GREMLIN Database
DEDD_Tnp_IS110 - Transposase
PFAM: PF01548 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 127 (123)
Sequences: 81675 (47415)
Seq/√Len: 4275.2
META: 0.924

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
41_A94_L3.8801.00
71_A74_G2.8631.00
121_E124_R2.5141.00
39_L62_V2.2771.00
13_A87_A2.2021.00
102_S105_Q2.1811.00
40_V59_F2.1701.00
81_K86_D2.1601.00
92_R96_R2.0851.00
39_L60_E2.0551.00
13_A88_E2.0311.00
115_R119_V1.9911.00
69_V90_L1.9531.00
122_R126_K1.9421.00
3_I10_L1.8981.00
67_R71_A1.8771.00
114_R125_L1.8551.00
41_A90_L1.8031.00
54_R106_R1.7381.00
119_V122_R1.6951.00
73_A89_W1.6691.00
62_V97_P1.6381.00
121_E125_L1.5771.00
29_W33_L1.5381.00
6_H11_D1.4971.00
29_W32_K1.4341.00
17_T22_G1.3751.00
41_A64_V1.3671.00
49_W53_A1.3621.00
53_A61_V1.3581.00
114_R118_L1.3461.00
64_V69_V1.3371.00
80_A85_I1.3211.00
42_M61_V1.3161.00
119_V123_T1.3041.00
70_K74_G1.2931.00
123_T126_K1.2821.00
15_D22_G1.2661.00
53_A63_V1.2661.00
60_E97_P1.2601.00
114_R117_Q1.2541.00
27_L57_A1.2391.00
3_I12_V1.2361.00
117_Q121_E1.2221.00
88_E92_R1.1991.00
39_L94_L1.1851.00
92_R95_R1.1821.00
50_R106_R1.1621.00
116_R120_R1.1601.00
6_H9_T1.1581.00
45_T48_Y1.1481.00
101_P109_R1.1341.00
11_D84_R1.1321.00
62_V94_L1.1311.00
23_F55_A1.1271.00
103_E107_E1.1251.00
27_L55_A1.1031.00
70_K73_A1.0811.00
1_V40_V1.0771.00
30_L40_V1.0301.00
69_V93_L1.0301.00
5_V42_M1.0271.00
42_M53_A1.0271.00
27_L31_A1.0211.00
104_E107_E1.0141.00
13_A91_A1.0111.00
2_G87_A0.9931.00
22_G25_R0.9911.00
65_N68_Q0.9901.00
37_P60_E0.9881.00
40_V61_V0.9741.00
23_F51_P0.9711.00
44_A63_V0.9701.00
21_A25_R0.9631.00
51_P55_A0.9591.00
120_R124_R0.9531.00
16_N23_F0.9281.00
5_V10_L0.9111.00
38_V59_F0.9091.00
50_R53_A0.8921.00
50_R54_R0.8891.00
18_A21_A0.8871.00
49_W52_L0.8841.00
110_A114_R0.8761.00
2_G91_A0.8721.00
30_L34_R0.8721.00
47_G50_R0.8721.00
85_I88_E0.8711.00
45_T49_W0.8711.00
6_H10_L0.8571.00
21_A24_R0.8551.00
109_R113_R0.8421.00
18_A24_R0.8371.00
3_I52_L0.8321.00
11_D87_A0.8241.00
69_V89_W0.8241.00
27_L30_L0.8191.00
91_A95_R0.8151.00
117_Q120_R0.8081.00
30_L33_L0.8041.00
49_W63_V0.7991.00
12_V26_L0.7961.00
29_W34_R0.7951.00
26_L29_W0.7901.00
1_V38_V0.7821.00
28_A32_K0.7781.00
51_P54_R0.7751.00
18_A23_F0.7701.00
120_R123_T0.7691.00
28_A31_A0.7671.00
37_P59_F0.7631.00
85_I89_W0.7581.00
40_V56_L0.7581.00
99_F102_S0.7561.00
123_T127_N0.7341.00
1_V12_V0.7281.00
118_L122_R0.7211.00
42_M63_V0.7191.00
67_R74_G0.7111.00
82_T85_I0.7111.00
99_F105_Q0.7091.00
28_A33_L0.7021.00
26_L30_L0.7001.00
42_M52_L0.6981.00
44_A66_P0.6921.00
14_F22_G0.6911.00
68_Q72_F0.6891.00
72_F93_L0.6861.00
72_F96_R0.6821.00
78_R85_I0.6731.00
27_L33_L0.6711.00
31_A34_R0.6691.00
68_Q79_R0.6651.00
46_G49_W0.6631.00
68_Q77_G0.6561.00
15_D21_A0.6521.00
27_L32_K0.6521.00
15_D25_R0.6441.00
15_D18_A0.6361.00
67_R77_G0.6361.00
68_Q74_G0.6301.00
35_G38_V0.6281.00
31_A57_A0.6251.00
106_R110_A0.6221.00
17_T21_A0.6221.00
16_N22_G0.6211.00
101_P105_Q0.6111.00
10_L52_L0.6061.00
14_F18_A0.6021.00
113_R117_Q0.5991.00
122_R125_L0.5911.00
25_R29_W0.5891.00
113_R116_R0.5841.00
27_L34_R0.5831.00
118_L121_E0.5821.00
48_Y51_P0.5791.00
103_E106_R0.5771.00
111_L114_R0.5751.00
111_L115_R0.5741.00
106_R109_R0.5741.00
43_E86_D0.5711.00
72_F78_R0.5691.00
41_A62_V0.5681.00
3_I40_V0.5611.00
24_R28_A0.5581.00
114_R121_E0.5561.00
78_R89_W0.5471.00
14_F17_T0.5461.00
91_A94_L0.5431.00
1_V37_P0.5411.00
14_F29_W0.5391.00
27_L59_F0.5341.00
72_F89_W0.5291.00
54_R103_E0.5281.00
117_Q124_R0.5271.00
63_V66_P0.5241.00
68_Q71_A0.5151.00
16_N21_A0.5131.00
3_I26_L0.5071.00
18_A22_G0.5031.00
112_V115_R0.5021.00
38_V60_E0.5011.00
104_E108_L0.5001.00
105_Q108_L0.5001.00
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  
1hjrA 2 0.7874 66.4 0.85 Contact Map
1nu0A 1 0.7087 31.7 0.879 Contact Map
4ep4A 2 0.9449 25.5 0.885 Contact Map
1iv0A 1 0.5354 14.8 0.896 Contact Map
1vhxA 2 0.7717 12.8 0.899 Contact Map
3menA 3 0.4961 10.1 0.904 Contact Map
4zurA 2 0.4409 9.5 0.905 Contact Map
1zz1A 4 0.7874 8.5 0.907 Contact Map
1c3pA 1 0.8031 8.1 0.908 Contact Map
4bkxB 1 0.7323 7.2 0.91 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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