GREMLIN Database
Q97YH4 - Third ORF in transposon ISC1904
UniProt: Q97YH4 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 183 (143)
Sequences: 2259 (1289)
Seq/√Len: 107.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
25_D29_K4.1091.00
101_P128_N3.9241.00
49_N52_S3.8701.00
74_H90_E2.8431.00
81_A88_V2.7471.00
44_A137_M2.5831.00
72_S76_V2.5321.00
95_L98_R2.3591.00
45_V77_L2.3571.00
54_F66_S2.2441.00
136_K139_G2.1711.00
91_V133_I2.0251.00
73_I77_L1.9521.00
72_S75_R1.9381.00
96_T133_I1.9241.00
98_R108_R1.8971.00
8_G12_M1.8361.00
17_H21_N1.7591.00
31_V76_V1.7561.00
107_S110_V1.7411.00
32_N36_D1.7211.00
35_L81_A1.7081.00
28_H79_Y1.6721.00
112_K125_R1.6441.00
27_V72_S1.6331.00
65_I70_W1.6321.00
6_R9_R1.6041.00
99_S106_V1.5921.00
98_R110_V1.5691.00
28_H80_K1.5501.00
102_R121_F1.5311.00
57_A62_S1.5191.00
115_E122_K1.4591.00
45_V74_H1.4551.00
28_H76_V1.4461.00
107_S111_G1.4201.00
46_E93_P1.4161.00
27_V76_V1.4141.00
39_P86_S1.3941.00
45_V90_E1.3461.00
78_K90_E1.3280.99
56_D60_S1.3270.99
43_F81_A1.2870.99
114_F123_L1.2870.99
114_F121_F1.2720.99
45_V88_V1.2470.99
24_L72_S1.2300.99
56_D62_S1.2070.99
3_Q6_R1.1870.99
47_K90_E1.1690.99
26_F30_F1.1500.98
18_R22_R1.1380.98
35_L43_F1.1110.98
107_S117_E1.0920.98
5_T9_R1.0880.98
99_S136_K1.0870.98
35_L84_Y1.0600.97
57_A60_S1.0600.97
76_V79_Y1.0570.97
105_F117_E1.0460.97
81_A86_S1.0310.97
35_L86_S1.0280.97
103_C116_C1.0260.97
141_P144_R1.0200.97
27_V73_I1.0190.97
135_L140_F1.0190.97
110_V125_R1.0180.97
111_G125_R1.0020.96
31_V73_I0.9900.96
31_V80_K0.9880.96
28_H31_V0.9870.96
78_K82_P0.9870.96
107_S114_F0.9810.96
4_S7_R0.9690.96
123_L131_L0.9640.95
113_T122_K0.9580.95
16_S23_V0.9510.95
24_L76_V0.9510.95
100_C103_C0.9460.95
31_V77_L0.9460.95
32_N84_Y0.9430.95
5_T8_G0.9350.95
93_P96_T0.9250.94
142_H145_E0.9230.94
121_F131_L0.9190.94
96_T136_K0.9150.94
112_K124_D0.9110.94
103_C119_C0.9040.94
100_C116_C0.9030.94
49_N93_P0.9000.94
50_K71_R0.8960.93
145_E148_R0.8850.93
19_E67_R0.8830.93
60_S64_K0.8760.93
34_L43_F0.8700.92
16_S19_E0.8590.92
50_K53_M0.8560.92
33_T37_L0.8560.92
44_A133_I0.8540.92
4_S11_L0.8530.92
116_C119_C0.8450.91
9_R13_R0.8360.91
80_K83_L0.8350.91
131_L135_L0.8330.91
27_V31_V0.8320.91
101_P123_L0.8300.90
91_V136_K0.8300.90
78_K88_V0.8230.90
30_F33_T0.8140.90
50_K70_W0.8110.89
108_R114_F0.8110.89
62_S66_S0.8110.89
127_L131_L0.8070.89
53_M65_I0.7880.88
48_L93_P0.7870.88
129_A132_N0.7720.87
101_P121_F0.7690.87
105_F118_R0.7540.86
101_P131_L0.7540.86
134_Y138_C0.7480.85
19_E23_V0.7450.85
61_L65_I0.7430.85
20_R24_L0.7420.85
136_K140_F0.7400.85
95_L106_V0.7390.85
99_S132_N0.7370.84
54_F62_S0.7360.84
100_C119_C0.7350.84
131_L134_Y0.7300.84
143_I147_A0.7280.84
79_Y83_L0.7260.83
96_T132_N0.7240.83
143_I146_I0.7220.83
71_R75_R0.7180.83
44_A138_C0.7150.83
15_Y19_E0.7090.82
50_K65_I0.7080.82
140_F145_E0.7060.82
11_L14_K0.7050.82
101_P129_A0.7040.82
144_R147_A0.6930.81
31_V34_L0.6790.79
108_R111_G0.6720.78
36_D84_Y0.6690.78
9_R12_M0.6690.78
128_N132_N0.6680.78
140_F144_R0.6660.78
27_V69_V0.6650.78
47_K93_P0.6650.78
143_I148_R0.6650.78
75_R78_K0.6620.77
57_A64_K0.6610.77
123_L127_L0.6600.77
23_V67_R0.6580.77
97_S111_G0.6440.76
35_L38_Y0.6400.75
38_Y86_S0.6390.75
61_L64_K0.6380.75
51_E71_R0.6340.74
10_E14_K0.6310.74
54_F57_A0.6210.73
74_H78_K0.6170.72
31_V43_F0.6110.72
36_D42_F0.6080.71
15_Y18_R0.6080.71
46_E129_A0.6050.71
107_S125_R0.6000.70
95_L136_K0.6000.70
138_C142_H0.5990.70
137_M141_P0.5990.70
54_F65_I0.5960.70
101_P135_L0.5950.70
127_L130_S0.5920.69
56_D66_S0.5890.69
24_L28_H0.5880.69
47_K96_T0.5850.68
54_F60_S0.5820.68
111_G114_F0.5750.67
21_N24_L0.5720.67
34_L113_T0.5670.66
52_S65_I0.5640.66
44_A89_K0.5610.65
31_V79_Y0.5590.65
30_F73_I0.5560.64
81_A84_Y0.5550.64
57_A61_L0.5470.63
51_E68_T0.5450.63
74_H88_V0.5450.63
61_L97_S0.5440.63
43_F117_E0.5440.63
104_R132_N0.5410.62
32_N76_V0.5390.62
16_S67_R0.5360.62
135_L138_C0.5270.60
78_K87_F0.5250.60
71_R74_H0.5250.60
115_E123_L0.5250.60
144_R148_R0.5240.60
53_M61_L0.5210.60
117_E125_R0.5210.60
17_H31_V0.5190.59
42_F134_Y0.5170.59
114_F125_R0.5170.59
38_Y42_F0.5150.59
44_A134_Y0.5130.58
32_N80_K0.5130.58
52_S93_P0.5130.58
139_G144_R0.5100.58
38_Y43_F0.5090.58
113_T123_L0.5070.57
142_H148_R0.5060.57
35_L39_P0.5030.57
20_R23_V0.5010.57
114_F117_E0.5000.56
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  
1qypA 1 0.235 90.5 0.902 Contact Map
2k4xA 1 0.2896 89.3 0.904 Contact Map
4aybP 1 0.2186 88.2 0.906 Contact Map
3j20Y 1 0.2623 85.6 0.91 Contact Map
1vhxA 2 0.6612 74.9 0.919 Contact Map
3j3w0 1 0.3005 73.4 0.92 Contact Map
1vd4A 1 0.2896 70.3 0.922 Contact Map
4qiwP 1 0.2131 69.1 0.922 Contact Map
1nu0A 1 0.6175 68.2 0.923 Contact Map
1ffkW 1 0.3825 64.7 0.925 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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