KTRA - BACSU - GREMLIN Contacts

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KTRA - Ktr system potassium uptake protein A

UniProt:	O32080	Sequences: MGRIKNKQFAVIGLGRFGGSICKELHRMGHEVLAVDINEEKVNAYASYATHAVIANATEENELLSLGIRNFEYVIVAIGANIQASTLTTLLLKELDIPNIWVKAQNYYHHKVLEKIGADRIIHPEKDMGVKIAQSLSDENVLNYIDLSDEYSIVELLATRKLDSKSIIDLNVRAKYGCTILAIKHHGDICLSPAPEDIIREQDCLVIMGHKKDIKRFENEGM	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	222 (206)
Sequences:	8697 (6136)
Seq/√Len:	427.5

ECOLI - TRKA KEFC
BACSU - KTRA KTRC YJBQ YUGO
HALSA - Q9HSL4 Q9HNV8 Q9HHY1 Q9HQ83 Q9HHS7 Q9HHU4 Q9HHU8 Q9HRN5 Q9HNK1
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
55_A	62_E	3.804	1.00
185_H	203_D	3.547	1.00
158_A	199_I	3.407	1.00
74_V	92_L	3.247	1.00
12_I	57_A	3.221	1.00
10_A	71_F	3.217	1.00
183_I	197_D	2.855	1.00
39_E	54_I	2.676	1.00
185_H	200_R	2.667	1.00
57_A	88_T	2.624	1.00
168_I	196_E	2.609	1.00
89_T	118_A	2.477	1.00
11_V	22_C	2.433	1.00
166_S	169_D	2.313	1.00
210_H	213_D	2.202	1.00
64_L	69_R	2.177	1.00
8_Q	31_E	2.081	1.00
42_V	52_A	2.055	1.00
185_H	197_D	2.004	1.00
165_K	169_D	1.950	1.00
67_G	70_N	1.917	1.00
166_S	198_I	1.912	1.00
110_H	123_H	1.895	1.00
167_I	180_I	1.887	1.00
10_A	74_V	1.884	1.00
12_I	74_V	1.866	1.00
89_T	102_V	1.859	1.00
39_E	43_N	1.858	1.00
15_G	18_G	1.852	1.00
93_K	100_I	1.849	1.00
74_V	88_T	1.801	1.00
36_D	42_V	1.766	1.00
10_A	68_I	1.754	1.00
164_S	200_R	1.753	1.00
93_K	119_D	1.725	1.00
94_E	115_K	1.717	1.00
177_G	213_D	1.709	1.00
163_D	201_E	1.699	1.00
22_C	49_A	1.640	1.00
14_L	34_A	1.636	1.00
36_D	52_A	1.542	1.00
41_K	44_A	1.536	1.00
9_F	73_Y	1.490	1.00
171_N	174_A	1.489	1.00
81_N	84_A	1.483	1.00
60_E	64_L	1.472	1.00
99_N	119_D	1.467	1.00
162_L	170_L	1.453	1.00
164_S	201_E	1.452	1.00
64_L	95_L	1.437	1.00
168_I	195_P	1.434	1.00
89_T	100_I	1.431	1.00
66_L	71_F	1.430	1.00
19_G	45_Y	1.429	1.00
55_A	66_L	1.409	1.00
53_V	66_L	1.380	1.00
194_A	197_D	1.375	1.00
12_I	88_T	1.373	1.00
14_L	45_Y	1.363	1.00
160_R	201_E	1.355	1.00
182_A	189_I	1.331	1.00
34_A	49_A	1.331	1.00
61_N	64_L	1.305	1.00
180_I	207_I	1.302	1.00
15_G	103_K	1.291	1.00
155_E	206_V	1.273	1.00
155_E	204_C	1.269	1.00
38_N	41_K	1.260	1.00
199_I	205_L	1.224	1.00
173_R	179_T	1.212	1.00
44_A	48_Y	1.187	1.00
23_K	48_Y	1.169	1.00
82_I	85_S	1.160	1.00
129_G	133_A	1.144	1.00
18_G	78_I	1.142	1.00
157_L	204_C	1.142	1.00
33_L	71_F	1.140	1.00
21_I	76_V	1.135	1.00
200_R	203_D	1.114	1.00
110_H	114_E	1.108	1.00
14_L	42_V	1.107	1.00
209_G	214_I	1.106	1.00
183_I	203_D	1.098	1.00
157_L	202_Q	1.097	1.00
213_D	216_R	1.094	1.00
102_V	118_A	1.090	1.00
185_H	188_D	1.085	1.00
53_V	62_E	1.083	1.00
178_C	209_G	1.068	1.00
21_I	129_G	1.066	1.00
60_E	91_L	1.059	1.00
21_I	78_I	1.059	1.00
99_N	120_R	1.058	1.00
158_A	163_D	1.057	1.00
68_I	96_D	1.056	1.00
62_E	66_L	1.049	1.00
84_A	88_T	1.041	1.00
35_V	66_L	1.034	1.00
12_I	35_V	1.032	1.00
22_C	34_A	1.012	1.00
45_Y	49_A	1.009	1.00
35_V	62_E	0.992	1.00
193_P	197_D	0.989	1.00
163_D	200_R	0.982	1.00
61_N	65_S	0.981	1.00
100_I	119_D	0.980	1.00
79_G	84_A	0.970	1.00
14_L	36_D	0.965	1.00
35_V	55_A	0.963	1.00
49_A	52_A	0.954	1.00
15_G	36_D	0.954	1.00
152_S	211_K	0.952	1.00
154_V	158_A	0.951	1.00
127_D	131_K	0.948	1.00
17_F	103_K	0.943	1.00
10_A	66_L	0.940	1.00
168_I	194_A	0.926	1.00
209_G	213_D	0.925	1.00
151_Y	208_M	0.915	1.00
107_Y	126_K	0.912	1.00
93_K	117_G	0.912	1.00
45_Y	48_Y	0.910	1.00
18_G	36_D	0.898	1.00
26_H	50_T	0.881	1.00
40_E	43_N	0.878	1.00
8_Q	71_F	0.877	1.00
79_G	85_S	0.875	1.00
82_I	109_H	0.874	1.00
20_S	23_K	0.870	1.00
74_V	97_I	0.869	1.00
11_V	18_G	0.867	1.00
45_Y	52_A	0.866	1.00
9_F	30_H	0.865	1.00
8_Q	72_E	0.863	1.00
30_H	72_E	0.856	1.00
77_A	85_S	0.854	1.00
156_L	207_I	0.848	1.00
14_L	19_G	0.848	1.00
184_K	204_C	0.844	1.00
170_L	199_I	0.843	1.00
164_S	198_I	0.838	1.00
73_Y	101_W	0.834	1.00
110_H	126_K	0.830	1.00
179_T	195_P	0.830	1.00
40_E	44_A	0.823	1.00
159_T	201_E	0.821	1.00
15_G	57_A	0.820	1.00
33_L	66_L	0.815	1.00
11_V	32_V	0.814	1.00
60_E	95_L	0.805	1.00
182_A	206_V	0.804	1.00
79_G	88_T	0.800	1.00
18_G	22_C	0.800	1.00
30_H	137_S	0.795	1.00
68_I	95_L	0.791	1.00
63_L	95_L	0.790	1.00
43_N	47_S	0.787	1.00
76_V	92_L	0.774	1.00
36_D	41_K	0.770	1.00
166_S	196_E	0.769	1.00
19_G	23_K	0.767	1.00
83_Q	87_L	0.766	1.00
186_H	200_R	0.766	1.00
18_G	103_K	0.764	1.00
165_K	170_L	0.763	1.00
184_K	189_I	0.763	1.00
8_Q	33_L	0.763	1.00
68_I	71_F	0.759	1.00
73_Y	99_N	0.757	1.00
172_V	178_C	0.757	1.00
114_E	120_R	0.752	1.00
169_D	198_I	0.750	1.00
11_V	34_A	0.748	1.00
26_H	32_V	0.742	1.00
63_L	66_L	0.733	1.00
77_A	89_T	0.728	1.00
172_V	180_I	0.727	1.00
36_D	54_I	0.724	1.00
104_A	113_L	0.723	1.00
92_L	96_D	0.723	1.00
131_K	135_S	0.720	1.00
162_L	217_F	0.719	1.00
167_I	193_P	0.718	1.00
8_Q	70_N	0.715	1.00
25_L	32_V	0.711	1.00
126_K	130_V	0.709	1.00
63_L	68_I	0.708	1.00
192_S	195_P	0.703	1.00
11_V	21_I	0.703	1.00
90_L	94_E	0.702	1.00
207_I	217_F	0.700	1.00
90_L	127_D	0.700	1.00
33_L	53_V	0.699	1.00
146_D	152_S	0.698	1.00
85_S	109_H	0.696	1.00
153_I	181_L	0.693	1.00
10_A	33_L	0.691	1.00
46_A	52_A	0.690	1.00
172_V	217_F	0.687	1.00
71_F	74_V	0.686	1.00
24_E	28_M	0.685	1.00
181_L	208_M	0.681	1.00
26_H	49_A	0.676	1.00
177_G	210_H	0.673	1.00
100_I	118_A	0.671	1.00
34_A	45_Y	0.671	1.00
18_G	57_A	0.670	1.00
20_S	24_E	0.669	1.00
107_Y	110_H	0.668	1.00
64_L	68_I	0.664	1.00
118_A	121_I	0.663	1.00
22_C	32_V	0.663	1.00
19_G	48_Y	0.658	0.99
191_L	197_D	0.650	0.99
94_E	111_K	0.649	0.99
35_V	53_V	0.648	0.99
68_I	74_V	0.646	0.99
59_E	62_E	0.643	0.99
166_S	170_L	0.638	0.99
58_T	84_A	0.637	0.99
10_A	55_A	0.636	0.99
24_E	27_R	0.634	0.99
197_D	200_R	0.633	0.99
178_C	217_F	0.632	0.99
80_A	105_Q	0.631	0.99
23_K	27_R	0.630	0.99
82_I	105_Q	0.629	0.99
33_L	51_H	0.628	0.99
120_R	135_S	0.628	0.99
19_G	44_A	0.627	0.99
167_I	195_P	0.625	0.99
85_S	102_V	0.621	0.99
83_Q	106_N	0.620	0.99
14_L	18_G	0.620	0.99
148_S	151_Y	0.620	0.99
20_S	129_G	0.615	0.99
167_I	172_V	0.615	0.99
46_A	50_T	0.615	0.99
184_K	206_V	0.614	0.99
91_L	95_L	0.611	0.99
74_V	77_A	0.605	0.99
163_D	199_I	0.605	0.99
24_E	129_G	0.605	0.99
127_D	130_V	0.603	0.99
88_T	92_L	0.602	0.99
105_Q	125_E	0.602	0.99
46_A	53_V	0.600	0.99
150_E	210_H	0.598	0.99
37_I	56_N	0.593	0.99
83_Q	109_H	0.593	0.99
23_K	26_H	0.585	0.99
173_R	178_C	0.584	0.99
19_G	49_A	0.582	0.99
180_I	195_P	0.581	0.99
82_I	106_N	0.580	0.99
185_H	202_Q	0.579	0.99
9_F	25_L	0.574	0.99
169_D	196_E	0.574	0.99
26_H	48_Y	0.572	0.99
51_H	54_I	0.569	0.98
68_I	92_L	0.568	0.98
43_N	46_A	0.563	0.98
42_V	46_A	0.561	0.98
9_F	136_L	0.560	0.98
78_I	103_K	0.555	0.98
90_L	116_I	0.553	0.98
111_K	115_K	0.551	0.98
106_N	109_H	0.550	0.98
9_F	72_E	0.550	0.98
83_Q	86_T	0.547	0.98
141_V	144_Y	0.546	0.98
131_K	134_Q	0.543	0.98
167_I	199_I	0.541	0.98
21_I	87_L	0.540	0.98
130_V	134_Q	0.539	0.98
67_G	71_F	0.538	0.98
86_T	113_L	0.537	0.98
56_N	59_E	0.536	0.98
42_V	54_I	0.536	0.98
15_G	79_G	0.534	0.98
78_I	88_T	0.532	0.98
133_A	136_L	0.530	0.98
103_K	128_M	0.529	0.98
15_G	19_G	0.528	0.98
160_R	163_D	0.527	0.98
63_L	92_L	0.526	0.98
64_L	67_G	0.526	0.98
207_I	214_I	0.523	0.97
19_G	41_K	0.521	0.97
130_V	133_A	0.520	0.97
13_G	18_G	0.520	0.97
155_E	184_K	0.519	0.97
65_S	70_N	0.518	0.97
146_D	149_D	0.517	0.97
37_I	40_E	0.515	0.97
172_V	177_G	0.512	0.97
125_E	156_L	0.512	0.97
16_R	20_S	0.510	0.97
36_D	57_A	0.510	0.97
77_A	88_T	0.510	0.97
17_F	109_H	0.509	0.97
62_E	65_S	0.508	0.97
69_R	95_L	0.507	0.97
60_E	94_E	0.507	0.97
74_V	100_I	0.505	0.97
154_V	209_G	0.503	0.97
68_I	97_I	0.503	0.97
17_F	79_G	0.502	0.97
39_E	61_N	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
4gx0A	3	0.964	100	0.221	Contact Map
4g65A	2	0.9775	100	0.235	Contact Map
3mt5A	5	0.955	100	0.254	Contact Map
2aefA	2	0.955	100	0.259	Contact Map
1lnqA	6	0.955	100	0.262	Contact Map
3nafA	3	0.9955	100	0.28	Contact Map
4hpfA	3	0.9234	100	0.318	Contact Map
4j91A	3	0.964	100	0.334	Contact Map
3l4bC	2	0.955	100	0.343	Contact Map
3l9wA	2	0.7973	99.9	0.548	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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