Q97YF7 - SULSO - GREMLIN Contacts

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Q97YF7 - Second ORF in transposon ISC1316

UniProt:	Q97YF7	Sequences: MVKHHWRVVVKLTRSERIYITFVVDHEFPKLPNTGKVVAIDVGVEKLLVTSDGEYFPNLRPYEKALWKVKHLHRELSRKKFLSHNWFKAKVKLARAYEHLKNLRTDLYMKLGKWFAEHYDVVVMEDIHAKQLVGKSLRSLRRRLSDVGFGELRDVLKYQLEKYGKKLILVNPAYTSKTCARCGYVKNDLSLSDRVFVCPNCGWIADRDYNASLNILRGSGSERPLVWSSALYQYSGKVGL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	240 (213)
Sequences:	4758 (2898)
Seq/√Len:	198.5

ECOLI - INSQ
HALSA - Q9HSD4 Q9HSY4 Q9HSW9 Q9HSW7 Q9HHU6 Q9HM87 Q9HHG8 Q9HHJ9 Q9HHX8 Q9HSZ6
SULSO - Q97YF7 Q97YW4 Q97U09 Q97XA4 Q97XQ8 Q97Y44 Q97V53 Q97XP1 Q97V25 Q97YI2 Q97V47 Q7LX59 Q97X39 Q97WY6 Q97XQ0 Q97WZ3 Q97Y67 Q97YI5 Q97XB6 Q97Y48 Q97YU1 Q97U68 Q97U51 Q97Z61 Q97UQ8 Q7LXH2 Q97YW9 Q7LXD9 Q7LXH6 Q97YK6 Q97YH4 Y2105 Q97XN2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
106_D	110_K	4.723	1.00
180_A	210_N	3.803	1.00
128_H	131_Q	3.392	1.00
160_L	167_L	3.191	1.00
153_R	169_L	2.777	1.00
123_V	219_S	2.657	1.00
151_E	155_V	2.612	1.00
113_K	117_E	2.592	1.00
124_M	156_L	2.462	1.00
47_L	152_L	2.445	1.00
133_V	145_S	2.383	1.00
8_V	20_I	2.365	1.00
190_S	193_D	2.205	1.00
157_K	169_L	2.189	1.00
218_G	221_S	2.165	1.00
178_T	185_V	2.082	1.00
174_Y	177_K	2.082	1.00
66_L	142_R	2.081	1.00
116_A	160_L	2.010	1.00
175_T	215_I	1.962	1.00
65_A	103_L	1.954	1.00
197_V	204_I	1.924	1.00
109_M	155_V	1.924	1.00
138_R	141_R	1.912	1.00
151_E	154_D	1.885	1.00
109_M	158_Y	1.883	1.00
170_V	215_I	1.861	1.00
177_K	189_L	1.806	1.00
105_T	151_E	1.783	1.00
72_L	89_A	1.766	1.00
122_V	160_L	1.754	1.00
6_W	25_D	1.742	1.00
181_R	203_W	1.724	1.00
40_I	48_L	1.701	1.00
152_L	156_L	1.689	1.00
109_M	159_Q	1.684	1.00
112_G	155_V	1.680	1.00
108_Y	155_V	1.670	1.00
182_C	201_C	1.664	1.00
47_L	107_L	1.652	1.00
109_M	112_G	1.642	1.00
124_M	167_L	1.621	1.00
120_D	165_K	1.614	1.00
108_Y	151_E	1.566	1.00
194_R	207_R	1.556	1.00
198_C	201_C	1.490	1.00
89_A	93_L	1.481	1.00
182_C	198_C	1.475	1.00
84_H	87_F	1.461	1.00
157_K	161_E	1.459	1.00
76_L	90_K	1.448	1.00
124_M	169_L	1.435	1.00
179_C	182_C	1.418	1.00
124_M	153_R	1.416	1.00
196_F	205_A	1.370	1.00
38_V	119_Y	1.369	1.00
50_T	54_E	1.346	1.00
49_V	209_Y	1.341	1.00
196_F	203_W	1.340	1.00
125_E	172_P	1.334	1.00
179_C	198_C	1.334	1.00
179_C	201_C	1.333	1.00
98_E	102_N	1.326	1.00
126_D	169_L	1.319	1.00
79_K	89_A	1.314	1.00
17_R	98_E	1.313	1.00
37_V	216_L	1.310	1.00
186_K	189_L	1.309	1.00
75_E	79_K	1.282	1.00
87_F	90_K	1.276	1.00
112_G	158_Y	1.252	1.00
213_L	217_R	1.252	1.00
186_K	196_F	1.250	1.00
46_K	49_V	1.250	1.00
82_L	86_W	1.239	1.00
37_V	121_V	1.233	1.00
13_T	16_E	1.229	1.00
180_A	213_L	1.225	1.00
68_K	72_L	1.221	1.00
72_L	75_E	1.221	1.00
114_W	118_H	1.194	1.00
11_K	21_T	1.191	1.00
184_Y	199_P	1.185	1.00
15_S	98_E	1.182	1.00
39_A	216_L	1.178	1.00
144_L	149_F	1.161	1.00
40_I	50_T	1.154	1.00
112_G	159_Q	1.153	1.00
128_H	172_P	1.153	1.00
112_G	152_L	1.147	1.00
195_V	204_I	1.139	1.00
116_A	163_Y	1.122	1.00
186_K	199_P	1.111	1.00
38_V	50_T	1.104	1.00
42_V	153_R	1.083	1.00
155_V	158_Y	1.069	1.00
42_V	149_F	1.060	1.00
186_K	190_S	1.057	1.00
117_E	163_Y	1.047	1.00
69_V	97_Y	1.046	1.00
180_A	205_A	1.043	1.00
189_L	193_D	1.037	1.00
105_T	155_V	1.027	1.00
76_L	89_A	1.026	1.00
72_L	96_A	1.024	1.00
13_T	17_R	1.019	1.00
184_Y	200_N	1.017	1.00
73_H	77_S	1.013	1.00
37_V	220_G	1.008	1.00
116_A	165_K	1.008	1.00
157_K	167_L	1.006	1.00
108_Y	152_L	1.005	1.00
65_A	100_L	1.004	1.00
191_L	194_R	0.998	1.00
159_Q	162_K	0.993	1.00
51_S	212_S	0.992	1.00
44_V	147_V	0.990	1.00
178_T	218_G	0.981	1.00
113_K	163_Y	0.978	0.99
209_Y	213_L	0.974	0.99
170_V	218_G	0.973	0.99
34_T	120_D	0.952	0.99
49_V	55_Y	0.950	0.99
205_A	213_L	0.949	0.99
170_V	219_S	0.948	0.99
175_T	218_G	0.945	0.99
108_Y	112_G	0.941	0.99
76_L	93_L	0.936	0.99
160_L	165_K	0.929	0.99
177_K	187_N	0.926	0.99
205_A	209_Y	0.915	0.99
154_D	157_K	0.910	0.99
69_V	93_L	0.904	0.99
7_R	23_V	0.903	0.99
36_K	120_D	0.902	0.99
138_R	145_S	0.865	0.99
191_L	207_R	0.854	0.99
17_R	102_N	0.852	0.99
79_K	85_N	0.851	0.99
172_P	175_T	0.847	0.99
150_G	154_D	0.845	0.99
9_V	21_T	0.844	0.99
177_K	185_V	0.843	0.99
133_V	141_R	0.841	0.98
61_P	103_L	0.839	0.98
37_V	123_V	0.838	0.98
108_Y	148_G	0.836	0.98
86_W	90_K	0.829	0.98
210_N	214_N	0.829	0.98
69_V	77_S	0.824	0.98
99_H	103_L	0.819	0.98
189_L	196_F	0.818	0.98
121_V	168_I	0.816	0.98
123_V	215_I	0.816	0.98
73_H	93_L	0.808	0.98
126_D	172_P	0.807	0.98
174_Y	218_G	0.800	0.98
55_Y	206_D	0.796	0.98
92_K	95_R	0.796	0.98
121_V	166_K	0.795	0.98
101_K	105_T	0.794	0.98
44_V	143_R	0.792	0.98
180_A	211_A	0.790	0.98
13_T	98_E	0.783	0.98
190_S	194_R	0.782	0.98
90_K	94_A	0.779	0.98
112_G	156_L	0.779	0.98
69_V	100_L	0.776	0.97
123_V	168_I	0.776	0.97
72_L	92_K	0.774	0.97
10_V	20_I	0.759	0.97
61_P	65_A	0.757	0.97
194_R	206_D	0.756	0.97
209_Y	212_S	0.755	0.97
126_D	153_R	0.752	0.97
71_H	75_E	0.749	0.97
116_A	122_V	0.747	0.97
51_S	55_Y	0.745	0.97
33_N	36_K	0.742	0.97
107_L	111_L	0.741	0.97
58_N	147_V	0.741	0.97
62_Y	66_L	0.737	0.97
76_L	86_W	0.736	0.96
70_K	74_R	0.736	0.96
46_K	55_Y	0.730	0.96
31_L	165_K	0.728	0.96
115_F	122_V	0.725	0.96
73_H	97_Y	0.725	0.96
180_A	203_W	0.725	0.96
190_S	207_R	0.713	0.96
102_N	106_D	0.709	0.96
46_K	57_P	0.708	0.96
177_K	188_D	0.707	0.96
85_N	88_K	0.704	0.95
58_N	61_P	0.702	0.95
111_L	114_W	0.701	0.95
48_L	111_L	0.700	0.95
158_Y	162_K	0.700	0.95
96_A	100_L	0.699	0.95
44_V	133_V	0.699	0.95
129_A	150_G	0.699	0.95
129_A	149_F	0.690	0.95
193_D	196_F	0.690	0.95
168_I	219_S	0.689	0.95
178_T	214_N	0.688	0.95
193_D	207_R	0.679	0.95
65_A	69_V	0.678	0.94
113_K	159_Q	0.676	0.94
123_V	216_L	0.674	0.94
43_G	49_V	0.674	0.94
180_A	217_R	0.671	0.94
75_E	78_R	0.668	0.94
72_L	93_L	0.668	0.94
140_L	144_L	0.667	0.94
11_K	14_R	0.666	0.94
28_F	162_K	0.666	0.94
55_Y	209_Y	0.665	0.94
82_L	87_F	0.664	0.94
195_V	205_A	0.663	0.94
31_L	34_T	0.659	0.94
49_V	56_F	0.651	0.93
174_Y	185_V	0.648	0.93
177_K	186_K	0.647	0.93
69_V	73_H	0.646	0.93
211_A	214_N	0.641	0.93
54_E	114_W	0.640	0.93
133_V	138_R	0.639	0.93
62_Y	65_A	0.635	0.92
117_E	121_V	0.634	0.92
70_K	73_H	0.628	0.92
105_T	109_M	0.627	0.92
83_S	86_W	0.626	0.92
74_R	77_S	0.624	0.92
28_F	161_E	0.621	0.91
50_T	115_F	0.619	0.91
127_I	172_P	0.616	0.91
155_V	159_Q	0.613	0.91
42_V	48_L	0.612	0.91
5_H	8_V	0.611	0.91
56_F	111_L	0.611	0.91
51_S	209_Y	0.608	0.91
110_K	113_K	0.607	0.91
100_L	146_D	0.604	0.90
133_V	139_S	0.603	0.90
74_R	78_R	0.602	0.90
68_K	96_A	0.602	0.90
35_G	120_D	0.601	0.90
178_T	187_N	0.601	0.90
38_V	122_V	0.601	0.90
52_D	119_Y	0.599	0.90
104_R	146_D	0.599	0.90
213_L	216_L	0.597	0.90
70_K	77_S	0.596	0.90
39_A	123_V	0.595	0.90
63_E	66_L	0.591	0.89
181_R	213_L	0.590	0.89
153_R	157_K	0.590	0.89
65_A	96_A	0.589	0.89
87_F	91_V	0.583	0.89
97_Y	104_R	0.581	0.89
181_R	205_A	0.580	0.88
8_V	22_F	0.580	0.88
11_K	23_V	0.580	0.88
47_L	112_G	0.577	0.88
188_D	193_D	0.577	0.88
64_K	67_W	0.575	0.88
47_L	108_Y	0.573	0.88
38_V	51_S	0.572	0.88
132_L	144_L	0.572	0.88
131_Q	172_P	0.569	0.88
111_L	152_L	0.568	0.87
77_S	93_L	0.567	0.87
205_A	210_N	0.564	0.87
150_G	153_R	0.564	0.87
191_L	206_D	0.564	0.87
47_L	147_V	0.563	0.87
215_I	218_G	0.562	0.87
45_E	49_V	0.562	0.87
46_K	206_D	0.561	0.87
140_L	143_R	0.561	0.87
71_H	74_R	0.557	0.86
173_A	177_K	0.555	0.86
76_L	79_K	0.552	0.86
189_L	207_R	0.551	0.86
119_Y	122_V	0.549	0.86
102_N	105_T	0.547	0.85
48_L	152_L	0.546	0.85
174_Y	178_T	0.546	0.85
56_F	59_L	0.542	0.85
93_L	97_Y	0.542	0.85
13_T	18_I	0.541	0.85
75_E	92_K	0.540	0.85
153_R	167_L	0.536	0.84
86_W	89_A	0.536	0.84
109_M	113_K	0.536	0.84
100_L	104_R	0.530	0.84
16_E	98_E	0.528	0.83
196_F	207_R	0.527	0.83
178_T	183_G	0.526	0.83
197_V	203_W	0.523	0.83
11_K	18_I	0.522	0.83
65_A	99_H	0.520	0.82
39_A	51_S	0.520	0.82
176_S	189_L	0.518	0.82
141_R	145_S	0.518	0.82
63_E	143_R	0.517	0.82
187_N	190_S	0.516	0.82
122_V	156_L	0.516	0.82
113_K	155_V	0.515	0.82
123_V	218_G	0.514	0.82
112_G	115_F	0.514	0.82
48_L	124_M	0.512	0.81
142_R	146_D	0.507	0.81
189_L	194_R	0.506	0.81
131_Q	140_L	0.505	0.81
187_N	196_F	0.505	0.81
178_T	196_F	0.505	0.81
217_R	220_G	0.504	0.80
75_E	89_A	0.502	0.80
68_K	71_H	0.500	0.80

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
1vhxA	2	0.5792	93.1	0.906	Contact Map
1nu0A	1	0.5417	92.5	0.908	Contact Map
1iv0A	1	0.4042	88.5	0.916	Contact Map
4aybP	1	0.1792	88.2	0.916	Contact Map
1vq8Z	1	0.275	86.3	0.919	Contact Map
3j20Y	1	0.2083	85.6	0.92	Contact Map
1ffkW	1	0.2625	84.1	0.921	Contact Map
1qypA	1	0.1917	83	0.922	Contact Map
2k4xA	1	0.2292	82.2	0.923	Contact Map
1vd4A	1	0.2333	81.4	0.924	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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