NIRC - ECOLI - GREMLIN Contacts

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NIRC - Nitrite transporter NirC

UniProt:	P0AC26	Sequences: MFTDTINKCAANAARIARLSANNPLGFWVSSAMAGAYVGLGIILIFTLGNLLDPSVRPLVMGATFGIALTLVIIAGSELFTGHTMFLTFGVKAGSISHGQMWAILPQTWLGNLVGSVFVAMLYSWGGGSLLPVDTSIVHSVALAKTTAPAMVLFFKGALCNWLVCLAIWMALRTEGAAKFIAIWWCLLAFIASGYEHSIANMTLFALSWFGNHSEAYTLAGIGHNLLWVTLGNTLSGAVFMGLGYWYATPKANRPVADKFNQTETAAG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10654
Length:	268 (246)
Sequences:	2200 (1473)
Seq/√Len:	93.9

ECOLI - NIRC YFDC FOCA FOCB
BACSU - YWCJ YRHG

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
154_F	235_L	7.375	1.00
154_F	231_L	4.733	1.00
177_A	181_I	3.913	1.00
153_L	229_V	3.902	1.00
31_S	111_G	3.899	1.00
91_V	98_H	3.667	1.00
231_L	235_L	3.348	1.00
32_A	118_F	3.262	1.00
28_W	111_G	3.164	1.00
109_W	230_T	3.111	1.00
39_G	119_V	2.985	1.00
150_A	228_W	2.862	1.00
44_L	189_A	2.481	1.00
121_M	125_W	2.338	1.00
16_I	90_G	2.250	1.00
80_F	84_T	2.248	1.00
162_W	240_F	2.193	1.00
66_G	184_W	2.145	1.00
91_V	101_M	2.109	1.00
28_W	107_Q	2.090	1.00
101_M	105_L	1.996	1.00
21_A	100_Q	1.943	1.00
83_H	104_I	1.926	1.00
32_A	114_V	1.849	1.00
75_A	245_Y	1.849	1.00
158_A	235_L	1.839	1.00
70_T	180_F	1.791	1.00
91_V	96_I	1.783	1.00
149_P	152_V	1.780	1.00
174_T	178_A	1.769	1.00
24_P	107_Q	1.764	1.00
102_W	106_P	1.758	1.00
105_L	234_T	1.735	1.00
80_F	234_T	1.729	1.00
27_F	107_Q	1.728	1.00
120_A	210_F	1.721	1.00
36_A	162_W	1.689	1.00
28_W	114_V	1.685	1.00
148_A	156_K	1.660	1.00
109_W	198_S	1.635	1.00
28_W	32_A	1.628	1.00
122_L	155_F	1.607	1.00
75_A	169_W	1.579	1.00
84_T	105_L	1.568	1.00
121_M	210_F	1.553	1.00
113_L	202_M	1.552	1.00
140_S	143_L	1.537	1.00
71_L	166_L	1.511	1.00
45_I	61_M	1.502	1.00
198_S	230_T	1.480	1.00
217_Y	221_G	1.475	1.00
151_M	155_F	1.475	1.00
9_C	250_P	1.460	1.00
44_L	188_L	1.460	1.00
240_F	244_G	1.416	0.99
90_G	96_I	1.406	0.99
170_M	182_A	1.382	0.99
40_L	162_W	1.374	0.99
99_G	103_A	1.374	0.99
14_A	95_S	1.374	0.99
8_K	173_R	1.370	0.99
59_L	188_L	1.356	0.99
122_L	159_L	1.356	0.99
106_P	110_L	1.345	0.99
98_H	102_W	1.330	0.99
30_S	248_A	1.308	0.99
234_T	238_A	1.304	0.99
205_F	209_W	1.298	0.99
62_G	192_A	1.290	0.99
201_N	225_N	1.284	0.99
117_V	210_F	1.252	0.99
152_V	156_K	1.249	0.99
42_I	204_L	1.245	0.99
63_A	184_W	1.240	0.99
67_I	189_A	1.234	0.98
49_G	137_I	1.222	0.98
144_A	147_T	1.218	0.98
137_I	140_S	1.206	0.98
97_S	100_Q	1.203	0.98
157_G	228_W	1.182	0.98
44_L	192_A	1.182	0.98
227_L	231_L	1.177	0.98
33_M	244_G	1.167	0.98
53_D	56_V	1.159	0.98
241_M	245_Y	1.156	0.98
148_A	153_L	1.147	0.98
239_V	243_L	1.145	0.98
77_S	245_Y	1.143	0.97
16_I	19_L	1.143	0.97
223_G	227_L	1.132	0.97
110_L	114_V	1.132	0.97
143_L	147_T	1.130	0.97
68_A	191_I	1.129	0.97
109_W	226_L	1.125	0.97
230_T	234_T	1.123	0.97
46_F	141_V	1.120	0.97
92_K	243_L	1.118	0.97
43_I	193_S	1.116	0.97
207_L	211_G	1.115	0.97
36_A	39_G	1.104	0.97
40_L	163_L	1.103	0.97
113_L	117_V	1.097	0.97
150_A	231_L	1.096	0.97
48_L	60_V	1.094	0.97
93_A	246_W	1.088	0.97
89_F	242_G	1.078	0.96
72_V	77_S	1.076	0.96
17_A	95_S	1.071	0.96
52_L	56_V	1.068	0.96
40_L	119_V	1.055	0.96
120_A	207_L	1.044	0.96
7_N	10_A	1.037	0.96
160_C	199_I	1.033	0.95
199_I	202_M	1.029	0.95
162_W	241_M	1.016	0.95
63_A	188_L	1.015	0.95
49_G	61_M	1.012	0.95
127_G	152_V	1.008	0.95
12_N	172_L	1.002	0.95
72_V	157_G	0.999	0.95
30_S	78_E	0.994	0.94
92_K	246_W	0.983	0.94
119_V	162_W	0.981	0.94
23_N	26_G	0.973	0.94
145_K	200_A	0.973	0.94
27_F	103_A	0.973	0.94
70_T	185_W	0.968	0.94
73_I	183_I	0.959	0.93
20_S	96_I	0.951	0.93
33_M	37_Y	0.943	0.93
154_F	157_G	0.941	0.93
46_F	138_V	0.938	0.92
37_Y	245_Y	0.936	0.92
209_W	219_L	0.933	0.92
138_V	207_L	0.931	0.92
113_L	223_G	0.930	0.92
224_H	228_W	0.922	0.92
37_Y	77_S	0.917	0.92
125_W	155_F	0.916	0.92
146_T	221_G	0.915	0.92
78_E	83_H	0.909	0.91
24_P	28_W	0.908	0.91
136_S	140_S	0.907	0.91
56_V	60_V	0.906	0.91
16_I	87_L	0.905	0.91
142_A	208_S	0.904	0.91
17_A	21_A	0.899	0.91
87_L	90_G	0.895	0.91
157_G	230_T	0.894	0.91
80_F	199_I	0.893	0.91
145_K	161_N	0.888	0.90
198_S	226_L	0.887	0.90
164_V	190_F	0.886	0.90
46_F	203_T	0.881	0.90
104_I	108_T	0.880	0.90
14_A	18_R	0.868	0.89
25_L	247_Y	0.858	0.89
110_L	223_G	0.856	0.89
73_I	168_I	0.855	0.89
163_L	183_I	0.855	0.89
150_A	154_F	0.854	0.88
205_F	222_I	0.854	0.88
29_V	244_G	0.850	0.88
169_W	245_Y	0.849	0.88
156_K	196_E	0.848	0.88
14_A	17_A	0.845	0.88
50_N	137_I	0.844	0.88
145_K	190_F	0.844	0.88
117_V	206_A	0.835	0.87
75_A	170_M	0.819	0.86
51_L	62_G	0.815	0.86
132_P	136_S	0.813	0.86
161_N	190_F	0.813	0.86
48_L	64_T	0.808	0.86
216_A	221_G	0.807	0.85
109_W	113_L	0.807	0.85
206_A	210_F	0.806	0.85
39_G	203_T	0.805	0.85
27_F	108_T	0.802	0.85
117_V	120_A	0.802	0.85
160_C	229_V	0.798	0.85
209_W	217_Y	0.797	0.85
237_G	242_G	0.796	0.85
162_W	166_L	0.792	0.84
142_A	205_F	0.791	0.84
108_T	169_W	0.791	0.84
136_S	139_H	0.788	0.84
75_A	166_L	0.788	0.84
145_K	201_N	0.787	0.84
216_A	220_A	0.786	0.84
80_F	109_W	0.785	0.84
74_I	173_R	0.781	0.84
5_T	8_K	0.778	0.83
190_F	201_N	0.776	0.83
221_G	224_H	0.774	0.83
80_F	230_T	0.772	0.83
63_A	70_T	0.771	0.83
91_V	102_W	0.768	0.83
153_L	157_G	0.767	0.82
66_G	70_T	0.764	0.82
120_A	206_A	0.763	0.82
98_H	101_M	0.763	0.82
167_A	190_F	0.760	0.82
24_P	106_P	0.759	0.82
37_Y	71_L	0.759	0.82
150_A	224_H	0.758	0.82
100_Q	103_A	0.757	0.82
170_M	186_C	0.757	0.82
78_E	108_T	0.752	0.81
239_V	244_G	0.746	0.81
11_A	172_L	0.745	0.81
86_F	90_G	0.739	0.80
190_F	200_A	0.738	0.80
118_F	121_M	0.738	0.80
30_S	169_W	0.735	0.80
71_L	163_L	0.734	0.80
228_W	231_L	0.729	0.79
70_T	183_I	0.726	0.79
161_N	201_N	0.713	0.78
109_W	199_I	0.712	0.78
52_L	55_S	0.711	0.77
81_T	160_C	0.709	0.77
45_I	49_G	0.708	0.77
85_M	180_F	0.707	0.77
84_T	237_G	0.706	0.77
10_A	14_A	0.694	0.76
10_A	95_S	0.692	0.76
31_S	108_T	0.689	0.75
226_L	230_T	0.688	0.75
198_S	229_V	0.687	0.75
137_I	141_V	0.686	0.75
141_V	204_L	0.686	0.75
124_S	211_G	0.684	0.75
150_A	153_L	0.680	0.74
196_E	201_N	0.672	0.73
13_A	93_A	0.671	0.73
169_W	249_T	0.669	0.73
164_V	187_L	0.667	0.73
139_H	208_S	0.664	0.72
133_V	136_S	0.663	0.72
46_F	204_L	0.660	0.72
163_L	186_C	0.659	0.72
11_A	15_R	0.658	0.72
5_T	249_T	0.657	0.72
220_A	224_H	0.654	0.71
82_G	144_A	0.650	0.71
146_T	208_S	0.650	0.71
146_T	209_W	0.649	0.71
169_W	241_M	0.648	0.71
52_L	60_V	0.648	0.71
225_N	229_V	0.641	0.70
127_G	156_K	0.639	0.70
9_C	249_T	0.634	0.69
210_F	219_L	0.630	0.69
40_L	86_F	0.629	0.68
180_F	185_W	0.627	0.68
130_L	152_V	0.626	0.68
29_V	248_A	0.625	0.68
147_T	216_A	0.622	0.68
201_N	229_V	0.619	0.67
10_A	13_A	0.617	0.67
203_T	206_A	0.616	0.67
106_P	227_L	0.613	0.66
161_N	225_N	0.612	0.66
126_G	155_F	0.608	0.66
50_N	133_V	0.607	0.66
138_V	208_S	0.607	0.66
91_V	94_G	0.604	0.65
7_N	175_E	0.599	0.65
17_A	96_I	0.599	0.65
238_A	242_G	0.599	0.65
30_S	77_S	0.599	0.65
128_G	156_K	0.599	0.65
68_A	108_T	0.599	0.65
161_N	165_C	0.597	0.64
34_A	82_G	0.597	0.64
64_T	188_L	0.596	0.64
51_L	55_S	0.595	0.64
188_L	192_A	0.593	0.64
160_C	190_F	0.593	0.64
52_L	57_R	0.592	0.64
45_I	191_I	0.590	0.63
22_N	27_F	0.587	0.63
43_I	129_S	0.587	0.63
28_W	157_G	0.585	0.63
94_G	97_S	0.583	0.63
19_L	31_S	0.582	0.62
143_L	146_T	0.580	0.62
161_N	164_V	0.579	0.62
190_F	196_E	0.576	0.62
85_M	241_M	0.576	0.62
63_A	181_I	0.573	0.61
166_L	241_M	0.569	0.61
245_Y	249_T	0.569	0.61
32_A	36_A	0.566	0.60
173_R	249_T	0.564	0.60
94_G	98_H	0.563	0.60
91_V	100_Q	0.562	0.60
27_F	104_I	0.560	0.59
85_M	165_C	0.560	0.59
135_T	208_S	0.559	0.59
102_W	235_L	0.559	0.59
124_S	207_L	0.558	0.59
42_I	203_T	0.558	0.59
65_F	190_F	0.557	0.59
165_C	242_G	0.556	0.59
19_L	203_T	0.555	0.59
191_I	200_A	0.555	0.59
67_I	71_L	0.553	0.59
71_L	189_A	0.551	0.58
113_L	222_I	0.551	0.58
191_I	204_L	0.549	0.58
75_A	173_R	0.548	0.58
85_M	249_T	0.546	0.58
119_V	199_I	0.546	0.58
78_E	104_I	0.546	0.58
199_I	244_G	0.542	0.57
161_N	187_L	0.541	0.57
44_L	156_K	0.540	0.57
124_S	155_F	0.536	0.56
31_S	34_A	0.536	0.56
165_C	196_E	0.536	0.56
13_A	250_P	0.536	0.56
150_A	227_L	0.535	0.56
64_T	75_A	0.535	0.56
40_L	199_I	0.535	0.56
25_L	94_G	0.534	0.56
209_W	212_N	0.534	0.56
153_L	228_W	0.534	0.56
96_I	100_Q	0.533	0.56
143_L	213_H	0.532	0.56
19_L	104_I	0.532	0.56
48_L	107_Q	0.530	0.55
153_L	224_H	0.530	0.55
233_N	237_G	0.529	0.55
41_G	64_T	0.527	0.55
171_A	182_A	0.526	0.55
109_W	202_M	0.525	0.55
74_I	174_T	0.524	0.55
38_V	42_I	0.523	0.54
86_F	96_I	0.523	0.54
219_L	223_G	0.522	0.54
74_I	170_M	0.521	0.54
123_Y	159_L	0.520	0.54
148_A	151_M	0.518	0.54
80_F	237_G	0.517	0.54
69_L	183_I	0.517	0.54
173_R	182_A	0.515	0.53
224_H	227_L	0.515	0.53
24_P	103_A	0.513	0.53
236_S	241_M	0.513	0.53
73_I	97_S	0.513	0.53
140_S	144_A	0.512	0.53
124_S	210_F	0.511	0.53
128_G	131_L	0.510	0.53
96_I	161_N	0.509	0.52
151_M	166_L	0.509	0.52
80_F	198_S	0.508	0.52
80_F	88_T	0.507	0.52
29_V	33_M	0.507	0.52
88_T	92_K	0.507	0.52
206_A	209_W	0.506	0.52
6_I	14_A	0.505	0.52
48_L	192_A	0.505	0.52
9_C	13_A	0.503	0.52
124_S	135_T	0.502	0.51
20_S	104_I	0.502	0.51
205_F	221_G	0.501	0.51
32_A	175_E	0.500	0.51

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
3kcuA	3	0.8545	100	0.121	Contact Map
3tdsE	3	0.9627	100	0.129	Contact Map
3klyA	3	0.8731	100	0.131	Contact Map
4fc4A	3	0.9216	100	0.133	Contact Map
3zojA	3	0.8843	87.7	0.935	Contact Map
3c02A	3	0.8246	84.2	0.938	Contact Map
3llqA	3	0.8209	77	0.942	Contact Map
3cn5A	3	0.7948	76.9	0.943	Contact Map
3iyzA	3	0.75	73.9	0.944	Contact Map
2zz9A	3	0.7649	72.9	0.944	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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