GREMLIN Database
MadM - Malonate/sodium symporter MadM subunit
PFAM: PF03818 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 59 (59)
Sequences: 1339 (846)
Seq/√Len: 110.1
META: 0.875

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
28_W32_K3.0821.00
27_Y40_G2.7671.00
12_L16_F2.3511.00
22_I51_L2.2801.00
54_V58_V2.2071.00
50_V54_V2.1691.00
5_K9_K2.0281.00
7_L14_T1.9711.00
16_F19_V1.7191.00
51_L55_G1.6771.00
24_W28_W1.6381.00
29_L33_L1.5341.00
13_V53_Y1.5031.00
4_E8_T1.3951.00
26_S43_I1.3771.00
1_E4_E1.2890.99
25_L47_I1.2800.99
46_L50_V1.2570.99
23_M27_Y1.2490.99
36_G39_H1.2050.99
8_T11_G1.1980.99
13_V23_M1.1630.99
31_K36_G1.1180.98
38_I46_L1.0990.98
5_K11_G1.0880.98
55_G58_V1.0670.98
26_S44_A1.0530.97
18_V22_I1.0500.97
30_S34_T1.0450.97
27_Y31_K1.0350.97
56_G59_T1.0030.97
34_T39_H0.9870.96
22_I48_G0.9840.96
23_M42_A0.9620.96
3_L14_T0.9570.96
47_I50_V0.9470.95
28_W31_K0.9380.95
27_Y39_H0.9190.94
13_V17_A0.9190.94
34_T48_G0.8910.94
5_K8_T0.8830.93
15_A18_V0.8760.93
41_S53_Y0.8630.92
17_A36_G0.8620.92
6_V9_K0.8620.92
14_T43_I0.8320.91
53_Y57_V0.8230.91
22_I26_S0.8070.90
47_I51_L0.7790.88
24_W27_Y0.7660.87
21_L37_R0.7480.86
37_R46_L0.7460.86
19_V55_G0.7400.85
12_L19_V0.7390.85
29_L47_I0.7280.84
17_A21_L0.7210.84
44_A55_G0.7100.83
29_L34_T0.7030.82
15_A19_V0.7000.82
12_L15_A0.6950.81
20_G39_H0.6780.80
30_S36_G0.6670.79
23_M26_S0.6580.78
4_E46_L0.6320.75
17_A41_S0.6230.74
28_W58_V0.6150.73
17_A39_H0.6140.73
7_L15_A0.6010.71
4_E7_L0.5920.70
2_I5_K0.5890.70
14_T39_H0.5880.70
20_G57_V0.5860.69
35_R53_Y0.5830.69
20_G30_S0.5780.68
41_S45_I0.5770.68
21_L28_W0.5700.67
6_V10_N0.5480.64
22_I47_I0.5430.64
1_E9_K0.5420.63
28_W50_V0.5370.63
10_N38_I0.5250.61
20_G33_L0.5200.60
18_V51_L0.5200.60
41_S54_V0.5150.59
9_K35_R0.5100.59
9_K13_V0.5040.58
10_N14_T0.5010.57
3_L7_L0.5000.57
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  
4bwzA 2 0.8136 6.9 0.888 Contact Map
4cz8A 2 0.8475 6.8 0.889 Contact Map
3qe7A 2 0.9153 6.3 0.89 Contact Map
2xq2A 2 0.7288 5.2 0.895 Contact Map
3ug9A 2 0.8644 3.9 0.9 Contact Map
4r2fA 1 0 3.7 0.902 Contact Map
3p5nA 2 0.9661 3.6 0.902 Contact Map
4czbA 2 0.8305 3.5 0.903 Contact Map
4mt1A 3 0.8475 3.3 0.904 Contact Map
4a01A 2 1 3.3 0.905 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.

Page generated in 0.004 seconds.