_E46_V0.6250.66
36_N46_V0.6230.66
58_V64_K0.6210.65
54_K57_S0.6200.65
15_A32_D0.6160.65
62_F65_L0.6060.63
19_A55_F0.6030.63
30_N53_G0.6000.63
36_N41_P0.5990.63
8_L57_S0.5930.62
51_E54_K0.5880.61
46_V51_E0.5770.60
57_S64_K0.5760.60
12_V17_G0.5710.59
31_P40_N0.5690.59
30_N33_V0.5680.59
15_A20_A0.5650.58
35_W39_N0.5640.58
11_I66_K0.5640.58
6_I56_Y0.5560.57
14_A37_K0.5550.57
60_R65_L0.5520.56
29_R32_D0.5480.56
6_I60_R0.5470.56
8_L30_N0.5440.55
40_N46_V0.5420.55
3_P51_E0.5390.55
34_V46_V0.5380.55
17_G24_V0.5300.53
60_R64_K0.5240.53
16_V50_N0.5160.52
32_D56_Y0.5040.50
19_A61_D0.5030.50
6_I37_K0.5010.49
6_I40_N0.5000.49
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  
2losA 1 0.4493 9.8 0.871 Contact Map
2y69J 1 0.4348 8.3 0.875 Contact Map
1v54J 1 0.4493 6.6 0.881 Contact Map
4um9B 2 0 6.2 0.882 Contact Map
2j5lA 1 0 5.8 0.883 Contact Map
1xu0A 1 0.6522 5.4 0.885 Contact Map
4kmlA 1 0.7536 4.1 0.892 Contact Map
2looA 1 0.3913 3.9 0.893 Contact Map
1u3mA 1 0.7246 3.4 0.896 Contact Map
1u5lA 1 0.7391 3.3 0.896 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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