Q9HHS7 - HALSA - GREMLIN Contacts

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Q9HHS7 - TRK potassium uptake system protein

UniProt:	Q9HHS7	Sequences: MQVIIVGAGTVGAPLVDVATGSGNEVVVVEQDGGRANEIADAYDCAVLHADATDESTIQDAGADRADALITTTGRDPTNLFVCLLGAEHDIPTVVSLLQRPAHRHLFAELGVYTVAGLHDLAAESLYRVARQPAVSESMPVAGDAAVFRITVGADAPIADTMLVDARSTGVLPDDVLVVAVRTGDGEAEIARSETTITPGDEVTVYSSRGTTADVTAVFSTDVREDGARGRF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	232 (208)
Sequences:	8729 (6226)
Seq/√Len:	431.7

ECOLI - TRKA
BACSU - KTRC KTRA YJBQ YUGO
HALSA - Q9HHS7 Q9HSL4 Q9HHY1 Q9HQ83 Q9HNV8 Q9HHU8 Q9HHU4 Q9HNK1 Q9HRN5
SULSO - Q97XI3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
50_A	57_T	3.774	1.00
152_V	197_I	3.691	1.00
183_T	201_D	3.554	1.00
6_V	52_A	3.322	1.00
4_I	66_A	3.145	1.00
69_L	86_G	3.100	1.00
52_A	82_V	2.761	1.00
181_V	195_T	2.733	1.00
183_T	198_T	2.677	1.00
33_G	49_H	2.668	1.00
164_V	194_E	2.537	1.00
83_C	112_V	2.527	1.00
5_I	16_V	2.363	1.00
154_A	199_P	2.270	1.00
36_A	47_V	2.267	1.00
162_M	165_D	2.238	1.00
208_S	211_T	2.238	1.00
59_Q	64_D	2.136	1.00
183_T	195_T	2.066	1.00
167_R	172_L	2.046	1.00
161_T	165_D	2.025	1.00
30_E	36_A	1.889	1.00
33_G	37_N	1.889	1.00
6_V	69_L	1.887	1.00
163_L	178_V	1.882	1.00
62_G	65_R	1.874	1.00
104_R	117_G	1.864	1.00
4_I	69_L	1.855	1.00
9_G	12_G	1.855	1.00
83_C	96_S	1.850	1.00
162_M	196_T	1.838	1.00
69_L	82_V	1.808	1.00
87_A	113_Y	1.804	1.00
87_A	94_V	1.789	1.00
160_D	198_T	1.750	1.00
175_D	211_T	1.735	1.00
159_A	199_P	1.683	1.00
71_T	86_G	1.672	1.00
4_I	63_A	1.662	1.00
15_L	70_I	1.624	1.00
61_A	66_A	1.605	1.00
8_A	28_V	1.580	1.00
20_T	45_C	1.552	1.00
8_A	39_I	1.540	1.00
30_E	47_V	1.533	1.00
164_V	193_S	1.533	1.00
55_E	59_Q	1.506	1.00
35_R	38_E	1.499	1.00
93_T	113_Y	1.499	1.00
69_L	92_P	1.479	1.00
160_D	199_P	1.464	1.00
158_I	166_A	1.463	1.00
83_C	94_V	1.456	1.00
59_Q	89_H	1.417	1.00
149_R	202_E	1.410	1.00
71_T	79_N	1.409	1.00
32_D	35_R	1.395	1.00
149_R	204_T	1.391	1.00
50_A	61_A	1.383	1.00
6_V	82_V	1.356	1.00
9_G	97_L	1.328	1.00
178_V	205_V	1.324	1.00
12_G	72_T	1.321	1.00
38_E	42_A	1.301	1.00
13_A	39_I	1.298	1.00
88_E	109_E	1.283	1.00
48_L	61_A	1.282	1.00
104_R	108_A	1.273	1.00
56_S	59_Q	1.253	1.00
192_R	195_T	1.248	1.00
73_T	82_V	1.242	1.00
197_I	203_V	1.220	1.00
27_V	66_A	1.217	1.00
71_T	83_C	1.201	1.00
17_D	42_A	1.190	1.00
181_V	201_D	1.172	1.00
207_S	212_T	1.163	1.00
3_V	68_A	1.144	1.00
151_T	202_E	1.144	1.00
176_V	207_S	1.137	1.00
198_T	201_D	1.135	1.00
123_A	127_Y	1.124	1.00
78_T	82_V	1.123	1.00
93_T	114_T	1.121	1.00
57_T	61_A	1.109	1.00
211_T	214_D	1.108	1.00
151_T	200_G	1.105	1.00
16_V	28_V	1.085	1.00
15_L	123_A	1.083	1.00
96_S	112_V	1.082	1.00
39_I	47_V	1.077	1.00
145_A	206_Y	1.069	1.00
63_A	90_D	1.062	1.00
56_S	60_D	1.060	1.00
15_L	72_T	1.058	1.00
152_V	159_A	1.054	1.00
94_V	113_Y	1.045	1.00
6_V	29_V	1.043	1.00
73_T	78_T	1.039	1.00
48_L	57_T	1.014	1.00
8_A	36_A	1.010	1.00
8_A	30_E	1.004	1.00
159_A	198_T	0.987	1.00
12_G	30_E	0.986	1.00
55_E	85_L	0.978	1.00
29_V	61_A	0.970	1.00
146_A	209_R	0.961	1.00
29_V	50_A	0.957	1.00
69_L	91_I	0.956	1.00
29_V	57_T	0.955	1.00
4_I	61_A	0.949	1.00
150_I	205_V	0.944	1.00
180_A	188_A	0.944	1.00
207_S	211_T	0.942	1.00
39_I	42_A	0.940	1.00
174_D	211_T	0.934	1.00
34_G	37_N	0.932	1.00
177_L	193_S	0.917	1.00
101_P	120_D	0.905	1.00
12_G	16_V	0.904	1.00
24_N	67_D	0.899	1.00
30_E	35_R	0.899	1.00
11_V	97_L	0.896	1.00
182_R	202_E	0.894	1.00
166_A	197_I	0.876	1.00
158_I	215_V	0.875	1.00
180_A	204_T	0.873	1.00
87_A	111_G	0.869	1.00
164_V	192_R	0.868	1.00
20_T	26_V	0.867	1.00
63_A	91_I	0.867	1.00
14_P	17_D	0.866	1.00
58_I	89_H	0.865	1.00
28_V	44_D	0.861	1.00
160_D	196_T	0.860	1.00
121_L	125_S	0.860	1.00
3_V	24_N	0.859	1.00
9_G	30_E	0.859	1.00
205_V	215_V	0.844	1.00
12_G	97_L	0.842	1.00
73_T	79_N	0.842	1.00
5_I	12_G	0.836	1.00
161_T	166_A	0.836	1.00
8_A	13_A	0.834	1.00
5_I	26_V	0.834	1.00
68_A	95_V	0.834	1.00
98_L	107_F	0.829	1.00
163_L	191_A	0.814	1.00
13_A	17_D	0.813	1.00
176_V	215_V	0.804	1.00
34_G	38_E	0.802	1.00
58_I	63_A	0.800	1.00
37_N	41_D	0.799	1.00
27_V	61_A	0.798	1.00
29_V	48_L	0.788	1.00
44_D	47_V	0.787	1.00
5_I	28_V	0.785	1.00
212_T	216_T	0.783	1.00
75_R	78_T	0.774	1.00
9_G	52_A	0.771	1.00
104_R	120_D	0.766	1.00
77_P	81_F	0.764	1.00
84_L	121_L	0.762	1.00
72_T	97_L	0.761	1.00
114_T	129_V	0.760	1.00
26_V	45_C	0.758	1.00
55_E	89_H	0.756	1.00
30_E	49_H	0.749	1.00
191_A	195_T	0.748	1.00
68_A	93_T	0.748	1.00
162_M	166_A	0.748	1.00
162_M	194_E	0.747	1.00
63_A	89_H	0.747	1.00
27_V	48_L	0.743	1.00
108_A	114_T	0.738	1.00
94_V	112_V	0.738	1.00
24_N	131_R	0.736	1.00
155_D	159_A	0.735	1.00
28_V	45_C	0.733	1.00
79_N	103_H	0.732	1.00
14_P	18_V	0.723	1.00
190_I	193_S	0.714	1.00
3_V	19_A	0.710	1.00
182_R	188_A	0.704	1.00
85_L	89_H	0.700	1.00
86_G	90_D	0.700	1.00
63_A	66_A	0.700	1.00
144_D	208_S	0.694	1.00
165_D	196_T	0.693	1.00
153_G	199_P	0.691	1.00
179_V	206_Y	0.691	1.00
17_D	21_G	0.690	1.00
140_P	146_A	0.690	1.00
4_I	50_A	0.689	1.00
31_Q	51_D	0.689	1.00
187_E	190_I	0.688	1.00
147_V	179_V	0.686	1.00
125_S	129_V	0.685	1.00
12_G	52_A	0.681	1.00
189_E	195_T	0.676	1.00
58_I	61_A	0.675	1.00
39_I	44_D	0.674	1.00
14_P	123_A	0.672	1.00
112_V	115_V	0.671	1.00
4_I	27_V	0.670	1.00
101_P	104_R	0.669	1.00
76_D	79_N	0.662	1.00
66_A	69_L	0.656	0.99
163_L	193_S	0.656	0.99
19_A	26_V	0.654	0.99
120_D	124_E	0.654	0.99
84_L	88_E	0.648	0.99
13_A	42_A	0.647	0.99
167_R	173_P	0.646	0.99
37_N	40_A	0.646	0.99
188_A	195_T	0.645	0.99
79_N	96_S	0.641	0.99
28_V	39_I	0.640	0.99
84_L	90_D	0.640	0.99
173_P	176_V	0.637	0.99
9_G	73_T	0.636	0.99
3_V	70_I	0.635	0.99
40_A	47_V	0.633	0.99
175_D	208_S	0.633	0.99
53_T	78_T	0.630	0.99
214_D	217_A	0.627	0.99
59_Q	63_A	0.626	0.99
195_T	198_T	0.622	0.99
82_V	86_G	0.620	0.99
18_V	21_G	0.615	0.99
5_I	15_L	0.614	0.99
7_G	12_G	0.613	0.99
8_A	12_G	0.613	0.99
36_A	49_H	0.613	0.99
54_D	57_T	0.612	0.99
16_V	45_C	0.611	0.99
80_L	107_F	0.602	0.99
182_R	204_T	0.601	0.99
77_P	100_R	0.600	0.99
124_E	128_R	0.597	0.99
30_E	118_L	0.596	0.99
76_D	122_A	0.593	0.99
205_V	212_T	0.591	0.99
183_T	200_G	0.590	0.99
141_V	148_F	0.583	0.99
18_V	123_A	0.581	0.99
20_T	44_D	0.579	0.99
214_D	218_V	0.578	0.99
55_E	88_E	0.578	0.99
11_V	72_T	0.572	0.99
77_P	103_H	0.569	0.99
71_T	82_V	0.565	0.98
11_V	103_H	0.564	0.98
63_A	86_G	0.564	0.98
77_P	80_L	0.561	0.98
135_V	138_S	0.560	0.98
132_Q	135_V	0.558	0.98
183_T	189_E	0.557	0.98
63_A	69_L	0.556	0.98
3_V	67_D	0.555	0.98
51_D	54_D	0.554	0.98
20_T	42_A	0.554	0.98
84_L	110_L	0.554	0.98
107_F	115_V	0.552	0.98
146_A	205_V	0.552	0.98
100_R	103_H	0.551	0.98
11_V	119_H	0.550	0.98
71_T	94_V	0.550	0.98
27_V	46_A	0.549	0.98
99_Q	119_H	0.546	0.98
121_L	124_E	0.546	0.98
57_T	60_D	0.545	0.98
13_A	38_E	0.544	0.98
159_A	197_I	0.542	0.98
213_A	216_T	0.541	0.98
46_A	49_H	0.540	0.98
142_A	145_A	0.539	0.98
18_V	22_S	0.538	0.98
16_V	26_V	0.537	0.98
30_E	52_A	0.537	0.98
158_I	197_I	0.535	0.98
174_D	218_V	0.533	0.98
163_L	197_I	0.531	0.98
80_L	106_L	0.529	0.98
88_E	105_H	0.528	0.98
124_E	127_Y	0.528	0.98
69_L	94_V	0.527	0.98
76_D	99_Q	0.526	0.98
15_L	81_F	0.524	0.98
127_Y	130_A	0.523	0.97
54_D	102_A	0.521	0.97
181_V	197_I	0.521	0.97
83_C	107_F	0.521	0.97
8_A	16_V	0.520	0.97
97_L	122_A	0.519	0.97
126_L	129_V	0.518	0.97
6_V	86_G	0.516	0.97
62_G	66_A	0.515	0.97
11_V	15_L	0.514	0.97
28_V	36_A	0.513	0.97
13_A	35_R	0.512	0.97
59_Q	62_G	0.512	0.97
58_I	85_L	0.507	0.97
183_T	188_A	0.507	0.97
17_D	20_T	0.507	0.97
125_S	128_R	0.506	0.97
98_L	117_G	0.505	0.97
31_Q	52_A	0.502	0.97
73_T	103_H	0.502	0.97
6_V	71_T	0.501	0.97
52_A	74_G	0.500	0.97
152_V	200_G	0.500	0.97

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
4g65A	2	0.944	100	0.257	Contact Map
4gx0A	3	0.9052	100	0.261	Contact Map
2aefA	2	0.9397	100	0.268	Contact Map
1lnqA	6	0.9267	100	0.282	Contact Map
3l4bC	2	0.9267	100	0.309	Contact Map
3mt5A	5	0.9138	100	0.319	Contact Map
3nafA	3	0.9698	100	0.331	Contact Map
4hpfA	3	0.8922	100	0.372	Contact Map
4j91A	3	0.9224	100	0.381	Contact Map
3l9wA	2	0.7759	99.9	0.557	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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