FOCB - ECOLI - GREMLIN Contacts

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FOCB - Probable formate transporter 2

UniProt:	P77733	Sequences: MRNKLSFDLQLSARKAAIAERIAAHKIARSKVSVFLMAMSAGVFMAIGFTFYLSVIADAPSSQALTHLVGGLCFTLGFILLAVCGTSLFTSSVMTVMAKSRGVISWRTWLINALLVACGNLAGIACFSLLIWFSGLVMSENAMWGVAVLHCAEGKMHHTFTESVSLGIMCNLMVCLALWMSYCGRSLCDKIVAMILPITLFVASGFEHCIANLFVIPFAIAIRHFAPPPFWQLAHSSADNFPALTVSHFITANLLPVMLGNIIGGAVLVSMCYRAIYLRQEP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14220
Length:	282 (247)
Sequences:	2162 (1452)
Seq/√Len:	92.4

ECOLI - FOCB FOCA YFDC NIRC
BACSU - YRHG YWCJ

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
164_V	263_I	7.068	1.00
164_V	259_L	4.690	1.00
38_A	119_G	3.840	1.00
188_C	192_V	3.811	1.00
163_S	257_V	3.788	1.00
99_K	106_W	3.564	1.00
259_L	263_I	3.140	1.00
23_A	26_K	3.084	1.00
39_M	126_C	3.083	1.00
35_F	119_G	3.007	1.00
117_A	258_M	2.932	1.00
160_F	256_P	2.785	1.00
46_A	127_F	2.759	1.00
51_F	200_L	2.468	1.00
23_A	98_A	2.348	1.00
216_I	249_F	2.337	1.00
89_F	93_V	2.253	1.00
35_F	115_L	2.194	1.00
172_L	268_L	2.183	1.00
99_K	109_W	2.139	1.00
129_L	133_F	2.081	1.00
75_T	195_I	2.055	1.00
186_S	189_D	1.899	1.00
109_W	113_A	1.889	1.00
28_A	108_T	1.838	1.00
113_A	262_I	1.820	1.00
92_S	112_N	1.800	1.00
84_C	273_Y	1.796	1.00
31_K	115_L	1.752	1.00
159_T	162_E	1.750	1.00
220_I	249_F	1.728	1.00
79_I	191_I	1.725	1.00
99_K	104_I	1.725	1.00
184_G	189_D	1.688	1.00
110_L	114_L	1.679	1.00
89_F	262_I	1.665	1.00
34_V	115_L	1.648	1.00
43_V	172_L	1.641	1.00
128_S	221_A	1.638	1.00
117_A	209_C	1.620	1.00
220_I	246_V	1.579	1.00
150_H	153_E	1.570	1.00
39_M	122_A	1.563	1.00
35_F	39_M	1.551	1.00
250_I	255_L	1.534	1.00
80_L	176_L	1.523	1.00
93_V	113_A	1.504	1.00
168_I	263_I	1.503	1.00
129_L	221_A	1.495	1.00
121_L	213_L	1.487	1.00
11_L	14_R	1.468	1.00
52_Y	70_G	1.465	1.00
51_F	199_T	1.460	1.00
245_T	248_H	1.451	1.00
84_C	179_W	1.438	0.99
130_L	165_S	1.428	0.99
98_A	104_I	1.419	0.99
158_H	166_L	1.419	0.99
161_T	165_S	1.408	0.99
209_C	258_M	1.406	0.99
183_C	187_L	1.380	0.99
68_L	199_T	1.355	0.99
114_L	118_C	1.338	0.99
35_F	122_A	1.334	0.99
47_I	172_L	1.333	0.99
16_A	278_L	1.333	0.99
21_R	103_V	1.328	0.99
37_M	276_I	1.304	0.99
107_R	111_I	1.296	0.99
262_I	266_A	1.286	0.99
15_K	183_C	1.270	0.99
268_L	272_C	1.270	0.99
184_G	187_L	1.260	0.99
130_L	169_M	1.258	0.99
153_E	157_H	1.250	0.99
125_A	221_A	1.245	0.98
258_M	262_I	1.232	0.98
106_W	110_L	1.229	0.98
71_G	203_A	1.229	0.98
51_F	203_A	1.208	0.98
72_L	195_I	1.192	0.98
76_L	200_L	1.191	0.98
83_V	187_L	1.191	0.98
167_G	256_P	1.185	0.98
162_E	166_L	1.183	0.98
24_A	103_V	1.183	0.98
105_S	108_T	1.182	0.98
255_L	259_L	1.181	0.98
118_C	122_A	1.169	0.98
56_I	147_A	1.162	0.98
180_M	193_A	1.162	0.98
121_L	125_A	1.145	0.97
212_N	253_N	1.141	0.97
40_S	272_C	1.125	0.97
50_T	204_S	1.122	0.97
154_G	157_H	1.122	0.97
43_V	46_A	1.118	0.97
216_I	220_I	1.114	0.97
160_F	259_L	1.114	0.97
49_F	215_V	1.109	0.97
86_T	273_Y	1.096	0.97
135_G	162_E	1.095	0.97
53_L	151_C	1.093	0.97
97_M	270_S	1.085	0.96
128_S	218_F	1.085	0.96
267_V	271_M	1.078	0.96
72_L	199_T	1.076	0.96
117_A	254_L	1.068	0.96
153_E	243_A	1.064	0.96
147_A	150_H	1.060	0.96
55_V	69_V	1.059	0.96
172_L	269_V	1.048	0.96
210_I	213_L	1.045	0.96
167_G	258_M	1.042	0.95
47_I	127_F	1.041	0.95
170_C	210_I	1.038	0.95
269_V	273_Y	1.035	0.95
34_V	111_I	1.034	0.95
146_V	150_H	1.033	0.95
158_H	163_S	1.023	0.95
56_I	70_G	1.007	0.95
218_F	222_I	1.005	0.94
19_A	182_Y	1.002	0.94
47_I	173_M	0.996	0.94
101_R	274_R	0.990	0.94
77_G	202_V	0.987	0.94
221_A	246_V	0.986	0.94
30_S	33_S	0.986	0.94
81_L	86_T	0.982	0.94
171_N	201_F	0.966	0.93
21_R	25_H	0.960	0.93
79_I	196_L	0.954	0.93
65_L	69_V	0.949	0.93
37_M	87_S	0.944	0.92
82_A	194_M	0.939	0.92
155_K	171_N	0.939	0.92
100_S	274_R	0.931	0.92
148_V	218_F	0.927	0.92
53_L	148_V	0.924	0.92
23_A	96_V	0.924	0.92
27_I	104_I	0.921	0.91
81_L	167_G	0.920	0.91
22_I	26_K	0.914	0.91
100_S	271_M	0.912	0.91
209_C	254_L	0.908	0.91
40_S	44_F	0.908	0.91
44_F	86_T	0.901	0.91
248_H	252_A	0.900	0.90
112_N	116_V	0.893	0.90
160_F	164_V	0.892	0.90
24_A	28_A	0.890	0.90
166_L	207_E	0.889	0.90
138_M	162_E	0.888	0.90
223_R	243_A	0.883	0.90
174_V	201_F	0.881	0.90
127_F	172_L	0.880	0.89
156_M	248_H	0.876	0.89
58_D	71_G	0.869	0.89
31_K	35_F	0.866	0.89
152_A	216_I	0.860	0.88
155_K	212_N	0.859	0.88
252_A	256_P	0.858	0.88
32_V	275_A	0.855	0.88
125_A	128_S	0.837	0.87
136_L	166_L	0.832	0.87
59_A	65_L	0.831	0.87
152_A	219_A	0.830	0.87
21_R	24_A	0.829	0.86
256_P	259_L	0.828	0.86
156_M	220_I	0.826	0.86
53_L	214_F	0.826	0.86
84_C	180_M	0.825	0.86
55_V	73_C	0.825	0.86
160_F	252_A	0.823	0.86
125_A	217_P	0.822	0.86
95_T	98_A	0.820	0.86
72_L	79_I	0.815	0.86
18_I	182_Y	0.810	0.85
82_A	178_L	0.809	0.85
106_W	109_W	0.808	0.85
34_V	116_V	0.803	0.85
140_E	146_V	0.799	0.84
57_A	147_A	0.798	0.84
155_K	211_A	0.797	0.84
14_R	17_A	0.797	0.84
89_F	210_I	0.796	0.84
44_F	273_Y	0.789	0.84
223_R	242_P	0.786	0.83
108_T	111_I	0.784	0.83
155_K	201_F	0.783	0.83
84_C	176_L	0.779	0.83
46_A	214_F	0.775	0.83
87_S	92_S	0.770	0.82
117_A	121_L	0.769	0.82
180_M	197_P	0.767	0.82
201_F	212_N	0.766	0.82
267_V	272_C	0.766	0.82
75_T	79_I	0.765	0.82
87_S	116_V	0.765	0.82
20_E	23_A	0.761	0.81
179_W	273_Y	0.759	0.81
31_K	114_L	0.756	0.81
265_G	270_S	0.752	0.81
172_L	176_L	0.748	0.80
44_F	80_L	0.743	0.80
83_V	183_C	0.742	0.80
80_L	173_M	0.742	0.80
36_L	272_C	0.740	0.80
37_M	179_W	0.736	0.79
116_V	179_W	0.736	0.79
38_A	116_V	0.733	0.79
57_A	143_M	0.729	0.79
173_M	194_M	0.727	0.78
126_C	129_L	0.726	0.78
135_G	166_L	0.725	0.78
163_S	167_G	0.724	0.78
128_S	217_P	0.723	0.78
170_C	257_V	0.722	0.78
17_A	21_R	0.720	0.78
117_A	210_I	0.720	0.78
140_E	143_M	0.720	0.78
89_F	258_M	0.717	0.77
177_A	201_F	0.712	0.77
20_E	101_R	0.705	0.76
50_T	137_V	0.702	0.76
217_P	221_A	0.700	0.76
164_V	167_G	0.691	0.75
146_V	149_L	0.690	0.75
99_K	110_L	0.683	0.74
53_L	215_V	0.682	0.74
94_M	191_I	0.678	0.73
250_I	256_P	0.678	0.73
171_N	198_I	0.676	0.73
90_T	170_C	0.675	0.73
89_F	117_A	0.672	0.73
139_S	143_M	0.669	0.72
93_V	265_G	0.664	0.72
179_W	269_V	0.663	0.72
79_I	194_M	0.663	0.72
201_F	211_A	0.660	0.71
153_E	244_L	0.658	0.71
52_Y	56_I	0.651	0.70
131_I	169_M	0.650	0.70
156_M	219_A	0.650	0.70
12_S	15_K	0.647	0.70
18_I	22_I	0.646	0.70
102_G	106_W	0.643	0.69
151_C	215_V	0.643	0.69
207_E	212_N	0.640	0.69
148_V	219_A	0.638	0.69
160_F	163_S	0.637	0.69
266_A	270_S	0.635	0.68
99_K	102_G	0.634	0.68
171_N	212_N	0.631	0.68
179_W	277_Y	0.630	0.68
209_C	257_V	0.629	0.68
114_L	255_L	0.629	0.68
214_F	217_P	0.629	0.68
36_L	276_I	0.628	0.68
160_F	255_L	0.626	0.67
16_A	179_W	0.622	0.67
247_S	252_A	0.614	0.66
76_L	80_L	0.613	0.66
77_G	116_V	0.613	0.66
48_G	77_G	0.613	0.66
94_M	277_Y	0.612	0.66
136_L	204_S	0.606	0.65
104_I	108_T	0.605	0.65
173_M	197_P	0.605	0.65
191_I	196_L	0.603	0.64
58_D	64_A	0.602	0.64
132_W	221_A	0.602	0.64
14_R	185_R	0.601	0.64
145_G	149_L	0.598	0.64
52_Y	202_V	0.598	0.64
246_V	250_I	0.596	0.64
243_A	248_H	0.594	0.63
134_S	137_V	0.594	0.63
174_V	198_I	0.593	0.63
242_P	248_H	0.593	0.63
147_A	151_C	0.590	0.63
223_R	245_T	0.588	0.63
273_Y	277_Y	0.587	0.62
20_E	278_L	0.587	0.62
35_F	167_G	0.586	0.62
175_C	207_E	0.585	0.62
244_L	248_H	0.582	0.62
153_E	156_M	0.581	0.62
89_F	209_C	0.575	0.61
60_P	66_T	0.575	0.61
37_M	86_T	0.575	0.61
194_M	198_I	0.574	0.61
121_L	246_V	0.574	0.61
121_L	217_P	0.574	0.61
149_L	219_A	0.573	0.61
22_I	25_H	0.572	0.60
110_L	263_I	0.571	0.60
94_M	269_V	0.569	0.60
17_A	24_A	0.567	0.60
48_G	71_G	0.566	0.60
95_T	116_V	0.565	0.59
134_S	166_L	0.565	0.59
132_W	222_I	0.565	0.59
73_C	199_T	0.565	0.59
201_F	207_E	0.563	0.59
28_A	244_L	0.563	0.59
202_V	211_A	0.561	0.59
34_V	112_N	0.561	0.59
145_G	219_A	0.561	0.59
31_K	111_I	0.558	0.59
121_L	250_I	0.558	0.59
27_I	96_V	0.558	0.59
43_V	268_L	0.557	0.58
11_L	15_K	0.556	0.58
156_M	216_I	0.555	0.58
243_A	267_V	0.554	0.58
47_I	95_T	0.554	0.58
254_L	257_V	0.553	0.58
150_H	154_G	0.553	0.58
89_F	265_G	0.550	0.57
171_N	211_A	0.549	0.57
201_F	253_N	0.548	0.57
17_A	20_E	0.546	0.57
189_D	192_V	0.546	0.57
175_C	213_L	0.543	0.57
41_A	89_F	0.542	0.56
176_L	269_V	0.542	0.56
41_A	91_S	0.541	0.56
134_S	165_S	0.540	0.56
82_A	181_S	0.539	0.56
254_L	258_M	0.537	0.56
163_S	256_P	0.532	0.55
38_A	41_A	0.530	0.55
19_A	23_A	0.530	0.55
59_A	64_A	0.530	0.55
124_I	213_L	0.530	0.55
163_S	252_A	0.529	0.55
118_C	250_I	0.528	0.54
45_M	49_F	0.526	0.54
12_S	277_Y	0.524	0.54
84_C	183_C	0.523	0.54
16_A	97_M	0.523	0.54
17_A	103_V	0.522	0.54
74_F	201_F	0.522	0.54
71_G	202_V	0.521	0.53
220_I	223_R	0.521	0.53
49_F	214_F	0.519	0.53
102_G	105_S	0.518	0.53
38_A	115_L	0.517	0.53
78_F	94_M	0.516	0.53
29_R	34_V	0.515	0.53
170_C	201_F	0.514	0.53
252_A	255_L	0.514	0.53
272_C	275_A	0.513	0.52
15_K	126_C	0.513	0.52
15_K	179_W	0.512	0.52
27_I	112_N	0.510	0.52
59_A	66_T	0.510	0.52
11_L	23_A	0.508	0.52
26_K	171_N	0.507	0.52
176_L	180_M	0.507	0.52
247_S	250_I	0.505	0.51
220_I	244_L	0.504	0.51
249_F	254_L	0.504	0.51
76_L	274_R	0.504	0.51
87_S	112_N	0.503	0.51
39_M	43_V	0.501	0.51
94_M	266_A	0.501	0.51
36_L	275_A	0.501	0.51
146_V	245_T	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	0.8901	100	0.076	Contact Map
3klyA	3	0.9078	100	0.088	Contact Map
3tdsE	3	0.9007	100	0.154	Contact Map
4fc4A	3	0.8723	100	0.178	Contact Map
3zojA	3	0.8546	84.9	0.941	Contact Map
3llqA	3	0.8227	83.3	0.941	Contact Map
2o9gA	3	0.8121	74.6	0.946	Contact Map
3cn5A	3	0.8156	69.2	0.948	Contact Map
3iyzA	3	0.7553	58.2	0.952	Contact Map
4nefA	4	0.7872	32.6	0.959	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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