GREMLIN Database
Transpos_assoc - Transposase-associated domain
PFAM: PF13963 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 76 (76)
Sequences: 2360 (1714)
Seq/√Len: 196.6
META: 0.681

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
26_F52_R3.6571.00
38_R49_Y3.0331.00
43_K62_N2.8101.00
19_E56_R2.7251.00
22_L52_R2.3341.00
4_M64_F2.3011.00
14_Y18_V2.0951.00
50_L58_H2.0941.00
23_E52_R2.0291.00
41_C44_C1.8731.00
40_P44_C1.7871.00
18_V59_L1.7441.00
12_P16_N1.6641.00
51_T54_T1.6641.00
39_C44_C1.6061.00
16_N20_E1.5941.00
5_Y64_F1.5911.00
57_D61_R1.5471.00
14_Y64_F1.5451.00
50_L54_T1.5381.00
28_H31_N1.4691.00
14_Y59_L1.4211.00
1_R5_Y1.3271.00
22_L26_F1.2541.00
70_R73_H1.2441.00
68_Y74_H1.1771.00
19_E23_E1.1661.00
50_L55_V1.1601.00
23_E27_A1.1031.00
41_C46_N1.0561.00
44_C58_H1.0541.00
32_K35_G1.0371.00
2_S13_E1.0291.00
30_E42_R1.0251.00
21_F25_A1.0151.00
26_F37_I1.0041.00
37_I55_V0.9971.00
54_T57_D0.9871.00
14_Y60_I0.9680.99
25_A68_Y0.9530.99
41_C63_G0.9450.99
24_F43_K0.9390.99
45_K65_M0.9380.99
52_R56_R0.9300.99
57_D60_I0.8970.99
9_R60_I0.8620.99
21_F68_Y0.8510.99
21_F46_N0.8490.99
18_V22_L0.8300.98
9_R12_P0.8280.98
21_F71_W0.8200.98
7_A10_L0.8110.98
68_Y71_W0.8020.98
22_L56_R0.7960.98
1_R7_A0.7940.98
27_A66_P0.7930.98
64_F67_N0.7890.98
40_P58_H0.7830.98
27_A57_D0.7800.97
65_M73_H0.7750.97
18_V56_R0.7750.97
31_N34_G0.7740.97
54_T58_H0.7660.97
33_N36_K0.7540.97
4_M59_L0.7510.97
46_N74_H0.7310.96
34_G65_M0.7120.96
7_A11_S0.7060.95
53_D57_D0.6980.95
7_A33_N0.6970.95
39_C63_G0.6870.95
4_M7_A0.6760.94
34_G37_I0.6760.94
12_P15_I0.6700.94
17_G63_G0.6680.94
14_Y47_R0.6670.94
38_R67_N0.6660.94
13_E16_N0.6590.93
23_E30_E0.6480.93
53_D66_P0.6390.92
69_T72_T0.6350.92
42_R62_N0.6260.92
8_D11_S0.6250.92
23_E26_F0.6190.91
39_C75_G0.6190.91
10_L67_N0.6160.91
28_H32_K0.6150.91
25_A46_N0.6130.91
30_E53_D0.6060.90
26_F55_V0.6060.90
57_D62_N0.6050.90
39_C58_H0.6010.90
4_M65_M0.5970.90
47_R61_R0.5950.89
20_E23_E0.5920.89
6_N11_S0.5830.88
31_N56_R0.5760.88
30_E66_P0.5670.87
45_K64_F0.5660.87
31_N37_I0.5630.87
2_S6_N0.5620.87
20_E66_P0.5590.86
36_K54_T0.5540.86
10_L69_T0.5530.86
69_T73_H0.5440.85
26_F32_K0.5430.85
36_K72_T0.5410.85
2_S42_R0.5370.84
56_R60_I0.5280.83
16_N66_P0.5200.82
42_R45_K0.5120.81
10_L15_I0.5080.81
40_P46_N0.5080.81
5_Y69_T0.5000.80
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  
3bbnC 1 0.5658 10.1 0.896 Contact Map
1dvkA 2 0.3947 4.2 0.913 Contact Map
1ubdC 1 0.5132 3 0.919 Contact Map
2a7kA 3 0.1842 2.7 0.921 Contact Map
2w45A 1 0.8421 2.6 0.922 Contact Map
3l3sA 3 0.1711 2.6 0.922 Contact Map
1sz9A 1 0.3947 2.5 0.922 Contact Map
3qmjA 3 0.0395 2.4 0.923 Contact Map
1zx4A 2 0.4079 2.4 0.923 Contact Map
4kiyC 1 0.5658 2.3 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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