GREMLIN Database
Q97YH2 - First ORF in transposon ISC1904
UniProt: Q97YH2 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 195 (183)
Sequences: 475 (331)
Seq/√Len: 24.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
56_V117_R4.2161.00
60_A78_L4.0601.00
82_V119_V3.4981.00
117_R144_E3.3881.00
7_A11_L2.7740.99
58_L148_L2.6570.99
110_I138_C2.6310.99
103_F126_L2.5570.99
13_I21_Y2.4790.99
17_T21_Y2.4130.98
91_D102_G2.4010.98
135_E139_K2.3760.98
111_L141_H2.2450.97
5_K9_Q2.2410.97
106_L115_V2.1940.97
16_A19_R2.1500.96
119_V132_E2.0100.95
18_L39_F1.9990.95
58_L78_L1.9610.94
22_V37_W1.9300.93
96_L129_F1.8830.93
75_V88_V1.8720.92
98_M132_E1.7760.90
77_Y121_A1.7000.88
58_L88_V1.6860.88
110_I115_V1.6610.87
127_V131_F1.6560.87
87_Q109_M1.6340.86
75_V90_T1.6250.86
89_I102_G1.6210.85
55_K109_M1.6180.85
110_I120_V1.6080.85
22_V29_P1.6060.85
131_F145_I1.5960.85
131_F147_V1.5960.85
3_R34_S1.5640.83
138_C143_C1.5380.82
119_V146_V1.5270.82
4_P19_R1.5260.82
110_I118_V1.5080.81
109_M114_E1.4730.79
98_M167_S1.4720.79
16_A24_K1.4700.79
166_V177_S1.4430.78
72_V76_K1.4400.78
40_R43_D1.4330.77
82_V85_Y1.3990.76
155_E159_E1.3760.74
12_G142_N1.3670.74
26_Y33_Q1.3210.71
7_A27_I1.3170.71
7_A44_I1.3110.71
96_L130_G1.3020.70
167_S170_G1.3010.70
138_C172_L1.2970.70
121_A178_H1.2930.70
70_D73_N1.2660.68
8_C13_I1.2560.67
122_Y159_E1.2500.67
27_I30_V1.2500.67
107_L111_L1.2310.66
56_V144_E1.2210.65
14_S20_E1.2190.65
91_D167_S1.2170.65
3_R38_R1.2130.65
64_S67_Q1.2130.65
4_P18_L1.2090.64
17_T20_E1.2010.64
22_V27_I1.2000.64
31_I37_W1.1900.63
164_A174_G1.1750.62
15_Y19_R1.1670.62
57_I75_V1.1630.61
76_K79_E1.1510.60
170_G175_M1.1400.60
56_V119_V1.1260.59
62_V67_Q1.1040.57
166_V170_G1.1010.57
8_C15_Y1.0890.56
81_Q85_Y1.0870.56
22_V39_F1.0860.56
85_Y148_L1.0850.56
81_Q146_V1.0790.55
89_I106_L1.0740.55
78_L148_L1.0630.54
8_C18_L1.0600.54
67_Q70_D1.0550.54
20_E23_K1.0400.53
173_Y176_R1.0320.52
62_V71_L1.0280.52
54_R142_N1.0240.51
57_I89_I1.0120.51
95_G126_L0.9910.49
138_C169_S0.9800.48
27_I134_L0.9700.48
89_I118_V0.9700.48
170_G177_S0.9700.48
131_F134_L0.9660.47
56_V93_G0.9660.47
159_E170_G0.9510.46
4_P29_P0.9420.46
42_E73_N0.9420.46
73_N162_M0.9410.46
129_F160_D0.9390.45
58_L82_V0.9370.45
67_Q73_N0.9330.45
7_A18_L0.9300.45
117_R146_V0.9250.44
127_V134_L0.9220.44
161_L165_L0.9190.44
13_I20_E0.9190.44
27_I43_D0.9070.43
183_V186_C0.9040.43
28_K43_D0.9040.43
75_V107_L0.9010.43
91_D121_A0.8940.42
19_R22_V0.8930.42
171_K175_M0.8900.42
72_V75_V0.8800.41
43_D46_R0.8750.41
14_S172_L0.8730.41
93_G163_S0.8660.40
7_A38_R0.8640.40
19_R31_I0.8640.40
11_L18_L0.8620.40
158_V161_L0.8610.40
134_L138_C0.8510.39
18_L22_V0.8410.39
5_K34_S0.8370.38
156_E168_F0.8350.38
155_E158_V0.8340.38
4_P15_Y0.8310.38
77_Y149_N0.8290.38
6_E43_D0.8270.38
8_C171_K0.8220.37
39_F43_D0.8150.37
98_M127_V0.8150.37
84_E119_V0.8100.36
3_R33_Q0.7990.36
19_R39_F0.7980.36
26_Y34_S0.7910.35
177_S183_V0.7900.35
4_P7_A0.7880.35
110_I143_C0.7850.35
166_V178_H0.7830.35
54_R143_C0.7800.35
157_L166_V0.7780.34
85_Y146_V0.7780.34
22_V31_I0.7730.34
63_S67_Q0.7720.34
81_Q149_N0.7660.34
64_S73_N0.7650.34
121_A166_V0.7640.33
70_D121_A0.7590.33
24_K52_R0.7570.33
30_V38_R0.7540.33
160_D174_G0.7500.33
33_Q113_N0.7460.32
153_K175_M0.7370.32
57_I106_L0.7360.32
107_L146_V0.7300.31
170_G186_C0.7270.31
55_K87_Q0.7200.31
181_E185_K0.7180.31
56_V87_Q0.7100.30
100_R127_V0.7080.30
6_E157_L0.6990.29
46_R122_Y0.6950.29
50_I114_E0.6900.29
23_K31_I0.6870.29
111_L137_V0.6860.29
85_Y121_A0.6840.29
118_V183_V0.6810.28
108_R140_A0.6810.28
97_N141_H0.6800.28
79_E88_V0.6760.28
96_L133_I0.6750.28
19_R36_K0.6740.28
95_G103_F0.6740.28
6_E146_V0.6730.28
78_L143_C0.6720.28
63_S128_R0.6660.28
129_F174_G0.6650.27
76_K80_E0.6600.27
44_I118_V0.6540.27
130_G169_S0.6500.27
3_R36_K0.6500.27
129_F164_A0.6470.26
13_I16_A0.6460.26
103_F167_S0.6410.26
98_M183_V0.6390.26
103_F116_S0.6390.26
54_R112_N0.6340.26
4_P8_C0.6320.26
161_L164_A0.6290.25
73_N76_K0.6270.25
9_Q68_K0.6220.25
23_K101_K0.6190.25
77_Y163_S0.6160.25
120_V147_V0.6090.24
36_K39_F0.6070.24
48_M114_E0.6050.24
119_V136_E0.6040.24
44_I85_Y0.6030.24
55_K116_S0.6010.24
10_R90_T0.5990.24
19_R37_W0.5980.24
169_S175_M0.5980.24
34_S113_N0.5950.24
57_I115_V0.5950.24
118_V126_L0.5950.24
13_I38_R0.5940.24
157_L160_D0.5920.24
14_S22_V0.5910.23
26_Y165_L0.5900.23
5_K19_R0.5890.23
99_K171_K0.5890.23
6_E57_I0.5860.23
28_K47_L0.5810.23
161_L174_G0.5810.23
58_L149_N0.5810.23
21_Y38_R0.5810.23
139_K171_K0.5790.23
119_V181_E0.5780.23
120_V160_D0.5760.23
99_K141_H0.5720.22
92_I100_R0.5690.22
118_V145_I0.5680.22
148_L154_E0.5660.22
120_V145_I0.5660.22
119_V134_L0.5640.22
32_L41_E0.5630.22
6_E32_L0.5620.22
160_D164_A0.5620.22
5_K8_C0.5620.22
115_V143_C0.5590.22
68_K179_K0.5560.22
12_G129_F0.5560.22
8_C103_F0.5550.22
16_A20_E0.5550.22
81_Q148_L0.5540.22
66_T121_A0.5520.22
44_I48_M0.5490.21
77_Y178_H0.5480.21
51_I106_L0.5470.21
56_V116_S0.5430.21
15_Y37_W0.5430.21
92_I145_I0.5420.21
157_L168_F0.5380.21
134_L157_L0.5370.21
126_L133_I0.5340.21
89_I104_L0.5330.21
64_S174_G0.5320.21
13_I31_I0.5310.21
118_V147_V0.5310.21
63_S129_F0.5300.20
103_F127_V0.5270.20
127_V163_S0.5240.20
101_K154_E0.5240.20
30_V43_D0.5210.20
77_Y91_D0.5170.20
98_M103_F0.5160.20
91_D145_I0.5150.20
124_D128_R0.5130.20
137_V140_A0.5120.20
9_Q12_G0.5100.20
104_L134_L0.5080.19
52_R119_V0.5070.19
8_C12_G0.5070.19
165_L169_S0.5050.19
70_D132_E0.5050.19
80_E150_Q0.5030.19
5_K25_G0.5010.19
118_V134_L0.5000.19
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  
3ilxA 2 0.7077 100 0.661 Contact Map
3lhkA 2 0.7231 99.9 0.667 Contact Map
3g13A 2 0.7179 99.8 0.742 Contact Map
3bvpA 4 0.6359 99.8 0.747 Contact Map
4bqqA 2 0.7026 99.8 0.751 Contact Map
3guvA 2 0.6769 99.8 0.753 Contact Map
2mhcA 1 0.5538 99.8 0.754 Contact Map
2gm5A 4 0.6051 99.8 0.758 Contact Map
3pkzA 4 0.5744 99.7 0.767 Contact Map
1gdtA 2 0.6923 99.7 0.767 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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