HISQ - ECOLI - GREMLIN Contacts

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HISQ - Histidine transport system permease protein HisQ

UniProt:	P52094	Sequences: MLYGFSGVILQGALVTLELAISSVVLAVIIGLIGAGGKLSQNRLSGLIFEGYTTLIRGVPDLVLMLLIFYGLQIALNTVTEAMGVGQIDIDPMVAGIITLGFIYGAYFTETFRGAFMAVPKGHIEAATAFGFTRGQVFRRIMFPSMMRYALPGIGNNWQVILKSTALVSLLGLEDVVKATQLAGKSTWEPFYFAIVCGVIYLVFTTVSNGVLLFLERRYSVGVKRADL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12125
Length:	228 (204)
Sequences:	17647 (10476)
Seq/√Len:	733.4

ECOLI - HISQ ARTQ GLTJ ARTM HISM YHDY GLTK YHDX GLNP YECS
BACSU - TCYM GLNM YCKA GLNP ARTQ YXEN TCYL

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
155_G	212_L	3.256	1.00
189_E	192_Y	3.192	1.00
26_L	101_G	3.145	1.00
96_G	168_V	3.058	1.00
127_A	137_V	2.841	1.00
180_T	197_C	2.827	1.00
133_T	136_Q	2.681	1.00
14_L	18_E	2.604	1.00
37_G	49_F	2.554	1.00
123_H	145_S	2.475	1.00
34_G	109_T	2.374	1.00
59_V	64_L	2.295	1.00
124_I	137_V	2.244	1.00
34_G	105_G	2.056	1.00
44_L	48_I	2.043	1.00
135_G	139_R	2.027	1.00
210_G	214_F	2.016	1.00
128_T	137_V	1.953	1.00
44_L	47_L	1.921	1.00
38_K	50_E	1.848	1.00
124_I	128_T	1.834	1.00
178_K	182_L	1.821	1.00
115_A	150_A	1.778	1.00
118_A	149_Y	1.753	1.00
30_I	105_G	1.740	1.00
91_D	94_V	1.734	1.00
43_R	47_L	1.732	1.00
19_L	168_V	1.725	1.00
20_A	162_L	1.723	1.00
202_L	206_T	1.719	1.00
35_A	112_F	1.716	1.00
10_L	14_L	1.707	1.00
15_V	18_E	1.706	1.00
53_T	109_T	1.674	1.00
13_A	204_F	1.674	1.00
22_S	97_I	1.665	1.00
184_G	190_P	1.664	1.00
133_T	137_V	1.635	1.00
180_T	193_F	1.635	1.00
18_E	93_M	1.620	1.00
206_T	210_G	1.619	1.00
39_L	117_M	1.594	1.00
214_F	217_R	1.592	1.00
68_I	99_T	1.564	1.00
110_E	113_R	1.546	1.00
108_F	154_I	1.537	1.00
27_A	104_Y	1.532	1.00
11_Q	14_L	1.522	1.00
210_G	213_L	1.519	1.00
34_G	49_F	1.507	1.00
134_R	138_F	1.431	1.00
15_V	173_L	1.408	1.00
43_R	46_G	1.405	1.00
24_V	158_W	1.401	1.00
211_V	214_F	1.391	1.00
136_Q	139_R	1.370	1.00
32_L	112_F	1.370	1.00
20_A	165_T	1.362	1.00
42_N	47_L	1.333	1.00
33_I	37_G	1.318	1.00
136_Q	140_R	1.315	1.00
64_L	103_I	1.314	1.00
93_M	97_I	1.292	1.00
8_V	11_Q	1.286	1.00
128_T	134_R	1.266	1.00
56_I	102_F	1.258	1.00
112_F	150_A	1.246	1.00
132_F	136_Q	1.240	1.00
22_S	101_G	1.230	1.00
59_V	103_I	1.210	1.00
124_I	142_M	1.198	1.00
108_F	157_N	1.190	1.00
184_G	194_A	1.180	1.00
38_K	110_E	1.164	1.00
92_P	172_G	1.161	1.00
42_N	45_S	1.158	1.00
47_L	51_G	1.153	1.00
37_G	40_S	1.138	1.00
46_G	50_E	1.135	1.00
6_S	10_L	1.133	1.00
29_I	33_I	1.131	1.00
65_M	99_T	1.130	1.00
127_A	141_I	1.117	1.00
111_T	157_N	1.113	1.00
26_L	97_I	1.109	1.00
39_L	116_F	1.100	1.00
8_V	179_A	1.098	1.00
178_K	181_Q	1.097	1.00
116_F	142_M	1.088	1.00
179_A	182_L	1.079	1.00
48_I	51_G	1.078	1.00
214_F	218_R	1.076	1.00
48_I	52_Y	1.072	1.00
174_E	178_K	1.066	1.00
162_L	204_F	1.060	1.00
54_T	206_T	1.050	1.00
18_E	22_S	1.050	1.00
31_G	108_F	1.044	1.00
138_F	143_F	1.041	1.00
113_R	117_M	1.034	1.00
93_M	173_L	1.029	1.00
11_Q	15_V	1.027	1.00
64_L	68_I	1.026	1.00
97_I	101_G	1.025	1.00
65_M	168_V	1.023	1.00
168_V	175_D	1.021	1.00
49_F	109_T	0.992	1.00
111_T	153_G	0.988	1.00
183_A	193_F	0.988	1.00
68_I	95_A	0.986	1.00
94_V	97_I	0.977	1.00
16_T	162_L	0.961	1.00
211_V	215_L	0.956	1.00
51_G	54_T	0.952	1.00
213_L	217_R	0.950	1.00
119_V	146_M	0.949	1.00
160_V	164_S	0.947	1.00
71_G	75_A	0.946	1.00
54_T	202_L	0.945	1.00
119_V	149_Y	0.935	1.00
65_M	167_L	0.928	1.00
192_Y	195_I	0.928	1.00
162_L	208_S	0.925	1.00
37_G	45_S	0.920	1.00
213_L	216_E	0.914	1.00
166_A	201_Y	0.912	1.00
41_Q	46_G	0.912	1.00
20_A	158_W	0.911	1.00
122_G	126_A	0.911	1.00
182_L	186_S	0.905	1.00
181_Q	184_G	0.903	1.00
56_I	106_A	0.898	1.00
23_S	101_G	0.897	1.00
132_F	140_R	0.892	1.00
52_Y	105_G	0.891	1.00
24_V	161_I	0.877	1.00
134_R	137_V	0.877	1.00
94_V	98_I	0.873	1.00
7_G	11_Q	0.869	1.00
22_S	26_L	0.867	1.00
162_L	205_T	0.866	1.00
28_V	154_I	0.852	1.00
207_V	211_V	0.851	1.00
61_D	103_I	0.851	1.00
52_Y	56_I	0.845	1.00
42_N	46_G	0.845	1.00
38_K	53_T	0.844	1.00
13_A	200_I	0.842	1.00
187_T	190_P	0.837	1.00
138_F	142_M	0.835	1.00
12_G	179_A	0.833	1.00
104_Y	157_N	0.831	1.00
87_Q	90_I	0.827	1.00
92_P	173_L	0.826	1.00
35_A	39_L	0.817	1.00
25_V	29_I	0.811	1.00
96_G	171_L	0.808	1.00
100_L	165_T	0.807	1.00
69_F	95_A	0.805	1.00
149_Y	153_G	0.799	1.00
17_L	21_I	0.795	1.00
40_S	49_F	0.793	1.00
21_I	25_V	0.793	1.00
35_A	116_F	0.792	1.00
47_L	50_E	0.791	1.00
38_K	46_G	0.790	1.00
52_Y	106_A	0.790	1.00
61_D	164_S	0.789	1.00
66_L	70_Y	0.789	1.00
203_V	207_V	0.789	1.00
67_L	71_G	0.783	1.00
69_F	171_L	0.776	1.00
122_G	125_E	0.768	1.00
40_S	134_R	0.768	1.00
104_Y	164_S	0.766	1.00
168_V	173_L	0.758	1.00
124_I	134_R	0.757	1.00
180_T	184_G	0.755	1.00
13_A	176_V	0.754	1.00
42_N	48_I	0.751	1.00
64_L	99_T	0.750	1.00
177_V	201_Y	0.745	1.00
108_F	112_F	0.740	1.00
170_L	174_E	0.740	1.00
174_E	179_A	0.738	1.00
121_K	125_E	0.735	1.00
16_T	20_A	0.731	1.00
7_G	10_L	0.727	1.00
30_I	101_G	0.727	1.00
16_T	201_Y	0.722	1.00
22_S	93_M	0.720	1.00
50_E	54_T	0.715	1.00
22_S	25_V	0.715	1.00
177_V	194_A	0.713	1.00
15_V	175_D	0.712	1.00
19_L	165_T	0.709	1.00
65_M	171_L	0.703	1.00
195_I	199_V	0.699	1.00
30_I	34_G	0.698	1.00
116_F	146_M	0.697	1.00
32_L	143_F	0.690	1.00
176_V	200_I	0.690	1.00
67_L	195_I	0.689	1.00
36_G	138_F	0.688	1.00
194_A	197_C	0.685	1.00
38_K	41_Q	0.684	1.00
71_G	74_I	0.679	1.00
23_S	161_I	0.676	1.00
115_A	149_Y	0.676	1.00
27_A	108_F	0.674	1.00
184_G	193_F	0.674	1.00
169_S	178_K	0.673	1.00
100_L	161_I	0.672	1.00
166_A	177_V	0.670	1.00
121_K	124_I	0.666	1.00
19_L	96_G	0.661	1.00
19_L	173_L	0.660	1.00
199_V	203_V	0.658	1.00
62_L	170_L	0.654	1.00
166_A	169_S	0.652	1.00
177_V	197_C	0.652	1.00
34_G	37_G	0.649	1.00
196_V	200_I	0.648	1.00
112_F	116_F	0.647	1.00
215_L	219_Y	0.644	1.00
92_P	171_L	0.644	1.00
119_V	142_M	0.643	1.00
193_F	197_C	0.640	1.00
90_I	94_V	0.638	1.00
103_I	164_S	0.635	1.00
45_S	48_I	0.635	1.00
169_S	172_G	0.633	1.00
32_L	147_M	0.633	1.00
19_L	23_S	0.629	1.00
104_Y	161_I	0.626	1.00
15_V	93_M	0.626	1.00
104_Y	108_F	0.623	1.00
152_P	216_E	0.623	1.00
151_L	215_L	0.621	1.00
37_G	48_I	0.616	1.00
157_N	160_V	0.613	1.00
103_I	157_N	0.612	1.00
116_F	138_F	0.611	1.00
26_L	30_I	0.609	1.00
125_E	140_R	0.608	1.00
191_F	195_I	0.607	1.00
28_V	112_F	0.600	1.00
202_L	205_T	0.599	1.00
26_L	29_I	0.597	1.00
12_G	15_V	0.596	1.00
18_E	94_V	0.595	1.00
133_T	140_R	0.590	1.00
101_G	105_G	0.590	1.00
41_Q	134_R	0.590	1.00
41_Q	44_L	0.589	1.00
186_S	189_E	0.586	1.00
69_F	92_P	0.585	1.00
38_K	109_T	0.584	1.00
51_G	55_L	0.583	1.00
159_Q	208_S	0.582	1.00
100_L	168_V	0.580	1.00
9_I	200_I	0.578	1.00
29_I	101_G	0.577	1.00
158_W	208_S	0.575	1.00
58_G	163_K	0.574	1.00
151_L	219_Y	0.571	1.00
209_N	213_L	0.570	1.00
208_S	212_L	0.559	1.00
197_C	200_I	0.559	1.00
121_K	128_T	0.559	1.00
142_M	145_S	0.558	1.00
153_G	156_N	0.557	1.00
127_A	132_F	0.556	1.00
23_S	100_L	0.551	1.00
179_A	183_A	0.550	1.00
124_I	138_F	0.548	1.00
50_E	53_T	0.547	1.00
207_V	214_F	0.544	1.00
34_G	52_Y	0.542	1.00
62_L	66_L	0.542	1.00
148_R	219_Y	0.540	1.00
14_L	17_L	0.536	1.00
62_L	167_L	0.533	1.00
10_L	13_A	0.532	1.00
137_V	142_M	0.532	1.00
90_I	95_A	0.532	1.00
40_S	46_G	0.531	1.00
183_A	187_T	0.531	1.00
194_A	198_G	0.529	1.00
207_V	210_G	0.529	1.00
56_I	64_L	0.528	1.00
9_I	183_A	0.528	1.00
30_I	33_I	0.526	1.00
9_I	180_T	0.524	1.00
41_Q	45_S	0.521	1.00
8_V	12_G	0.520	1.00
55_L	59_V	0.516	1.00
49_F	53_T	0.516	1.00
114_G	153_G	0.515	1.00
45_S	49_F	0.515	1.00
29_I	32_L	0.508	1.00
37_G	42_N	0.507	1.00
107_Y	164_S	0.506	1.00
159_Q	205_T	0.504	1.00
96_G	173_L	0.502	0.99
8_V	182_L	0.500	0.99

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
4ymuD	2	0.9167	100	0.554	Contact Map
3tuiA	2	0.9167	99.9	0.618	Contact Map
2onkC	2	0.9386	99.9	0.633	Contact Map
3rlfF	1	0.9211	99.9	0.64	Contact Map
3d31C	2	0.9298	99.9	0.642	Contact Map
4tquM	1	0.9693	99.9	0.661	Contact Map
3rlfG	1	0.9605	99.8	0.671	Contact Map
4tquN	1	0.8991	99.7	0.71	Contact Map
3j9pD	4	0.6711	6.3	0.963	Contact Map
4h33A	3	0.3202	6.2	0.963	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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