Q97U67 - SULSO - GREMLIN Contacts

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Q97U67 - First ORF in transposon ISC1904

UniProt:	Q97U67	Sequences: MLRPKEACQRLGISYATLREYVKKGYIKPVILQSGKWRFREEDIERLMGIIRKRKVILYARVSSSTQKDDLVNQVKYLEEQVKEYDLVITDIGSGLNMKRKGFLKLLRMILNNEVSRVVVAYPDRLVRFGFEILEETCKAHGCEIVVLNQEDKEEELVEDLVSILVSFSGKLYGMRSHKYEKVKKCAEELKN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	192 (182)
Sequences:	481 (333)
Seq/√Len:	24.7

SULSO - Q97U67 Q97U52 Q97XB5 Q97YH2 Q97UQ9 Q97YI6 Q97YU0 Q97YX0 Q97XI0 Q97XQ1 Q97XZ4 Q97X40 Q97Z60 Q97X25 Q97WZ6 Q97Y49

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_V	117_R	4.315	1.00
60_A	78_L	4.036	1.00
82_V	119_V	3.550	1.00
117_R	144_E	3.513	1.00
7_A	11_L	2.796	0.99
58_L	148_L	2.655	0.99
103_F	126_L	2.622	0.99
110_I	138_C	2.598	0.99
13_I	21_Y	2.457	0.99
17_T	21_Y	2.457	0.99
91_D	102_G	2.425	0.98
5_K	9_Q	2.274	0.98
135_E	139_K	2.255	0.97
16_A	19_R	2.193	0.97
2_L	7_A	2.180	0.97
106_L	115_V	2.148	0.96
75_V	88_V	2.037	0.95
22_V	37_W	1.934	0.94
111_L	141_H	1.897	0.93
18_L	39_F	1.885	0.93
98_M	132_E	1.874	0.93
77_Y	121_A	1.863	0.92
96_L	129_F	1.846	0.92
58_L	78_L	1.825	0.92
131_F	145_I	1.821	0.91
55_K	109_M	1.763	0.90
119_V	132_E	1.738	0.89
75_V	90_T	1.704	0.88
110_I	118_V	1.690	0.88
131_F	147_V	1.683	0.88
110_I	115_V	1.678	0.88
138_C	143_C	1.665	0.87
3_R	34_S	1.660	0.87
89_I	102_G	1.569	0.84
22_V	29_P	1.562	0.84
127_V	131_F	1.560	0.83
4_P	19_R	1.558	0.83
58_L	88_V	1.536	0.82
85_Y	146_V	1.533	0.82
109_M	114_E	1.500	0.81
72_V	76_K	1.477	0.80
98_M	167_S	1.465	0.79
166_V	177_S	1.449	0.79
70_D	73_N	1.403	0.76
16_A	24_K	1.402	0.76
155_E	159_E	1.399	0.76
26_Y	33_Q	1.392	0.76
56_V	144_E	1.381	0.75
7_A	44_I	1.373	0.75
12_G	142_G	1.373	0.75
40_R	43_D	1.360	0.74
17_T	20_E	1.350	0.73
31_I	37_W	1.306	0.71
27_I	30_V	1.304	0.71
167_S	170_G	1.303	0.71
96_L	130_G	1.301	0.70
119_V	146_V	1.270	0.69
4_P	18_L	1.240	0.67
138_C	172_L	1.236	0.66
7_A	27_I	1.213	0.65
8_C	13_I	1.209	0.65
89_I	118_V	1.208	0.65
20_E	23_K	1.206	0.65
166_V	170_G	1.201	0.64
14_S	20_E	1.195	0.64
121_A	178_H	1.191	0.64
170_G	175_M	1.186	0.63
15_Y	19_R	1.183	0.63
22_V	27_I	1.174	0.62
62_V	67_Q	1.170	0.62
110_I	120_V	1.166	0.62
8_C	15_Y	1.166	0.62
131_F	134_L	1.154	0.61
91_D	167_S	1.152	0.61
57_I	75_V	1.146	0.60
43_D	46_R	1.126	0.59
122_Y	159_E	1.120	0.59
64_S	67_Q	1.100	0.57
62_V	71_L	1.083	0.56
22_V	39_F	1.078	0.56
67_Q	70_D	1.074	0.55
78_L	148_L	1.072	0.55
58_L	82_V	1.062	0.55
28_K	43_D	1.042	0.53
68_K	179_K	1.036	0.53
173_Y	176_R	1.032	0.52
159_E	170_G	1.022	0.52
57_I	89_I	1.021	0.52
76_K	79_E	1.020	0.52
170_G	177_S	1.017	0.51
164_I	174_G	1.004	0.50
3_R	38_R	1.003	0.50
82_V	85_Y	0.995	0.50
89_I	106_L	0.993	0.50
26_Y	34_S	0.976	0.48
56_V	119_V	0.976	0.48
91_D	121_A	0.976	0.48
27_I	134_L	0.974	0.48
72_V	75_V	0.972	0.48
2_L	38_R	0.968	0.48
95_G	126_L	0.964	0.48
117_R	146_V	0.963	0.47
11_L	18_L	0.958	0.47
4_P	29_P	0.955	0.47
98_M	127_V	0.951	0.47
8_C	18_L	0.936	0.45
56_V	93_G	0.931	0.45
127_V	134_L	0.929	0.45
81_Q	146_V	0.915	0.44
75_V	107_L	0.911	0.44
54_R	142_G	0.909	0.44
161_L	165_L	0.908	0.44
158_V	161_L	0.891	0.42
39_F	43_D	0.882	0.42
171_K	175_M	0.879	0.41
77_Y	149_N	0.879	0.41
3_R	33_Q	0.875	0.41
18_L	22_V	0.867	0.41
13_I	20_E	0.863	0.40
4_P	15_Y	0.861	0.40
22_V	31_I	0.859	0.40
148_L	154_E	0.859	0.40
134_L	138_C	0.857	0.40
156_E	168_F	0.854	0.40
157_L	166_V	0.851	0.40
14_S	172_L	0.850	0.39
129_F	160_D	0.844	0.39
51_I	134_L	0.840	0.39
5_K	34_S	0.839	0.39
19_R	39_F	0.838	0.39
78_L	143_C	0.831	0.38
19_R	22_V	0.829	0.38
7_A	18_L	0.827	0.38
155_E	158_V	0.826	0.38
8_C	171_K	0.823	0.38
166_V	178_H	0.820	0.37
48_M	108_R	0.815	0.37
108_R	140_A	0.814	0.37
138_C	169_S	0.812	0.37
161_L	174_G	0.809	0.37
7_A	38_R	0.806	0.36
79_E	88_V	0.796	0.36
110_I	143_C	0.790	0.35
157_L	160_D	0.789	0.35
63_S	67_Q	0.786	0.35
95_G	103_F	0.777	0.35
42_E	73_N	0.764	0.34
50_I	114_E	0.754	0.33
4_P	7_A	0.746	0.33
161_L	164_I	0.745	0.33
2_L	11_L	0.734	0.32
30_V	38_R	0.731	0.32
73_N	162_V	0.727	0.31
50_I	116_S	0.726	0.31
6_E	43_D	0.725	0.31
93_G	163_S	0.723	0.31
97_N	128_R	0.717	0.31
118_V	145_I	0.712	0.30
97_N	141_H	0.709	0.30
84_E	119_V	0.707	0.30
100_R	127_V	0.698	0.30
19_R	36_K	0.698	0.30
63_S	128_R	0.692	0.29
160_D	174_G	0.683	0.29
81_Q	85_Y	0.680	0.29
33_Q	113_N	0.679	0.28
55_K	116_S	0.674	0.28
121_A	166_V	0.671	0.28
19_R	31_I	0.671	0.28
130_G	146_V	0.670	0.28
160_D	164_I	0.670	0.28
64_S	73_N	0.669	0.28
137_T	140_A	0.669	0.28
13_I	16_A	0.668	0.28
91_D	145_I	0.668	0.28
56_V	116_S	0.667	0.28
57_I	106_L	0.665	0.28
135_E	152_D	0.664	0.28
57_I	115_V	0.664	0.28
153_K	175_M	0.662	0.27
81_Q	149_N	0.659	0.27
87_L	100_R	0.656	0.27
86_D	119_V	0.656	0.27
9_Q	68_K	0.655	0.27
19_R	37_W	0.649	0.27
119_V	134_L	0.647	0.27
107_L	146_V	0.647	0.27
70_D	121_A	0.646	0.27
103_F	127_V	0.645	0.27
73_N	76_K	0.642	0.26
67_Q	73_N	0.641	0.26
31_I	36_K	0.640	0.26
64_S	174_G	0.640	0.26
178_H	182_K	0.634	0.26
6_E	146_V	0.632	0.26
54_R	112_N	0.630	0.26
119_V	136_E	0.630	0.26
147_V	165_L	0.624	0.25
54_R	143_C	0.622	0.25
45_E	48_M	0.620	0.25
14_S	22_V	0.620	0.25
103_F	167_S	0.620	0.25
76_K	80_E	0.619	0.25
139_K	171_K	0.618	0.25
157_L	168_F	0.617	0.25
93_G	97_N	0.616	0.25
134_L	157_L	0.616	0.25
9_Q	57_I	0.605	0.24
12_G	129_F	0.603	0.24
129_F	164_I	0.603	0.24
4_P	8_C	0.597	0.24
35_G	90_T	0.589	0.24
107_L	118_V	0.586	0.23
135_E	145_I	0.586	0.23
15_Y	37_W	0.585	0.23
129_F	174_G	0.584	0.23
23_K	101_K	0.582	0.23
52_R	65_S	0.580	0.23
77_Y	91_D	0.580	0.23
92_I	100_R	0.579	0.23
6_E	157_L	0.579	0.23
20_E	29_P	0.577	0.23
53_K	57_I	0.577	0.23
103_F	116_S	0.570	0.23
77_Y	178_H	0.566	0.22
32_L	41_E	0.566	0.22
175_M	182_K	0.565	0.22
120_V	147_V	0.565	0.22
107_L	111_L	0.564	0.22
127_V	163_S	0.559	0.22
8_C	12_G	0.558	0.22
110_I	145_I	0.557	0.22
69_D	164_I	0.556	0.22
90_T	137_T	0.555	0.22
66_T	121_A	0.555	0.22
44_I	118_V	0.551	0.22
92_I	101_K	0.551	0.22
32_L	36_K	0.550	0.22
161_L	168_F	0.548	0.21
177_S	180_Y	0.548	0.21
77_Y	163_S	0.547	0.21
130_G	169_S	0.547	0.21
91_D	98_M	0.546	0.21
10_R	90_T	0.544	0.21
93_G	144_E	0.544	0.21
170_G	178_H	0.542	0.21
81_Q	148_L	0.535	0.21
52_R	179_K	0.534	0.21
22_V	32_L	0.533	0.21
48_M	114_E	0.532	0.21
34_S	113_N	0.532	0.21
96_L	156_E	0.532	0.21
92_I	145_I	0.531	0.21
2_L	22_V	0.531	0.21
96_L	133_I	0.530	0.21
165_L	169_S	0.526	0.20
97_N	106_L	0.525	0.20
149_N	153_K	0.523	0.20
169_S	175_M	0.522	0.20
63_S	129_F	0.521	0.20
8_C	103_F	0.521	0.20
30_V	43_D	0.519	0.20
44_I	48_M	0.518	0.20
27_I	43_D	0.515	0.20
115_V	143_C	0.512	0.20
111_L	137_T	0.512	0.20
99_K	171_K	0.512	0.20
16_A	26_Y	0.506	0.19
99_K	141_H	0.505	0.19
98_M	118_V	0.504	0.19
65_S	113_N	0.501	0.19
120_V	160_D	0.501	0.19
67_Q	101_K	0.500	0.19

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

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

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	0.7188	100	0.65	Contact Map
3lhkA	2	0.7292	99.9	0.658	Contact Map
3g13A	2	0.7292	99.8	0.737	Contact Map
3bvpA	4	0.625	99.8	0.745	Contact Map
4bqqA	2	0.6979	99.8	0.747	Contact Map
3guvA	2	0.6875	99.8	0.748	Contact Map
2mhcA	1	0.5625	99.8	0.749	Contact Map
2gm5A	4	0.6146	99.7	0.757	Contact Map
1gdtA	2	0.6875	99.7	0.763	Contact Map
3pkzA	4	0.5833	99.7	0.764	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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