TSX - ECOLI - GREMLIN Contacts

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TSX - Nucleoside-specific channel-forming protein tsx

UniProt:	P0A927	Sequences: MKKTLLAAGAVLALSSSFTVNAAENDKPQYLSDWWHQSVNVVGSYHTRFGPQIRNDTYLEYEAFAKKDWFDFYGYADAPVFFGGNSDAKGIWNHGSPLFMEIEPRFSIDKLTNTDLSFGPFKEWYFANNYIYDMGRNKDGRQSTWYMGLGTDIDTGLPMSLSMNVYAKYQWQNYGAANENEWDGYRFKIKYFVPITDLWGGQLSYIGFTNFDWGSDLGDDSGNAINGIKTRTNNSIASSHILALNYDHWHYSVVARYWHDGGQWNDDAELNFGNGNFNVRSTGWGGYLVVGYNF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11035
Length:	294 (264)
Sequences:	181 (95)
Seq/√Len:	5.9

ECOLI - TSX

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
122_K	154_D	3.919	0.92
21_N	24_E	3.684	0.90
23_A	26_D	3.656	0.89
118_F	121_F	3.460	0.86
163_M	187_F	3.399	0.85
24_E	27_K	3.394	0.85
251_Y	290_V	3.378	0.85
135_G	141_R	3.233	0.82
23_A	27_K	3.231	0.82
70_F	106_F	3.121	0.80
70_F	111_L	3.071	0.79
21_N	26_D	2.986	0.77
203_L	242_L	2.957	0.76
127_A	151_T	2.953	0.76
215_S	263_Q	2.796	0.72
45_Y	288_L	2.732	0.70
30_Y	248_H	2.705	0.69
4_T	10_A	2.694	0.69
20_V	24_E	2.583	0.65
264_W	267_D	2.565	0.65
126_F	147_M	2.559	0.64
21_N	25_N	2.538	0.64
41_V	82_F	2.423	0.60
30_Y	67_K	2.420	0.60
20_V	23_A	2.419	0.60
20_V	26_D	2.404	0.59
51_P	280_R	2.356	0.58
21_N	27_K	2.344	0.57
106_F	111_L	2.305	0.56
146_Y	168_K	2.178	0.51
6_L	16_S	2.145	0.50
205_Y	240_H	2.136	0.50
268_A	279_V	2.120	0.49
131_I	146_Y	2.005	0.45
264_W	279_V	1.992	0.45
48_R	282_T	1.861	0.40
264_W	281_S	1.859	0.40
144_T	168_K	1.833	0.39
20_V	27_K	1.822	0.39
267_D	279_V	1.805	0.39
232_T	264_W	1.771	0.37
20_V	25_N	1.722	0.36
48_R	280_R	1.664	0.34
125_Y	152_D	1.661	0.34
29_Q	110_K	1.639	0.33
161_L	205_Y	1.638	0.33
257_Y	284_W	1.630	0.33
83_G	177_A	1.629	0.33
44_S	54_R	1.615	0.32
159_M	193_V	1.597	0.32
4_T	16_S	1.570	0.31
45_Y	55_N	1.569	0.31
157_L	193_V	1.561	0.31
15_S	23_A	1.524	0.30
96_S	141_R	1.509	0.29
268_A	278_N	1.497	0.29
261_G	266_D	1.468	0.28
48_R	54_R	1.425	0.27
19_T	24_E	1.420	0.27
51_P	285_G	1.417	0.27
97_P	142_Q	1.399	0.26
14_L	21_N	1.369	0.25
127_A	205_Y	1.354	0.25
128_N	147_M	1.352	0.25
151_T	163_M	1.343	0.25
41_V	55_N	1.315	0.24
67_K	248_H	1.280	0.23
158_P	161_L	1.268	0.23
145_W	168_K	1.253	0.22
149_L	265_N	1.253	0.22
6_L	10_A	1.244	0.22
278_N	290_V	1.237	0.22
151_T	187_F	1.212	0.21
9_G	163_M	1.196	0.21
43_G	97_P	1.194	0.21
28_P	113_N	1.172	0.20
183_D	186_R	1.156	0.20
170_Q	186_R	1.152	0.20
15_S	25_N	1.148	0.20
15_S	21_N	1.141	0.20
128_N	133_D	1.141	0.20
168_K	285_G	1.138	0.20
47_T	56_D	1.135	0.20
5_L	8_A	1.127	0.19
15_S	26_D	1.122	0.19
140_G	251_Y	1.116	0.19
5_L	25_N	1.110	0.19
43_G	285_G	1.097	0.19
22_A	33_D	1.091	0.19
70_F	102_I	1.088	0.19
97_P	143_S	1.086	0.19
216_D	219_D	1.079	0.18
29_Q	251_Y	1.076	0.18
100_M	143_S	1.063	0.18
5_L	9_G	1.059	0.18
151_T	203_L	1.056	0.18
231_R	264_W	1.052	0.18
141_R	234_N	1.042	0.18
153_I	165_V	1.040	0.18
57_T	285_G	1.038	0.18
127_A	161_L	1.037	0.18
57_T	98_L	1.035	0.18
80_V	93_N	1.034	0.17
11_V	14_L	1.024	0.17
145_W	285_G	1.021	0.17
264_W	268_A	1.015	0.17
128_N	145_W	1.015	0.17
14_L	23_A	1.014	0.17
10_A	199_W	1.013	0.17
186_R	262_G	1.010	0.17
46_H	55_N	1.010	0.17
215_S	218_G	1.004	0.17
111_L	127_A	0.998	0.17
257_Y	282_T	0.998	0.17
106_F	282_T	0.997	0.17
13_A	290_V	0.994	0.17
127_A	233_N	0.989	0.17
181_E	238_S	0.988	0.17
205_Y	238_S	0.978	0.16
126_F	203_L	0.970	0.16
39_V	61_Y	0.967	0.16
102_I	106_F	0.960	0.16
126_F	130_Y	0.960	0.16
64_F	252_S	0.957	0.16
46_H	285_G	0.956	0.16
108_I	288_L	0.944	0.16
12_L	23_A	0.942	0.16
38_S	244_L	0.942	0.16
6_L	15_S	0.940	0.16
4_T	18_F	0.937	0.16
205_Y	242_L	0.926	0.15
48_R	122_K	0.926	0.15
163_M	214_G	0.903	0.15
131_I	168_K	0.902	0.15
69_W	106_F	0.897	0.15
4_T	14_L	0.893	0.15
46_H	49_F	0.893	0.15
118_F	124_W	0.891	0.15
4_T	9_G	0.889	0.15
43_G	128_N	0.886	0.15
51_P	55_N	0.886	0.15
124_W	187_F	0.884	0.15
165_V	233_N	0.884	0.15
65_A	68_D	0.882	0.15
16_S	27_K	0.880	0.15
183_D	235_S	0.880	0.15
232_T	267_D	0.877	0.15
10_A	18_F	0.868	0.14
25_N	197_D	0.867	0.14
52_Q	278_N	0.861	0.14
13_A	289_V	0.861	0.14
85_N	249_W	0.860	0.14
197_D	290_V	0.859	0.14
281_S	285_G	0.857	0.14
230_T	279_V	0.855	0.14
9_G	197_D	0.855	0.14
124_W	151_T	0.855	0.14
121_F	248_H	0.851	0.14
46_H	50_G	0.849	0.14
22_A	109_D	0.845	0.14
57_T	97_P	0.844	0.14
51_P	127_A	0.842	0.14
161_L	246_Y	0.840	0.14
127_A	209_T	0.840	0.14
56_D	97_P	0.839	0.14
159_M	245_N	0.837	0.14
158_P	257_Y	0.833	0.14
112_T	118_F	0.830	0.14
93_N	289_V	0.825	0.14
219_D	233_N	0.825	0.14
157_L	245_N	0.822	0.14
94_H	265_N	0.821	0.14
106_F	128_N	0.814	0.13
147_M	177_A	0.812	0.13
26_D	31_L	0.811	0.13
76_A	204_S	0.811	0.13
151_T	238_S	0.805	0.13
94_H	126_F	0.801	0.13
206_I	241_I	0.801	0.13
232_T	268_A	0.798	0.13
46_H	250_H	0.798	0.13
216_D	281_S	0.797	0.13
15_S	20_V	0.794	0.13
16_S	26_D	0.794	0.13
126_F	281_S	0.793	0.13
139_D	220_D	0.793	0.13
179_E	268_A	0.792	0.13
43_G	142_Q	0.790	0.13
108_I	149_L	0.789	0.13
158_P	205_Y	0.787	0.13
267_D	281_S	0.785	0.13
67_K	121_F	0.781	0.13
7_A	204_S	0.775	0.13
197_D	204_S	0.772	0.13
5_L	16_S	0.771	0.13
81_F	132_Y	0.770	0.13
259_H	265_N	0.769	0.13
59_L	143_S	0.769	0.13
132_Y	143_S	0.769	0.13
44_S	51_P	0.768	0.13
31_L	205_Y	0.765	0.13
16_S	25_N	0.764	0.13
44_S	98_L	0.763	0.13
5_L	10_A	0.762	0.13
18_F	25_N	0.760	0.13
20_V	154_D	0.758	0.13
14_L	20_V	0.756	0.13
12_L	255_A	0.756	0.13
158_P	218_G	0.754	0.13
237_A	261_G	0.754	0.13
51_P	215_S	0.754	0.13
237_A	258_W	0.753	0.13
18_F	21_N	0.753	0.13
127_A	238_S	0.751	0.12
183_D	262_G	0.750	0.12
186_R	261_G	0.750	0.12
234_N	259_H	0.750	0.12
38_S	246_Y	0.750	0.12
15_S	24_E	0.748	0.12
145_W	177_A	0.748	0.12
15_S	18_F	0.745	0.12
189_I	240_H	0.743	0.12
141_R	284_W	0.741	0.12
19_T	25_N	0.740	0.12
7_A	12_L	0.731	0.12
70_F	110_K	0.728	0.12
81_F	209_T	0.724	0.12
122_K	280_R	0.722	0.12
4_T	19_T	0.721	0.12
16_S	24_E	0.720	0.12
158_P	239_S	0.718	0.12
85_N	135_G	0.716	0.12
131_I	145_W	0.716	0.12
59_L	86_S	0.716	0.12
4_T	8_A	0.716	0.12
96_S	135_G	0.714	0.12
97_P	144_T	0.713	0.12
98_L	133_D	0.712	0.12
199_W	267_D	0.711	0.12
109_D	123_E	0.710	0.12
165_V	187_F	0.710	0.12
163_M	189_I	0.707	0.12
198_L	282_T	0.705	0.12
82_F	257_Y	0.704	0.12
4_T	11_V	0.703	0.12
7_A	11_V	0.703	0.12
135_G	139_D	0.703	0.12
201_G	205_Y	0.702	0.12
253_V	288_L	0.700	0.12
234_N	265_N	0.700	0.12
100_M	132_Y	0.698	0.12
97_P	212_D	0.697	0.12
83_G	145_W	0.697	0.12
19_T	106_F	0.696	0.12
44_S	260_D	0.695	0.12
100_M	126_F	0.694	0.12
83_G	178_N	0.693	0.12
11_V	15_S	0.693	0.12
149_L	260_D	0.692	0.12
10_A	19_T	0.691	0.12
50_G	183_D	0.687	0.12
56_D	179_E	0.686	0.12
41_V	87_D	0.686	0.12
95_G	135_G	0.685	0.11
132_Y	167_A	0.685	0.11
19_T	197_D	0.682	0.11
144_T	177_A	0.682	0.11
5_L	19_T	0.680	0.11
214_G	282_T	0.678	0.11
10_A	149_L	0.678	0.11
10_A	16_S	0.677	0.11
235_S	262_G	0.675	0.11
128_N	143_S	0.672	0.11
78_A	285_G	0.671	0.11
130_Y	147_M	0.670	0.11
179_E	220_D	0.663	0.11
267_D	278_N	0.655	0.11
189_I	209_T	0.654	0.11
10_A	86_S	0.649	0.11
14_L	37_Q	0.648	0.11
124_W	149_L	0.644	0.11
86_S	242_L	0.642	0.11
44_S	82_F	0.639	0.11
127_A	196_T	0.638	0.11
179_E	216_D	0.635	0.11
126_F	145_W	0.632	0.11
43_G	57_T	0.632	0.11
5_L	26_D	0.632	0.11
22_A	28_P	0.632	0.11
143_S	281_S	0.631	0.11
127_A	240_H	0.631	0.11
106_F	196_T	0.631	0.11
14_L	163_M	0.629	0.11
14_L	278_N	0.628	0.11
10_A	21_N	0.627	0.11
4_T	15_S	0.627	0.11
76_A	288_L	0.626	0.11
43_G	130_Y	0.626	0.11
129_N	146_Y	0.626	0.11
43_G	178_N	0.625	0.11
68_D	244_L	0.622	0.11
53_I	280_R	0.620	0.11
239_S	243_A	0.619	0.11
42_V	65_A	0.618	0.11
55_N	280_R	0.616	0.11
215_S	260_D	0.613	0.11
9_G	16_S	0.611	0.10
23_A	86_S	0.610	0.10
4_T	21_N	0.610	0.10
14_L	19_T	0.610	0.10
94_H	259_H	0.608	0.10
84_G	168_K	0.608	0.10
108_I	197_D	0.607	0.10
76_A	100_M	0.607	0.10
111_L	133_D	0.605	0.10
16_S	19_T	0.605	0.10
130_Y	143_S	0.599	0.10
140_G	179_E	0.599	0.10
34_W	248_H	0.598	0.10
59_L	62_E	0.596	0.10
7_A	10_A	0.595	0.10
82_F	142_Q	0.595	0.10
206_I	252_S	0.594	0.10
144_T	285_G	0.594	0.10
9_G	187_F	0.593	0.10
211_F	236_I	0.591	0.10
241_I	252_S	0.589	0.10
142_Q	168_K	0.588	0.10
63_A	68_D	0.586	0.10
9_G	205_Y	0.584	0.10
13_A	251_Y	0.582	0.10
221_S	268_A	0.581	0.10
52_Q	133_D	0.578	0.10
167_A	237_A	0.576	0.10
6_L	18_F	0.575	0.10
196_T	204_S	0.574	0.10
185_Y	249_W	0.574	0.10
206_I	253_V	0.572	0.10
11_V	111_L	0.570	0.10
40_N	188_K	0.569	0.10
101_E	188_K	0.568	0.10
239_S	285_G	0.567	0.10
159_M	286_G	0.566	0.10
11_V	204_S	0.566	0.10
19_T	26_D	0.565	0.10
94_H	211_F	0.565	0.10
146_Y	186_R	0.563	0.10
163_M	209_T	0.562	0.10
26_D	111_L	0.560	0.10
102_I	196_T	0.560	0.10
191_Y	254_V	0.560	0.10
96_S	140_G	0.558	0.10
51_P	54_R	0.558	0.10
118_F	248_H	0.558	0.10
214_G	267_D	0.556	0.10
53_I	167_A	0.556	0.10
40_N	243_A	0.555	0.10
34_W	282_T	0.555	0.10
16_S	21_N	0.554	0.10
206_I	254_V	0.551	0.10
108_I	123_E	0.551	0.10
14_L	189_I	0.545	0.10
132_Y	142_Q	0.545	0.10
56_D	236_I	0.544	0.10
140_G	265_N	0.543	0.10
115_D	195_I	0.542	0.10
146_Y	177_A	0.541	0.10
109_D	242_L	0.540	0.10
160_S	253_V	0.540	0.10
108_I	203_L	0.537	0.10
123_E	185_Y	0.537	0.10
57_T	143_S	0.536	0.10
156_G	191_Y	0.536	0.10
265_N	285_G	0.535	0.10
112_T	160_S	0.533	0.09
105_R	207_G	0.531	0.09
74_G	99_F	0.524	0.09
76_A	217_L	0.524	0.09
39_V	254_V	0.521	0.09
222_G	231_R	0.520	0.09
137_N	140_G	0.519	0.09
56_D	81_F	0.519	0.09
121_F	124_W	0.517	0.09
100_M	204_S	0.517	0.09
199_W	249_W	0.515	0.09
5_L	20_V	0.515	0.09
105_R	152_D	0.514	0.09
130_Y	145_W	0.509	0.09
114_T	213_W	0.508	0.09
84_G	131_I	0.508	0.09
93_N	113_N	0.506	0.09
127_A	149_L	0.506	0.09
161_L	240_H	0.504	0.09
8_A	18_F	0.504	0.09
230_T	265_N	0.501	0.09
139_D	165_V	0.500	0.09

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
1tlyA	1	0.8435	100	0.479	Contact Map
3nb3A	2	0.4354	93	0.958	Contact Map
2x9kA	1	0.6088	32	0.975	Contact Map
2vdaB	1	0.0714	18.4	0.978	Contact Map
3zbiC	1	0.0952	16.9	0.978	Contact Map
2msrA	1	0.0714	11.2	0.98	Contact Map
1y0gA	2	0.466	5	0.983	Contact Map
2ju0B	1	0.0714	3.7	0.984	Contact Map
3j46n	1	0.3333	3.3	0.984	Contact Map
4fp5D	3	0.119	2.8	0.985	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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