GREMLIN Database
TraL - TraL protein
PFAM: PF07178 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 91 (88)
Sequences: 1688 (1310)
Seq/√Len: 139.6
META: 0.83

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
19_D55_K4.1441.00
20_E52_R3.4271.00
58_K62_F3.2891.00
79_L82_T2.3461.00
3_I8_D2.1741.00
6_Y9_D2.1681.00
66_L70_Y2.1581.00
17_E55_K2.1411.00
36_Q39_L2.1361.00
12_R17_E2.0731.00
48_A52_R1.9411.00
69_W88_R1.8971.00
17_E20_E1.8661.00
45_L49_F1.8451.00
29_F33_L1.6531.00
44_G48_A1.6161.00
87_I90_F1.5581.00
20_E48_A1.5551.00
69_W85_S1.5211.00
13_I21_A1.4811.00
61_G65_H1.4661.00
37_L64_L1.4261.00
23_P48_A1.4231.00
46_L50_L1.3861.00
63_L67_L1.3831.00
8_D15_F1.2991.00
23_P51_Y1.2881.00
62_F65_H1.2491.00
84_P87_I1.2111.00
23_P27_P1.2061.00
40_G44_G1.1781.00
46_L49_F1.1640.99
27_P40_G1.1560.99
9_D17_E1.1440.99
12_R20_E1.1150.99
24_F48_A1.1140.99
67_L71_L1.0920.99
27_P31_G1.0770.99
62_F66_L1.0700.99
24_F44_G1.0550.99
4_P56_K1.0270.99
16_W21_A0.9960.98
28_F41_L0.9710.98
56_K61_G0.9670.98
7_L68_Y0.9620.98
31_G40_G0.9440.98
36_Q40_G0.9360.98
85_S88_R0.9290.97
27_P47_L0.9210.97
74_S81_A0.8980.97
19_D51_Y0.8960.97
18_L73_S0.8940.97
40_G43_L0.8770.96
5_R8_D0.8680.96
75_L80_K0.8640.96
2_R54_L0.8600.96
52_R56_K0.8520.96
44_G53_K0.8330.95
27_P48_A0.8240.95
42_I73_S0.8230.95
3_I6_Y0.8130.94
13_I18_L0.8100.94
2_R42_I0.8080.94
83_P90_F0.8080.94
9_D16_W0.8070.94
50_L54_L0.7930.94
26_L74_S0.7770.93
40_G50_L0.7750.93
4_P7_L0.7660.93
24_F27_P0.7610.92
15_F62_F0.7590.92
34_L46_L0.7420.91
11_P17_E0.7400.91
68_Y85_S0.7180.90
23_P47_L0.7140.90
39_L42_I0.7120.90
15_F23_P0.7110.89
18_L22_A0.7000.89
9_D12_R0.6950.88
8_D69_W0.6830.88
20_E55_K0.6800.87
39_L43_L0.6760.87
30_L34_L0.6750.87
20_E29_F0.6730.87
8_D47_L0.6650.86
10_P17_E0.6640.86
29_F32_I0.6640.86
66_L89_E0.6630.86
24_F38_L0.6610.86
30_L35_G0.6600.86
51_Y66_L0.6540.85
68_Y72_P0.6530.85
55_K67_L0.6480.85
31_G36_Q0.6330.83
26_L45_L0.6290.83
62_F68_Y0.6270.83
18_L32_I0.6260.83
4_P8_D0.6220.82
16_W27_P0.6210.82
16_W20_E0.6210.82
80_K86_H0.6200.82
33_L46_L0.6150.82
47_L63_L0.6150.82
76_L83_P0.6120.81
30_L50_L0.6120.81
21_A25_L0.6120.81
22_A67_L0.6090.81
61_G89_E0.6080.81
73_S76_L0.6040.80
58_K65_H0.5980.80
6_Y12_R0.5940.79
5_R60_P0.5910.79
21_A73_S0.5910.79
28_F66_L0.5840.78
47_L50_L0.5820.78
79_L90_F0.5770.77
9_D28_F0.5690.76
57_G64_L0.5690.76
27_P41_L0.5660.76
9_D70_Y0.5660.76
24_F41_L0.5650.76
34_L37_L0.5520.74
26_L77_R0.5440.73
26_L29_F0.5340.72
24_F90_F0.5340.72
14_L30_L0.5310.71
21_A72_P0.5300.71
3_I21_A0.5260.71
58_K61_G0.5260.71
74_S77_R0.5230.70
6_Y17_E0.5020.67
24_F37_L0.5000.67
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  
3ixzA 1 0.7582 7.2 0.897 Contact Map
3j9tb 1 0 5.1 0.904 Contact Map
2zxeA 1 0.7582 5 0.904 Contact Map
2nr9A 2 0.6813 5 0.904 Contact Map
2ks1B 1 0.4835 4.2 0.908 Contact Map
4p02B 1 0.5055 2.4 0.918 Contact Map
4u2pA 4 0.4945 2.4 0.919 Contact Map
4tllA 1 0.3077 1.9 0.922 Contact Map
3kcuA 3 0.5495 1.8 0.924 Contact Map
2jwaA 2 0.4835 1.8 0.924 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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