GREMLIN Database
Terminase_4 - Phage terminase, small subunit
PFAM: PF05119 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 99 (92)
Sequences: 14446 (12036)
Seq/√Len: 1254.9
META: 0.913

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
40_E68_A2.6811.00
61_Q66_A2.3661.00
73_K77_K2.2801.00
42_E64_A2.1331.00
42_E46_E2.0581.00
22_D89_R1.9891.00
66_A70_K1.9321.00
81_E88_S1.9141.00
36_W68_A1.7721.00
29_Y75_M1.7361.00
35_R68_A1.7281.00
87_S91_R1.7171.00
4_E7_R1.6651.00
28_A72_A1.6561.00
69_N73_K1.6521.00
4_E24_A1.6401.00
31_E40_E1.5961.00
25_A82_F1.5801.00
32_A71_A1.5741.00
61_Q70_K1.5631.00
29_Y79_A1.5391.00
70_K73_K1.5361.00
33_Y75_M1.5311.00
9_A26_L1.4681.00
69_N74_Q1.4621.00
81_E85_T1.4621.00
32_A74_Q1.3441.00
76_R81_E1.3391.00
28_A79_A1.3381.00
36_W72_A1.2861.00
35_R71_A1.2821.00
52_T58_Y1.2741.00
76_R80_A1.2601.00
39_A67_I1.2141.00
52_T55_G1.2061.00
52_T60_K1.2041.00
35_R40_E1.1981.00
75_M79_A1.1791.00
39_A64_A1.1621.00
61_Q67_I1.1621.00
8_L26_L1.1511.00
4_E33_Y1.1461.00
51_K59_P1.1411.00
71_A74_Q1.1331.00
25_A78_L1.1301.00
2_K6_R1.1271.00
32_A72_A1.1161.00
38_E48_L1.0871.00
33_Y37_R1.0791.00
28_A78_L1.0361.00
68_A72_A1.0341.00
29_Y78_L1.0301.00
42_E62_N1.0151.00
72_A78_L1.0151.00
77_K80_A1.0131.00
34_A38_E1.0081.00
10_P14_A1.0061.00
36_W75_M1.0061.00
28_A36_W0.9911.00
85_T88_S0.9721.00
80_A88_S0.9691.00
40_E44_A0.9491.00
11_E20_E0.9461.00
36_W40_E0.9441.00
46_E64_A0.9311.00
32_A75_M0.8961.00
53_P58_Y0.8891.00
24_A33_Y0.8731.00
8_L29_Y0.8691.00
9_A13_E0.8681.00
46_E62_N0.8671.00
35_R48_L0.8621.00
15_L21_A0.8541.00
54_N58_Y0.8451.00
5_W30_C0.8431.00
39_A71_A0.8231.00
77_K81_E0.8111.00
32_A35_R0.8041.00
27_A31_E0.7921.00
31_E36_W0.7921.00
11_E21_A0.7811.00
4_E8_L0.7791.00
83_G92_L0.7691.00
39_A68_A0.7621.00
66_A69_N0.7531.00
73_K76_R0.7411.00
38_E42_E0.7341.00
24_A29_Y0.7161.00
27_A37_R0.7161.00
37_R41_E0.7151.00
11_E14_A0.7091.00
7_R11_E0.7081.00
32_A78_L0.6951.00
25_A85_T0.6821.00
50_V60_K0.6791.00
43_L68_A0.6781.00
7_R24_A0.6651.00
49_V64_A0.6581.00
42_E45_K0.6561.00
9_A18_L0.6511.00
30_C34_A0.6461.00
70_K74_Q0.6321.00
6_R10_P0.6321.00
61_Q69_N0.6181.00
4_E29_Y0.6131.00
24_A27_A0.6061.00
26_L82_F0.6061.00
23_R27_A0.6051.00
20_E23_R0.6011.00
25_A79_A0.6001.00
11_E15_L0.5981.00
19_T22_D0.5941.00
29_Y82_F0.5921.00
79_A85_T0.5921.00
33_Y36_W0.5901.00
80_A91_R0.5821.00
61_Q65_V0.5651.00
3_A6_R0.5631.00
43_L47_G0.5621.00
48_L64_A0.5611.00
80_A87_S0.5451.00
31_E35_R0.5451.00
65_V71_A0.5431.00
8_L84_L0.5431.00
5_W9_A0.5421.00
27_A33_Y0.5321.00
80_A85_T0.5271.00
31_E44_A0.5261.00
67_I70_K0.5251.00
78_L82_F0.5231.00
67_I71_A0.5231.00
55_G58_Y0.5221.00
74_Q77_K0.5221.00
32_A36_W0.5191.00
7_R23_R0.5101.00
31_E68_A0.5051.00
49_V59_P0.5041.00
40_E72_A0.5001.00
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  
4u0wA 2 0.9899 9.9 0.869 Contact Map
4bm5A 1 0.8586 9.8 0.87 Contact Map
2gf5A 1 0.9697 9.7 0.87 Contact Map
4pt7A 3 0.7879 8.7 0.873 Contact Map
4w9rA 2 0.9798 7.7 0.875 Contact Map
4ufcA 1 0.9495 7.3 0.877 Contact Map
3tqnA 2 0.8586 7 0.878 Contact Map
1rr7A 2 0.8586 6.4 0.88 Contact Map
3f8mA 2 0.9394 5.9 0.882 Contact Map
4zbwA 2 0.5051 5.4 0.884 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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