Q9HNV8 - HALSA - GREMLIN Contacts

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Q9HNV8 - TRK potassium uptake system protein

UniProt:	Q9HNV8	Sequences: MRVSCLSLPWHTPKALLHETITQTYLLWHIVLEHMDIVIVGAGRVGSRTARVVTNEDHAVTVIEQDYDRAERARTEGFDVVEGDGTSEDTLLDAGIDTADAIGALTSDLNTNFIACMVGNHHDCRTVLRIDEDYREDIYRKYADEVDEIVYPERLGAIGAKNALLGGNVTAIADLAEHLQVVQLTVTDEAPMRGYSISELELPAGARLLAFGKHDASLALPLPSETLETGDRIAVLAEFDTLDSVRQILVGNAPPTEVA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	259 (212)
Sequences:	8654 (6141)
Seq/√Len:	421.8

ECOLI - TRKA KEFC
BACSU - KTRC KTRA YJBQ YUGO
HALSA - Q9HNV8 Q9HSL4 Q9HHS7 Q9HHY1 Q9HQ83 Q9HHU4 Q9HHU8 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
83_G	90_T	3.749	1.00
213_K	231_D	3.701	1.00
186_V	227_L	3.648	1.00
40_V	85_G	3.305	1.00
38_V	99_A	3.168	1.00
102_I	119_G	3.101	1.00
211_F	225_E	2.823	1.00
85_G	115_A	2.778	1.00
67_Y	82_E	2.672	1.00
213_K	228_E	2.606	1.00
198_S	224_S	2.581	1.00
116_C	146_V	2.478	1.00
39_I	50_A	2.390	1.00
188_D	229_T	2.244	1.00
196_S	199_E	2.244	1.00
92_L	97_D	2.162	1.00
70_A	80_V	2.120	1.00
238_E	241_T	2.109	1.00
36_D	59_A	2.103	1.00
195_Y	199_E	2.019	1.00
213_K	225_E	1.995	1.00
197_I	208_L	1.914	1.00
196_S	226_T	1.857	1.00
95_G	98_T	1.852	1.00
67_Y	71_E	1.841	1.00
120_N	126_T	1.835	1.00
120_N	147_D	1.815	1.00
116_C	128_L	1.811	1.00
38_V	96_I	1.810	1.00
64_E	70_A	1.805	1.00
205_G	241_T	1.784	1.00
136_E	151_Y	1.782	1.00
43_G	46_G	1.768	1.00
40_V	102_I	1.763	1.00
54_T	78_F	1.740	1.00
194_G	228_E	1.734	1.00
193_R	229_T	1.706	1.00
94_A	99_A	1.605	1.00
198_S	223_P	1.537	1.00
42_A	62_V	1.537	1.00
69_R	72_R	1.534	1.00
125_R	147_D	1.531	1.00
38_V	102_I	1.527	1.00
102_I	115_A	1.499	1.00
64_E	80_V	1.499	1.00
88_E	92_L	1.483	1.00
201_E	204_A	1.481	1.00
194_G	229_T	1.468	1.00
192_M	200_L	1.466	1.00
183_Q	232_R	1.437	1.00
35_M	100_D	1.422	1.00
116_C	126_T	1.420	1.00
81_V	94_A	1.418	1.00
83_G	94_A	1.402	1.00
92_L	122_H	1.397	1.00
183_Q	234_A	1.392	1.00
37_I	101_A	1.380	1.00
47_S	73_A	1.376	1.00
62_V	77_G	1.343	1.00
43_G	129_R	1.342	1.00
89_D	92_L	1.335	1.00
49_T	103_G	1.328	1.00
208_L	235_V	1.319	1.00
222_L	225_E	1.311	1.00
40_V	115_A	1.293	1.00
42_A	73_A	1.290	1.00
104_A	119_G	1.279	1.00
46_G	105_L	1.271	1.00
203_P	207_R	1.271	1.00
136_E	140_R	1.250	1.00
227_L	233_I	1.248	1.00
104_A	112_N	1.238	1.00
185_T	232_R	1.233	1.00
66_D	69_R	1.222	1.00
61_T	99_A	1.174	1.00
51_R	76_E	1.167	1.00
217_S	220_L	1.166	1.00
237_A	242_L	1.156	1.00
241_T	244_S	1.133	1.00
72_R	76_E	1.117	1.00
211_F	231_D	1.112	1.00
42_A	70_A	1.107	1.00
109_L	112_N	1.098	1.00
49_T	157_A	1.091	1.00
157_A	161_K	1.088	1.00
186_V	193_R	1.081	1.00
228_E	231_D	1.079	1.00
104_A	116_C	1.069	1.00
73_A	76_E	1.063	1.00
111_T	115_A	1.062	1.00
121_H	141_K	1.062	1.00
128_L	146_V	1.058	1.00
88_E	118_V	1.055	1.00
77_G	80_V	1.055	1.00
206_A	237_A	1.050	1.00
81_V	90_T	1.049	1.00
126_T	147_D	1.037	1.00
40_V	63_I	1.035	1.00
90_T	94_A	1.028	1.00
185_T	230_G	1.026	1.00
42_A	64_E	1.026	1.00
89_D	93_D	1.021	1.00
237_A	241_T	1.019	1.00
45_V	129_R	1.012	1.00
96_I	123_D	1.011	1.00
36_D	98_T	1.010	1.00
106_T	115_A	1.010	1.00
108_D	111_T	0.998	1.00
125_R	148_E	0.995	1.00
106_T	111_T	0.991	1.00
73_A	80_V	0.990	1.00
184_L	235_V	0.986	1.00
50_A	62_V	0.984	1.00
179_L	236_L	0.963	1.00
63_I	90_T	0.955	1.00
46_G	50_A	0.952	1.00
35_M	58_H	0.950	1.00
193_R	228_E	0.944	1.00
106_T	109_L	0.943	1.00
200_L	227_L	0.941	1.00
39_I	46_G	0.931	1.00
63_I	83_G	0.928	1.00
63_I	94_A	0.927	1.00
212_G	232_R	0.925	1.00
36_D	99_A	0.915	1.00
133_D	154_R	0.913	1.00
68_D	71_E	0.909	1.00
36_D	61_T	0.903	1.00
155_L	159_G	0.901	1.00
38_V	94_A	0.901	1.00
43_G	64_E	0.897	1.00
197_I	221_P	0.883	1.00
180_Q	239_F	0.880	1.00
210_A	218_L	0.868	1.00
210_A	234_A	0.867	1.00
49_T	105_L	0.864	1.00
206_A	245_V	0.858	1.00
102_I	124_C	0.856	1.00
46_G	129_R	0.850	1.00
120_N	145_E	0.848	1.00
47_S	51_R	0.848	1.00
46_G	64_E	0.848	1.00
68_D	72_R	0.847	1.00
39_I	60_V	0.845	1.00
194_G	226_T	0.845	1.00
48_R	51_R	0.844	1.00
64_E	69_R	0.842	1.00
42_A	47_S	0.836	1.00
207_R	223_P	0.834	1.00
71_E	75_T	0.833	1.00
61_T	94_A	0.830	1.00
235_V	245_V	0.823	1.00
198_S	222_L	0.818	1.00
37_I	58_H	0.816	1.00
91_L	94_A	0.814	1.00
58_H	100_D	0.812	1.00
36_D	100_D	0.809	1.00
192_M	245_V	0.796	1.00
214_H	228_E	0.796	1.00
199_E	226_T	0.796	1.00
96_I	122_H	0.794	1.00
43_G	85_G	0.793	1.00
196_S	224_S	0.791	1.00
189_E	193_R	0.791	1.00
58_H	165_L	0.790	1.00
181_V	209_L	0.788	1.00
109_L	135_R	0.786	1.00
221_P	225_E	0.782	1.00
54_T	60_V	0.779	1.00
106_T	112_N	0.772	1.00
60_V	78_F	0.772	1.00
91_L	96_I	0.770	1.00
91_L	122_H	0.767	1.00
209_L	236_L	0.765	1.00
110_N	114_I	0.763	1.00
117_M	155_L	0.758	1.00
186_V	190_A	0.757	1.00
103_G	106_T	0.755	1.00
130_I	139_Y	0.754	1.00
117_M	121_H	0.753	1.00
88_E	122_H	0.752	1.00
61_T	81_V	0.744	1.00
119_G	123_D	0.743	1.00
121_H	137_D	0.741	1.00
39_I	62_V	0.741	1.00
96_I	99_A	0.739	1.00
46_G	85_G	0.734	1.00
195_Y	200_L	0.733	1.00
38_V	61_T	0.726	1.00
242_L	246_R	0.725	1.00
154_R	158_I	0.720	1.00
73_A	77_G	0.716	1.00
126_T	146_V	0.712	1.00
159_G	163_A	0.709	1.00
54_T	77_G	0.706	1.00
101_A	127_V	0.702	1.00
64_E	82_E	0.701	1.00
101_A	125_R	0.701	1.00
62_V	78_F	0.694	1.00
187_T	229_T	0.693	1.00
197_I	223_P	0.691	1.00
212_G	218_L	0.691	1.00
245_V	249_L	0.690	1.00
37_I	53_V	0.689	1.00
92_L	96_I	0.682	1.00
112_N	128_L	0.680	1.00
112_N	135_R	0.680	1.00
50_A	78_F	0.679	1.00
218_L	225_E	0.678	1.00
188_D	191_P	0.677	1.00
74_R	80_V	0.676	1.00
117_M	144_D	0.672	1.00
52_V	157_A	0.670	1.00
53_V	60_V	0.670	1.00
244_S	247_Q	0.668	1.00
86_T	111_T	0.666	0.99
47_S	76_E	0.665	0.99
243_D	246_R	0.664	0.99
176_A	179_L	0.658	0.99
219_A	225_E	0.658	0.99
148_E	163_A	0.655	0.99
87_S	90_T	0.650	0.99
52_V	56_E	0.649	0.99
62_V	73_A	0.648	0.99
39_I	49_T	0.646	0.99
48_R	157_A	0.646	0.99
54_T	76_E	0.645	0.99
225_E	228_E	0.644	0.99
65_Q	84_D	0.641	0.99
205_G	238_E	0.638	0.99
174_D	180_Q	0.637	0.99
63_I	81_V	0.636	0.99
202_L	208_L	0.635	0.99
47_S	72_R	0.633	0.99
178_H	238_E	0.633	0.99
213_K	219_A	0.632	0.99
118_V	122_H	0.631	0.99
110_N	132_E	0.630	0.99
115_A	119_G	0.630	0.99
203_P	206_A	0.628	0.99
48_R	52_V	0.627	0.99
105_L	129_R	0.623	0.99
169_V	175_L	0.620	0.99
79_D	82_E	0.620	0.99
220_L	223_P	0.619	0.99
105_L	109_L	0.618	0.99
99_A	102_I	0.618	0.99
197_I	202_L	0.615	0.99
52_V	55_N	0.613	0.99
70_A	74_R	0.609	0.99
140_R	148_E	0.607	0.99
155_L	158_I	0.606	0.99
158_I	162_N	0.599	0.99
90_T	93_D	0.597	0.99
110_N	135_R	0.595	0.99
167_G	175_L	0.593	0.99
51_R	54_T	0.592	0.99
117_M	123_D	0.590	0.99
146_V	149_I	0.582	0.99
37_I	103_G	0.582	0.99
136_E	154_R	0.580	0.99
196_S	200_L	0.578	0.99
71_E	74_R	0.577	0.99
213_K	230_G	0.573	0.98
51_R	55_N	0.573	0.98
50_A	60_V	0.572	0.98
193_R	227_L	0.571	0.98
202_L	206_A	0.570	0.98
92_L	95_G	0.567	0.98
96_I	102_I	0.565	0.98
91_L	119_G	0.562	0.98
182_V	242_L	0.560	0.98
61_T	79_D	0.558	0.98
43_G	106_T	0.556	0.98
73_A	78_F	0.555	0.98
41_G	46_G	0.554	0.98
37_I	164_L	0.553	0.98
109_L	132_E	0.552	0.98
38_V	83_G	0.552	0.98
45_V	153_E	0.550	0.98
131_D	153_E	0.550	0.98
84_D	87_S	0.549	0.98
63_I	85_G	0.548	0.98
213_K	218_L	0.546	0.98
178_H	239_F	0.543	0.98
212_G	234_A	0.543	0.98
133_D	136_E	0.542	0.98
235_V	242_L	0.541	0.98
87_S	134_Y	0.541	0.98
95_G	99_A	0.537	0.98
42_A	46_G	0.536	0.98
64_E	85_G	0.535	0.98
208_L	223_P	0.535	0.98
132_E	135_R	0.534	0.98
96_I	119_G	0.533	0.98
154_R	157_A	0.533	0.98
244_S	248_I	0.530	0.98
110_N	113_F	0.527	0.97
159_G	162_N	0.525	0.97
197_I	227_L	0.525	0.97
70_A	82_E	0.524	0.97
37_I	100_D	0.524	0.97
177_E	212_G	0.521	0.97
203_P	223_P	0.518	0.97
141_K	144_D	0.516	0.97
172_I	234_A	0.512	0.97
40_V	104_A	0.512	0.97
45_V	135_R	0.510	0.97
199_E	224_S	0.509	0.97
158_I	161_K	0.506	0.97
160_A	163_A	0.505	0.97
186_V	230_G	0.504	0.97
169_V	172_I	0.504	0.97
96_I	124_C	0.504	0.97
131_D	135_R	0.503	0.97
116_C	139_Y	0.501	0.97
195_Y	201_E	0.501	0.97
109_L	131_D	0.500	0.96

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
1lnqA	6	0.8649	100	0.301	Contact Map
4gx0A	3	0.9807	100	0.31	Contact Map
2aefA	2	0.8263	100	0.321	Contact Map
4g65A	2	0.9575	100	0.325	Contact Map
3l4bC	2	0.8224	100	0.373	Contact Map
3mt5A	5	0.8224	100	0.373	Contact Map
3nafA	3	0.8842	100	0.373	Contact Map
4hpfA	3	0.7761	100	0.412	Contact Map
4j91A	3	0.8147	100	0.433	Contact Map
3l9wA	2	0.695	99.9	0.591	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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