GREMLIN Database
MlaD - MlaD protein
PFAM: PF02470 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 81 (78)
Sequences: 71733 (42937)
Seq/√Len: 4861.7
META: 0.822

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
20_P27_K3.3261.00
7_A47_L3.0051.00
6_T44_R2.9751.00
32_T48_R2.8361.00
8_Y44_R2.7991.00
6_T46_T2.2921.00
33_S46_T2.1731.00
4_T46_T2.1571.00
8_Y42_R1.9391.00
22_R75_Y1.8121.00
35_E46_T1.7261.00
4_T32_T1.7041.00
4_T48_R1.6051.00
66_R77_E1.5941.00
22_R27_K1.5721.00
23_I28_V1.5481.00
5_V47_L1.4911.00
7_A63_A1.4561.00
9_F45_V1.4441.00
63_A78_L1.3711.00
37_D44_R1.3261.00
17_P33_S1.3211.00
35_E44_R1.3121.00
53_K56_P1.3021.00
61_S78_L1.2821.00
32_T46_T1.2811.00
68_L73_E1.2451.00
58_P61_S1.1871.00
27_K30_R1.1801.00
18_G30_R1.1761.00
64_S79_D1.1751.00
66_R75_Y1.1231.00
67_T71_L1.1151.00
21_V47_L1.0751.00
39_D42_R1.0611.00
2_G48_R1.0391.00
19_A73_E1.0331.00
37_D42_R1.0211.00
64_S77_E1.0031.00
8_Y37_D0.9991.00
12_A34_I0.9931.00
20_P68_L0.9671.00
15_L45_V0.9601.00
10_D42_R0.9111.00
67_T74_K0.9021.00
62_R79_D0.8951.00
57_I78_L0.8871.00
16_K19_A0.8851.00
47_L76_V0.8621.00
22_R68_L0.8611.00
65_I74_K0.8561.00
15_L19_A0.8481.00
69_G73_E0.8481.00
31_V45_V0.8421.00
19_A74_K0.8331.00
7_A76_V0.8191.00
23_I57_I0.8151.00
52_D55_V0.8051.00
37_D40_G0.8041.00
67_T73_E0.8011.00
30_R48_R0.8011.00
3_Y49_I0.8011.00
17_P34_I0.7981.00
21_V49_I0.7961.00
19_A31_V0.7711.00
49_I57_I0.7651.00
68_L75_Y0.7501.00
26_V43_V0.7371.00
16_K27_K0.7311.00
34_I45_V0.7291.00
27_K50_D0.7241.00
63_A76_V0.7081.00
60_D80_P0.7051.00
24_A80_P0.7001.00
69_G74_K0.6841.00
50_D53_K0.6831.00
5_V49_I0.6791.00
28_V49_I0.6791.00
24_A79_D0.6741.00
50_D54_D0.6721.00
20_P30_R0.6661.00
9_F12_A0.6611.00
58_P80_P0.6581.00
22_R77_E0.6421.00
16_K20_P0.6231.00
67_T70_L0.6221.00
68_L71_L0.6091.00
3_Y7_A0.6051.00
3_Y54_D0.5981.00
37_D41_G0.5911.00
22_R66_R0.5861.00
26_V34_I0.5761.00
44_R47_L0.5731.00
39_D43_V0.5681.00
9_F65_I0.5681.00
62_R66_R0.5671.00
71_L74_K0.5671.00
15_L31_V0.5631.00
13_G74_K0.5591.00
3_Y56_P0.5591.00
70_L74_K0.5581.00
31_V76_V0.5551.00
2_G53_K0.5481.00
17_P20_P0.5481.00
32_T47_L0.5431.00
26_V36_L0.5391.00
17_P32_T0.5321.00
57_I61_S0.5321.00
8_Y39_D0.5251.00
4_T8_Y0.5211.00
9_F76_V0.5181.00
41_G58_P0.5141.00
24_A36_L0.5141.00
14_G22_R0.5121.00
25_G29_G0.5111.00
38_P41_G0.5061.00
52_D60_D0.5001.00
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  
3ttgA 1 0.8642 30.8 0.812 Contact Map
1wosA 1 0.9259 28.3 0.815 Contact Map
1yx2A 1 0.9259 27.9 0.816 Contact Map
1v5vA 2 0.963 27.3 0.817 Contact Map
3girA 1 0.9383 26.8 0.817 Contact Map
1wsrA 2 0.9259 23 0.823 Contact Map
1pj5A 3 0.9259 20.8 0.826 Contact Map
3tfiA 2 0.9012 16.5 0.834 Contact Map
2xyyA 9 0.8642 11.2 0.847 Contact Map
3wnoA 2 1 8.8 0.853 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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