GREMLIN Database
Phage_GPL - Phage head completion protein (GPL)
PFAM: PF05926 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 139 (139)
Sequences: 1114 (827)
Seq/√Len: 70.1
META: 0.489

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
52_Q55_A3.4141.00
15_F34_L3.0611.00
42_N78_Y2.9951.00
31_R69_D2.8871.00
3_N42_N2.7801.00
71_E79_R2.6571.00
48_W52_Q2.5611.00
85_R121_A2.4681.00
17_E28_E2.4661.00
127_D133_R2.4631.00
87_K96_D2.4561.00
41_V125_I2.4181.00
49_R53_Q2.3521.00
59_T62_D2.3401.00
117_L120_D2.3221.00
4_D49_R2.2881.00
65_A72_S2.2021.00
12_L34_L2.1421.00
5_G9_D2.0721.00
49_R66_E2.0411.00
57_Y64_P2.0361.00
6_F59_T2.0261.00
34_L86_A2.0191.00
35_I69_D1.9931.00
14_D79_R1.8361.00
74_L128_I1.8331.00
39_A73_V1.7381.00
87_K91_L1.7321.00
93_R120_D1.7071.00
3_N78_Y1.7001.00
3_N9_D1.6931.00
89_D120_D1.6761.00
103_G107_A1.5720.99
73_V77_L1.5480.99
15_F86_A1.5320.99
36_A77_L1.4610.99
35_I68_I1.4160.98
48_W128_I1.3550.98
15_F83_Y1.3460.98
44_E122_R1.3450.98
41_V81_A1.3020.97
31_R35_I1.2990.97
19_M87_K1.2840.97
104_E108_E1.2840.97
4_D7_W1.2310.96
44_E126_R1.1820.95
79_R83_Y1.1810.95
35_I76_H1.1500.94
126_R129_L1.1440.94
11_D14_D1.1430.94
18_A83_Y1.1230.93
52_Q128_I1.1130.93
80_R124_A1.1080.93
84_A120_D1.1070.93
71_E75_V1.0950.93
86_A121_A1.0860.92
15_F30_L1.0510.91
2_T9_D1.0340.90
40_E127_D1.0320.90
4_D66_E1.0320.90
80_R84_A0.9760.88
125_I129_L0.9680.87
116_D119_R0.9590.87
41_V121_A0.9530.86
14_D83_Y0.9460.86
3_N38_M0.9460.86
123_W126_R0.9440.86
104_E107_A0.9430.86
52_Q63_V0.9420.86
39_A77_L0.9210.84
19_M117_L0.9200.84
104_E109_E0.9180.84
126_R131_R0.9180.84
16_R20_R0.9100.84
72_S75_V0.9000.83
99_A110_L0.8970.83
60_L65_A0.8960.83
134_T139_I0.8920.82
87_K99_A0.8890.82
60_L63_V0.8840.82
92_E119_R0.8810.82
107_A113_T0.8800.82
44_E135_T0.8790.81
122_R126_R0.8510.79
95_R116_D0.8480.79
89_D117_L0.8430.79
53_Q56_G0.8380.78
101_A105_K0.8320.78
77_L133_R0.8310.78
108_E112_E0.8260.77
64_P72_S0.8200.77
25_V29_R0.7990.75
63_V74_L0.7950.75
43_R73_V0.7930.74
131_R135_T0.7840.73
136_V139_I0.7810.73
80_R89_D0.7770.73
110_L114_I0.7730.72
77_L127_D0.7710.72
22_D97_Y0.7690.72
16_R29_R0.7580.71
36_A40_E0.7570.71
18_A32_D0.7490.70
32_D79_R0.7480.70
10_I38_M0.7440.70
96_D110_L0.7410.69
98_D110_L0.7380.69
37_A85_R0.7380.69
16_R92_E0.7370.69
91_L110_L0.7330.68
33_A89_D0.7320.68
121_A128_I0.7320.68
15_F19_M0.7280.68
12_L27_P0.7260.68
42_N94_Y0.7260.68
32_D80_R0.7260.68
1_I125_I0.7200.67
99_A105_K0.7160.67
1_I15_F0.7130.66
13_A17_E0.7120.66
133_R139_I0.7110.66
46_A50_A0.7050.65
19_M86_A0.7030.65
92_E114_I0.7020.65
93_R117_L0.6910.64
44_E85_R0.6910.64
85_R118_R0.6890.64
77_L124_A0.6880.63
77_L128_I0.6810.63
14_D18_A0.6710.62
26_T29_R0.6680.61
27_P31_R0.6680.61
52_Q57_Y0.6630.61
114_I117_L0.6550.60
113_T116_D0.6550.60
26_T30_L0.6520.59
16_R27_P0.6500.59
99_A109_E0.6430.58
11_D34_L0.6350.57
119_R123_W0.6330.57
7_W60_L0.6270.56
10_I79_R0.6270.56
95_R107_A0.6260.56
77_L80_R0.6260.56
13_A112_E0.6210.56
24_T97_Y0.6180.55
92_E98_D0.6170.55
61_A75_V0.6160.55
112_E115_D0.6160.55
38_M68_I0.6140.55
1_I6_F0.6140.55
126_R130_G0.6110.54
43_R77_L0.6090.54
51_A55_A0.6030.54
67_Q72_S0.5970.53
67_Q70_G0.5970.53
32_D71_E0.5930.52
13_A27_P0.5920.52
95_R111_E0.5910.52
87_K112_E0.5870.52
95_R99_A0.5860.51
23_G41_V0.5850.51
37_A80_R0.5760.50
36_A76_H0.5750.50
29_R119_R0.5750.50
132_P136_V0.5690.49
74_L126_R0.5690.49
60_L70_G0.5670.49
14_D17_E0.5660.49
57_Y74_L0.5640.49
68_I72_S0.5640.49
11_D27_P0.5640.49
47_A62_D0.5620.49
47_A58_A0.5620.49
6_F21_L0.5610.48
39_A76_H0.5590.48
36_A89_D0.5590.48
126_R135_T0.5520.47
98_D103_G0.5500.47
51_A62_D0.5400.46
99_A106_R0.5370.46
100_T108_E0.5370.46
25_V94_Y0.5370.46
40_E44_E0.5320.45
50_A54_A0.5320.45
89_D123_W0.5290.45
29_R92_E0.5290.45
84_A117_L0.5270.44
10_I83_Y0.5270.44
17_E102_S0.5260.44
97_Y101_A0.5250.44
12_L16_R0.5240.44
38_M41_V0.5240.44
23_G30_L0.5230.44
3_N6_F0.5200.43
19_M83_Y0.5200.43
74_L77_L0.5200.43
37_A138_L0.5190.43
29_R100_T0.5110.42
96_D105_K0.5090.42
1_I38_M0.5080.42
90_L102_S0.5070.42
20_R25_V0.5060.42
96_D100_T0.5030.41
50_A53_Q0.5030.41
95_R98_D0.5020.41
54_A61_A0.5010.41
46_A66_E0.5000.41
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  
2i5uA 1 0.3885 18.5 0.931 Contact Map
3c8gA 2 0.3165 13.2 0.935 Contact Map
2bolA 2 0.259 11.5 0.937 Contact Map
4m7uA 1 0.295 8.9 0.94 Contact Map
4kt0J 1 0.1007 8.6 0.94 Contact Map
4xk8J 1 0.0935 8.6 0.94 Contact Map
1cb8A 1 0.8489 8.1 0.941 Contact Map
1repC 1 0.4892 7.9 0.941 Contact Map
2cazB 1 0.6475 6 0.945 Contact Map
3u52C 2 0.6475 5.5 0.946 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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