GREMLIN Database
LZ_Tnp_IS66 - Transposase C of IS166 homeodomain
PFAM: PF13007 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 69 (67)
Sequences: 44648 (29988)
Seq/√Len: 3663.7
META: 0.962

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
5_Q10_R3.6861.00
8_L12_R3.3051.00
7_A10_R2.6801.00
4_E8_L2.5261.00
47_V50_R2.4861.00
27_Q30_L2.2641.00
9_L13_L2.0361.00
46_A49_A1.9341.00
7_A11_R1.9251.00
12_R17_S1.7081.00
3_K7_A1.6041.00
6_L10_R1.6011.00
6_L9_L1.5581.00
8_L13_L1.4991.00
5_Q8_L1.4091.00
32_L35_L1.3571.00
9_L12_R1.2861.00
42_A45_E1.2841.00
31_A34_E1.2711.00
40_A44_A1.2681.00
40_A45_E1.2371.00
61_P66_R1.1731.00
55_P58_K1.1091.00
10_R13_L1.0841.00
22_K25_P1.0791.00
60_L64_L1.0691.00
39_A42_A1.0561.00
46_A50_R1.0461.00
21_L24_D1.0311.00
5_Q13_L1.0281.00
56_G59_P0.9631.00
2_L6_L0.9501.00
31_A35_L0.9491.00
53_K56_G0.9381.00
33_E36_E0.9271.00
20_R23_L0.9261.00
11_R16_R0.9251.00
13_L17_S0.9211.00
31_A36_E0.9191.00
5_Q9_L0.9051.00
37_A42_A0.8971.00
52_R55_P0.8851.00
63_H66_R0.8731.00
38_E41_E0.8541.00
23_L26_D0.8391.00
41_E44_A0.8371.00
3_K6_L0.8341.00
26_D29_E0.8241.00
61_P64_L0.8211.00
25_P29_E0.8191.00
56_G60_L0.8181.00
34_E37_A0.8111.00
38_E42_A0.7911.00
4_E7_A0.7821.00
50_R53_K0.7791.00
8_L11_R0.7781.00
23_L29_E0.7691.00
55_P60_L0.7671.00
10_R14_F0.7651.00
39_A44_A0.7521.00
59_P62_A0.7491.00
22_K26_D0.7281.00
26_D30_L0.7251.00
21_L25_P0.7071.00
25_P28_L0.7051.00
48_P51_R0.7041.00
24_D27_Q0.6991.00
49_A52_R0.6971.00
5_Q12_R0.6961.00
60_L66_R0.6941.00
7_A13_L0.6931.00
4_E12_R0.6901.00
12_R18_S0.6881.00
35_L38_E0.6811.00
39_A43_E0.6661.00
8_L14_F0.6551.00
47_V51_R0.6541.00
40_A43_E0.6541.00
14_F17_S0.6241.00
41_E45_E0.6231.00
18_S22_K0.6161.00
6_L13_L0.6011.00
37_A41_E0.6001.00
60_L63_H0.5801.00
32_L36_E0.5761.00
35_L39_A0.5731.00
3_K10_R0.5661.00
62_A66_R0.5631.00
20_R24_D0.5501.00
60_L68_E0.5491.00
55_P59_P0.5491.00
36_E39_A0.5481.00
46_A51_R0.5401.00
11_R14_F0.5401.00
37_A44_A0.5361.00
11_R15_G0.5211.00
39_A45_E0.5201.00
33_E38_E0.5121.00
56_G61_P0.5101.00
48_P52_R0.5001.00
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  
2es4D 3 0.4493 5.4 0.852 Contact Map
4pmwA 1 0.1594 4.5 0.858 Contact Map
2l60A 1 0.2029 4 0.861 Contact Map
1qbfA 1 0.2029 3.7 0.864 Contact Map
1f8pA 1 0.2029 3.6 0.864 Contact Map
3nfqA 1 0.2029 2.9 0.87 Contact Map
1h1jS 1 0.4783 2.7 0.872 Contact Map
2ic6A 1 0.3333 2.4 0.876 Contact Map
2vnuD 1 0.1884 2.4 0.876 Contact Map
4h62K 1 0.2174 2.1 0.88 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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