GREMLIN Database
NDUFA12 - NADH ubiquinone oxidoreductase subunit NDUFA12
PFAM: PF05071 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 96 (94)
Sequences: 8365 (4217)
Seq/√Len: 435.0
META: 0.865

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
3_L12_R5.2761.00
15_E23_E3.9911.00
3_L6_E3.7261.00
2_E15_E3.5921.00
39_V47_L3.1411.00
44_H48_H2.6741.00
74_L79_A2.5891.00
45_G51_V2.2431.00
16_S23_E2.2361.00
13_Y40_P2.0661.00
71_Q74_L2.0231.00
30_N38_R1.8761.00
16_S21_D1.8691.00
8_E69_P1.7991.00
9_F38_R1.7771.00
6_E12_R1.6001.00
1_G26_W1.5271.00
71_Q79_A1.5111.00
34_A38_R1.4041.00
82_R86_S1.3911.00
44_H50_T1.3751.00
82_R88_R1.3051.00
45_G50_T1.2971.00
8_E42_E1.2861.00
64_R67_Q1.2341.00
54_P57_E1.1911.00
68_K71_Q1.1751.00
16_S22_R1.1681.00
23_E49_H1.1551.00
38_R72_P1.1411.00
56_T59_P1.1411.00
53_E57_E1.1261.00
24_R49_H1.1221.00
8_E40_P1.1201.00
19_K23_E1.1181.00
32_G38_R1.1071.00
59_P62_K1.0881.00
2_E17_K1.0431.00
42_E50_T1.0191.00
86_S90_K1.0161.00
43_W54_P0.9901.00
18_K22_R0.9841.00
18_K21_D0.9511.00
63_P67_Q0.9461.00
41_P44_H0.9451.00
36_A39_V0.9451.00
41_P70_H0.9391.00
73_N76_G0.9351.00
84_P87_L0.9301.00
79_A84_P0.9241.00
53_E58_E0.9221.00
53_E61_L0.9161.00
42_E63_P0.9091.00
58_E61_L0.9011.00
9_F40_P0.8981.00
84_P90_K0.8951.00
33_E38_R0.8941.00
36_A48_H0.8931.00
22_R49_H0.8851.00
49_H52_D0.8851.00
77_T80_A0.8501.00
4_V54_P0.8461.00
42_E61_L0.8311.00
9_F70_H0.8281.00
51_V61_L0.8091.00
61_L64_R0.7971.00
15_E49_H0.7921.00
18_K23_E0.7911.00
39_V44_H0.7831.00
51_V54_P0.7821.00
4_V15_E0.7811.00
61_L67_Q0.7631.00
91_Y94_W0.7601.00
30_N33_E0.7481.00
16_S19_K0.7421.00
5_G43_W0.7351.00
55_P87_L0.7211.00
36_A44_H0.7201.00
82_R85_G0.7171.00
74_L77_T0.7161.00
3_L14_Y0.7161.00
87_L92_E0.7111.00
61_L65_P0.6931.00
35_E73_N0.6801.00
47_L50_T0.6791.00
58_E62_K0.6761.00
14_Y28_I0.6701.00
53_E59_P0.6601.00
51_V55_P0.6510.99
37_S70_H0.6370.99
93_A96_P0.6340.99
17_K23_E0.6340.99
84_P88_R0.6300.99
81_Y84_P0.6280.99
84_P89_K0.6260.99
77_T83_P0.6250.99
73_N77_T0.6230.99
16_S20_I0.6190.99
37_S75_T0.6150.99
6_E30_N0.6040.99
66_W72_P0.5980.99
45_G48_H0.5970.99
2_E16_S0.5970.99
63_P69_P0.5950.99
87_L90_K0.5910.99
37_S73_N0.5900.99
11_N27_V0.5890.99
86_S92_E0.5890.99
54_P59_P0.5820.99
29_Y37_S0.5790.99
8_E57_E0.5780.99
88_R95_T0.5690.99
33_E78_P0.5650.99
53_E56_T0.5620.98
45_G55_P0.5600.98
78_P82_R0.5580.98
66_W75_T0.5570.98
19_K22_R0.5550.98
27_V39_V0.5540.98
29_Y49_H0.5500.98
77_T81_Y0.5430.98
7_D46_W0.5420.98
84_P95_T0.5410.98
12_R17_K0.5360.98
82_R87_L0.5340.98
66_W73_N0.5320.98
80_A83_P0.5310.98
16_S26_W0.5250.98
76_G80_A0.5220.98
39_V70_H0.5200.97
42_E67_Q0.5180.97
78_P84_P0.5160.97
58_E63_P0.5160.97
86_S89_K0.5130.97
16_S24_R0.5120.97
43_W46_W0.5100.97
15_E57_E0.5080.97
38_R79_A0.5040.97
36_A70_H0.5040.97
66_W70_H0.5020.97
85_G93_A0.5000.97
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  
2f5kA 3 0.6354 5.6 0.922 Contact Map
4op0A 1 0.3229 5.2 0.923 Contact Map
3bfmA 2 0.3229 4.6 0.925 Contact Map
4emkA 1 0.4479 4.5 0.925 Contact Map
4c92E 1 0.4688 4.1 0.927 Contact Map
1mgqA 3 0.4271 3.9 0.928 Contact Map
2jxwA 1 0.3021 3.9 0.928 Contact Map
2lrqA 1 0.5625 3.8 0.928 Contact Map
2dwvA 2 0.3438 3.6 0.929 Contact Map
1ywiA 1 0.2812 3.2 0.93 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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