GREMLIN Database
Phage_holin_Dp1 - Putative phage holin Dp-1
PFAM: PF16938 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 63 (63)
Sequences: 1828 (1459)
Seq/√Len: 183.9
META: 0.955

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_A45_A3.3001.00
31_W42_T2.8091.00
23_L49_F2.7811.00
25_F40_V2.1971.00
28_A36_G2.1931.00
11_W16_V2.1491.00
2_S5_V1.9481.00
58_T62_N1.8931.00
13_A47_D1.8611.00
24_Y28_A1.8381.00
3_N7_D1.7791.00
30_I41_G1.7031.00
19_A52_A1.6641.00
23_L45_A1.6061.00
4_K8_I1.5211.00
35_Y38_E1.4931.00
10_K14_L1.4851.00
11_W55_G1.4791.00
23_L46_V1.4401.00
16_V53_L1.3421.00
25_F41_G1.2991.00
29_G37_E1.2931.00
28_A33_L1.2521.00
21_G43_I1.2281.00
24_Y39_V1.1871.00
31_W38_E1.1571.00
5_V8_I1.1491.00
8_I12_I1.1071.00
50_L54_L1.1051.00
10_K58_T1.0971.00
44_T47_D1.0721.00
55_G59_A1.0531.00
21_G44_T0.9860.99
44_T48_T0.9500.99
1_L5_V0.9400.99
17_L21_G0.9290.99
40_V44_T0.9190.99
17_L43_I0.9140.99
56_I60_N0.9030.99
27_L42_T0.8860.99
24_Y34_P0.8650.98
21_G40_V0.8640.98
15_I51_G0.8510.98
27_L33_L0.8440.98
14_L47_D0.7860.97
35_Y39_V0.7820.97
16_V49_F0.7770.97
14_L51_G0.7330.96
48_T52_A0.7030.94
36_G40_V0.7000.94
38_E42_T0.6990.94
22_T45_A0.6980.94
5_V9_L0.6900.94
59_A62_N0.6900.94
17_L47_D0.6830.93
14_L54_L0.6760.93
19_A49_F0.6690.93
24_Y38_E0.6650.93
22_T25_F0.6610.92
8_I11_W0.6610.92
22_T44_T0.6590.92
24_Y35_Y0.6590.92
37_E41_G0.6570.92
20_L43_I0.6500.92
22_T26_A0.6340.91
59_A63_K0.6270.90
6_Y10_K0.6260.90
26_A41_G0.6200.90
28_A34_P0.6110.89
4_K7_D0.6050.89
30_I45_A0.6030.88
13_A50_L0.6000.88
49_F53_L0.5820.87
11_W14_L0.5820.87
13_A54_L0.5750.86
40_V43_I0.5680.85
24_Y33_L0.5640.85
24_Y43_I0.5640.85
26_A48_T0.5480.83
60_N63_K0.5420.83
30_I36_G0.5350.82
22_T52_A0.5350.82
33_L36_G0.5340.82
10_K51_G0.5340.82
20_L49_F0.5320.81
34_P38_E0.5320.81
12_I16_V0.5250.81
22_T48_T0.5250.81
43_I46_V0.5210.80
21_G25_F0.5180.80
25_F29_G0.5160.79
15_I55_G0.5070.78
24_Y40_V0.5040.78
12_I47_D0.5000.77
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  
1mhsA 2 1 10 0.871 Contact Map
4r0cA 3 1 4.8 0.889 Contact Map
2xq2A 2 0.9206 4.7 0.889 Contact Map
4ev6A 3 0.9683 4.5 0.891 Contact Map
1mqmB 3 0 4 0.893 Contact Map
4i0uA 4 0.9365 2.9 0.9 Contact Map
3dh4A 3 0.9048 2.5 0.904 Contact Map
4he8L 1 0.9841 2.4 0.905 Contact Map
4r1iA 2 1 2.2 0.906 Contact Map
3b8cA 1 0.9683 2.1 0.907 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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