GREMLIN Database
YOSQ - SPBc2 prophage-derived putative HNH homing endonuclease YosQ
UniProt: O34479 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 173 (156)
Sequences: 817 (760)
Seq/√Len: 60.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
76_D81_N8.0151.00
73_N88_E4.4701.00
73_N98_H3.3371.00
5_E12_W3.0811.00
12_W20_I3.0381.00
69_G94_E2.7591.00
20_I25_K2.4391.00
99_A104_L2.4321.00
71_F92_P2.4151.00
63_I84_V2.2271.00
55_H82_N2.2081.00
59_A72_V2.1691.00
88_E98_H2.1251.00
65_D69_G2.1081.00
90_V94_E2.0231.00
59_A63_I1.9961.00
65_D70_M1.9701.00
75_I88_E1.9511.00
20_I27_P1.8791.00
90_V98_H1.8631.00
3_R14_T1.8491.00
73_N90_V1.8331.00
77_G104_L1.8011.00
3_R20_I1.8001.00
66_I89_I1.7450.99
13_I58_V1.7450.99
93_K97_L1.7120.99
40_I54_V1.6950.99
13_I19_I1.6850.99
133_G139_A1.6690.99
7_E60_K1.6490.99
14_T18_V1.6020.99
21_S24_L1.5600.99
77_G99_A1.5400.98
65_D68_K1.5290.98
15_E18_V1.5260.98
54_V58_V1.5220.98
78_N81_N1.5200.98
37_Y79_K1.5170.98
91_T94_E1.5030.98
66_I70_M1.4790.98
98_H104_L1.4140.97
76_D83_H1.3960.97
94_E98_H1.3770.97
59_A89_I1.3070.96
77_G98_H1.2910.95
64_Y67_P1.2820.95
73_N95_N1.2790.95
77_G100_M1.1960.93
14_T20_I1.1670.92
3_R16_T1.1650.92
71_F90_V1.1510.92
16_T83_H1.1130.90
77_G103_G1.1080.90
75_I86_N1.1050.90
38_E82_N1.0840.89
137_V141_E1.0450.87
153_I159_W1.0440.87
92_P96_T1.0440.87
100_M104_L1.0430.87
71_F95_N1.0350.87
130_L154_R1.0340.87
11_W21_S1.0300.87
93_K100_M1.0200.86
158_R161_T1.0150.86
101_K112_S1.0060.85
73_N99_A1.0040.85
58_V84_V0.9950.85
18_V27_P0.9840.84
43_T49_T0.9830.84
55_H74_H0.9780.84
152_L158_R0.9750.83
5_E10_P0.9570.82
79_K104_L0.9560.82
140_G143_Y0.9540.82
7_E13_I0.9530.82
127_I130_L0.9460.81
13_I57_L0.9350.81
30_T38_E0.9310.80
52_Y60_K0.9310.80
75_I98_H0.9130.79
95_N99_A0.9060.79
55_H79_K0.9020.78
66_I69_G0.9010.78
120_N123_A0.8990.78
37_Y55_H0.8970.78
152_L157_R0.8920.78
56_R66_I0.8900.77
122_E125_N0.8900.77
3_R12_W0.8890.77
98_H102_I0.8820.77
11_W42_Y0.8820.77
127_I139_A0.8800.77
56_R89_I0.8690.76
96_T99_A0.8620.75
33_T36_G0.8610.75
140_G145_L0.8550.74
32_I80_L0.8540.74
77_G102_I0.8530.74
91_T95_N0.8500.74
74_H95_N0.8450.74
155_H158_R0.8310.72
14_T27_P0.8300.72
149_Y152_L0.8260.72
40_I57_L0.8260.72
6_V57_L0.8200.71
19_I54_V0.8180.71
20_I23_K0.8100.70
5_E9_A0.8070.70
69_G90_V0.8010.70
15_E62_F0.8000.69
19_I58_V0.7970.69
147_P151_S0.7870.68
44_H48_G0.7860.68
56_R73_N0.7840.68
75_I90_V0.7840.68
138_E141_E0.7800.67
135_N139_A0.7750.67
90_V95_N0.7680.66
13_I82_N0.7670.66
139_A145_L0.7640.66
13_I61_Y0.7640.66
123_A159_W0.7580.65
136_N147_P0.7570.65
63_I66_I0.7560.65
151_S155_H0.7520.65
9_A42_Y0.7470.64
37_Y95_N0.7470.64
153_I161_T0.7440.64
129_D133_G0.7420.64
99_A103_G0.7410.63
126_L139_A0.7350.63
64_Y72_V0.7300.62
99_A105_M0.7300.62
67_P70_M0.7290.62
17_G58_V0.7280.62
11_W89_I0.7280.62
73_N104_L0.7140.61
76_D86_N0.7140.61
119_T122_E0.7120.60
129_D139_A0.7110.60
98_H103_G0.7070.60
37_Y74_H0.7060.60
55_H95_N0.6930.58
3_R18_V0.6920.58
152_L156_K0.6900.58
123_A126_L0.6850.57
16_T20_I0.6760.56
63_I69_G0.6760.56
16_T85_R0.6670.55
9_A44_H0.6620.55
65_D75_I0.6570.54
31_F79_K0.6540.54
133_G142_K0.6530.54
58_V86_N0.6480.53
65_D89_I0.6460.53
59_A65_D0.6440.53
145_L161_T0.6410.53
3_R15_E0.6380.52
139_A143_Y0.6360.52
150_V161_T0.6330.52
55_H87_L0.6260.51
72_V87_L0.6260.51
30_T54_V0.6210.50
14_T62_F0.6210.50
149_Y158_R0.6170.50
3_R62_F0.6170.50
156_K161_T0.6120.49
13_I54_V0.6110.49
33_T39_M0.6080.49
69_G91_T0.6070.49
18_V22_K0.6010.48
126_L159_W0.5920.47
149_Y161_T0.5920.47
36_G80_L0.5890.47
31_F39_M0.5870.46
64_Y89_I0.5860.46
21_S28_R0.5840.46
97_L101_K0.5760.45
41_G51_N0.5740.45
97_L100_M0.5700.45
44_H50_Q0.5680.44
64_Y69_G0.5670.44
143_Y150_V0.5670.44
145_L149_Y0.5670.44
135_N138_E0.5660.44
88_E104_L0.5620.44
76_D85_R0.5620.44
74_H82_N0.5610.44
144_S147_P0.5610.44
77_G97_L0.5560.43
19_I120_N0.5550.43
10_P22_K0.5530.43
119_T123_A0.5520.43
41_G49_T0.5510.42
116_S159_W0.5500.42
118_L122_E0.5490.42
13_I17_G0.5470.42
66_I72_V0.5470.42
12_W22_K0.5460.42
150_V158_R0.5450.42
136_N145_L0.5430.42
122_E133_G0.5400.41
60_K65_D0.5380.41
9_A50_Q0.5380.41
52_Y57_L0.5370.41
59_A84_V0.5350.41
121_M129_D0.5340.41
10_P45_P0.5320.40
156_K160_K0.5300.40
35_H51_N0.5270.40
11_W86_N0.5240.39
56_R59_A0.5230.39
153_I160_K0.5220.39
56_R63_I0.5220.39
72_V89_I0.5210.39
135_N143_Y0.5210.39
32_I38_E0.5200.39
117_K120_N0.5180.39
52_Y61_Y0.5180.39
59_A73_N0.5170.39
3_R27_P0.5150.38
55_H72_V0.5140.38
5_E8_E0.5130.38
135_N150_V0.5120.38
117_K143_Y0.5100.38
154_R157_R0.5080.38
64_Y70_M0.5040.37
6_V42_Y0.5030.37
96_T100_M0.5030.37
141_E145_L0.5030.37
126_L130_L0.5010.37
6_V9_A0.5010.37
95_N103_G0.5000.37
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  
1u3eM 1 0.9769 100 0.207 Contact Map
1a73A 2 0.7572 87 0.899 Contact Map
1tc3C 1 0.2948 85.1 0.902 Contact Map
3frwA 2 0.5434 79.8 0.907 Contact Map
2cobA 1 0.3988 77.1 0.909 Contact Map
1jkoC 1 0.2659 73.8 0.912 Contact Map
2elhA 1 0.4451 70.7 0.914 Contact Map
4dyqA 5 0.3295 69.9 0.914 Contact Map
1uxcA 1 0.2312 67.2 0.916 Contact Map
1hlvA 1 0.3642 64.6 0.917 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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