PROW - ECOLI - GREMLIN Contacts

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PROW - Glycine betaine/L-proline transport system permease protein ProW

UniProt:	P14176	Sequences: MADQNNPWDTTPAADSAAQSADAWGTPTTAPTDGGGADWLTSTPAPNVEHFNILDPFHKTLIPLDSWVTEGIDWVVTHFRPVFQGVRVPVDYILNGFQQLLLGMPAPVAIIVFALIAWQISGVGMGVATLVSLIAIGAIGAWSQAMVTLALVLTALLFCIVIGLPLGIWLARSPRAAKIIRPLLDAMQTTPAFVYLVPIVMLFGIGNVPGVVVTIIFALPPIIRLTILGINQVPADLIEASRSFGASPRQMLFKVQLPLAMPTIMAGVNQTLMLALSMVVIASMIAVGGLGQMVLRGIGRLDMGLATVGGVGIVILAIILDRLTQAVGRDSRSRGNRRWYTTGPVGLLTRPFIK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10772
Length:	354 (271)
Sequences:	1969 (1188)
Seq/√Len:	72.2

ECOLI - PROW
BACSU - OPUAB
HALSA - Q9HMW2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
249_R	253_F	5.781	1.00
241_S	255_V	5.412	1.00
169_W	176_A	4.564	1.00
114_A	130_L	4.130	1.00
242_R	251_M	4.021	1.00
172_R	256_Q	3.723	1.00
132_S	315_I	3.504	1.00
177_A	227_I	3.391	1.00
227_I	231_N	3.204	1.00
241_S	251_M	3.169	1.00
175_R	179_I	2.882	1.00
176_A	180_I	2.876	1.00
104_M	109_A	2.866	1.00
75_V	83_F	2.785	1.00
174_P	231_N	2.639	1.00
82_V	86_V	2.568	1.00
293_M	309_G	2.484	1.00
113_F	129_T	2.440	1.00
187_M	216_I	2.283	1.00
144_Q	293_M	2.213	1.00
179_I	183_L	2.210	1.00
63_P	67_W	2.144	1.00
160_I	268_V	2.049	1.00
166_L	223_I	1.958	1.00
107_P	111_I	1.949	1.00
115_L	119_Q	1.936	1.00
251_M	255_V	1.924	1.00
85_G	89_P	1.921	1.00
175_R	178_K	1.912	1.00
170_L	227_I	1.908	1.00
109_A	112_V	1.870	1.00
114_A	126_G	1.857	1.00
166_L	180_I	1.836	1.00
170_L	176_A	1.786	1.00
110_I	137_G	1.784	1.00
64_L	135_A	1.764	1.00
129_T	319_I	1.743	1.00
133_L	319_I	1.739	1.00
124_G	128_A	1.726	1.00
302_D	305_L	1.713	1.00
81_P	85_G	1.702	1.00
118_W	126_G	1.686	1.00
121_S	125_M	1.684	1.00
126_G	129_T	1.670	1.00
123_V	127_V	1.628	0.99
174_P	227_I	1.619	0.99
91_D	95_N	1.600	0.99
158_F	215_I	1.592	0.99
100_L	103_G	1.590	0.99
284_M	295_L	1.589	0.99
98_Q	147_V	1.561	0.99
98_Q	207_N	1.543	0.99
99_Q	103_G	1.533	0.99
230_I	256_Q	1.532	0.99
185_D	224_R	1.509	0.99
222_I	271_T	1.479	0.99
65_D	308_V	1.477	0.99
238_I	256_Q	1.469	0.99
172_R	248_P	1.448	0.99
170_L	180_I	1.447	0.99
157_L	161_V	1.411	0.98
295_L	298_I	1.390	0.98
247_S	250_Q	1.376	0.98
103_G	112_V	1.374	0.98
125_M	128_A	1.371	0.98
109_A	146_M	1.353	0.98
283_S	295_L	1.352	0.98
177_A	181_R	1.351	0.98
197_V	306_A	1.344	0.98
97_F	154_T	1.339	0.98
139_I	297_G	1.326	0.98
234_P	259_L	1.325	0.98
100_L	104_M	1.323	0.98
173_S	176_A	1.312	0.98
217_F	277_S	1.291	0.97
124_G	127_V	1.291	0.97
160_I	164_L	1.283	0.97
113_F	133_L	1.280	0.97
242_R	248_P	1.279	0.97
238_I	251_M	1.275	0.97
61_L	138_A	1.273	0.97
134_I	137_G	1.262	0.97
297_G	309_G	1.261	0.97
323_L	326_A	1.255	0.97
92_Y	96_G	1.254	0.97
74_W	78_H	1.240	0.97
104_M	108_V	1.238	0.96
102_L	146_M	1.229	0.96
288_G	292_Q	1.227	0.96
187_M	220_P	1.214	0.96
232_Q	263_T	1.201	0.96
98_Q	102_L	1.199	0.96
64_L	67_W	1.196	0.96
127_V	131_V	1.189	0.96
90_V	212_V	1.183	0.95
147_V	288_G	1.181	0.95
64_L	139_I	1.180	0.95
135_A	139_I	1.177	0.95
114_A	117_A	1.175	0.95
199_I	202_L	1.173	0.95
136_I	312_G	1.153	0.95
117_A	323_L	1.150	0.95
65_D	69_T	1.147	0.95
234_P	254_K	1.126	0.94
95_N	143_S	1.120	0.94
149_L	320_L	1.114	0.94
95_N	99_Q	1.099	0.93
293_M	296_R	1.097	0.93
159_C	271_T	1.095	0.93
163_G	222_I	1.093	0.93
238_I	242_R	1.093	0.93
117_A	121_S	1.091	0.93
120_I	323_L	1.091	0.93
159_C	190_T	1.091	0.93
116_I	119_Q	1.084	0.93
169_W	173_S	1.084	0.93
273_M	317_A	1.080	0.93
109_A	113_F	1.072	0.92
241_S	246_A	1.070	0.92
234_P	325_Q	1.055	0.92
66_S	70_E	1.051	0.92
225_L	263_T	1.043	0.91
251_M	263_T	1.042	0.91
220_P	275_A	1.039	0.91
75_V	79_F	1.029	0.91
200_V	299_G	1.028	0.91
106_A	137_G	1.027	0.91
156_L	298_I	1.020	0.90
149_L	316_L	1.017	0.90
99_Q	104_M	1.007	0.90
141_A	210_G	0.995	0.89
144_Q	249_R	0.986	0.89
171_A	227_I	0.985	0.89
117_A	126_G	0.981	0.89
176_A	179_I	0.975	0.88
295_L	299_G	0.973	0.88
102_L	143_S	0.965	0.88
229_G	263_T	0.965	0.88
145_A	316_L	0.964	0.88
163_G	250_Q	0.962	0.88
117_A	125_M	0.956	0.87
89_P	92_Y	0.947	0.87
246_A	254_K	0.947	0.87
182_P	289_G	0.945	0.87
174_P	178_K	0.943	0.87
327_V	330_D	0.939	0.86
150_A	207_N	0.939	0.86
96_G	99_Q	0.938	0.86
163_G	283_S	0.932	0.86
294_V	309_G	0.931	0.86
63_P	66_S	0.925	0.85
68_V	71_G	0.919	0.85
125_M	130_L	0.910	0.85
115_L	118_W	0.907	0.84
134_I	138_A	0.901	0.84
96_G	100_L	0.899	0.84
162_I	166_L	0.897	0.84
146_M	150_A	0.897	0.84
141_A	144_Q	0.894	0.83
202_L	307_T	0.887	0.83
110_I	133_L	0.885	0.83
141_A	312_G	0.882	0.83
236_D	244_F	0.879	0.82
61_L	308_V	0.877	0.82
148_T	279_V	0.876	0.82
117_A	129_T	0.876	0.82
158_F	161_V	0.875	0.82
121_S	124_G	0.875	0.82
122_G	304_G	0.874	0.82
120_I	327_V	0.871	0.82
76_V	201_M	0.868	0.82
226_T	267_G	0.865	0.81
205_I	284_M	0.863	0.81
151_L	277_S	0.863	0.81
90_V	211_V	0.863	0.81
274_L	277_S	0.856	0.81
272_L	320_L	0.847	0.80
163_G	223_I	0.846	0.80
151_L	192_A	0.842	0.80
88_V	92_Y	0.841	0.80
89_P	93_I	0.838	0.79
295_L	309_G	0.833	0.79
71_G	75_V	0.828	0.78
169_W	179_I	0.824	0.78
257_L	264_I	0.823	0.78
128_A	131_V	0.811	0.77
70_E	92_Y	0.809	0.77
80_R	84_Q	0.804	0.76
73_D	77_T	0.801	0.76
67_W	70_E	0.796	0.76
88_V	91_D	0.796	0.76
188_Q	270_Q	0.790	0.75
113_F	319_I	0.789	0.75
85_G	88_V	0.787	0.75
221_P	267_G	0.784	0.75
69_T	76_V	0.782	0.74
236_D	241_S	0.776	0.74
167_G	291_G	0.775	0.74
168_I	252_L	0.772	0.73
270_Q	321_D	0.772	0.73
82_V	85_G	0.769	0.73
297_G	301_L	0.765	0.73
81_P	95_N	0.760	0.72
111_I	115_L	0.759	0.72
130_L	161_V	0.758	0.72
164_L	257_L	0.758	0.72
218_A	250_Q	0.756	0.72
113_F	116_I	0.756	0.72
207_N	288_G	0.755	0.72
263_T	275_A	0.755	0.72
174_P	177_A	0.754	0.72
221_P	269_N	0.752	0.72
90_V	94_L	0.752	0.72
71_G	78_H	0.752	0.72
309_G	313_I	0.750	0.71
171_A	230_I	0.748	0.71
285_I	325_Q	0.747	0.71
82_V	89_P	0.746	0.71
70_E	93_I	0.745	0.71
144_Q	309_G	0.742	0.70
125_M	129_T	0.741	0.70
99_Q	102_L	0.740	0.70
91_D	98_Q	0.739	0.70
87_R	204_G	0.739	0.70
240_A	255_V	0.727	0.69
237_L	259_L	0.723	0.69
87_R	308_V	0.721	0.68
141_A	293_M	0.720	0.68
81_P	84_Q	0.717	0.68
216_I	243_S	0.716	0.68
102_L	147_V	0.715	0.68
189_T	194_V	0.715	0.68
280_V	321_D	0.715	0.68
167_G	230_I	0.714	0.68
293_M	305_L	0.714	0.68
228_L	317_A	0.711	0.67
92_Y	95_N	0.704	0.66
131_V	134_I	0.704	0.66
250_Q	254_K	0.701	0.66
94_L	211_V	0.701	0.66
116_I	126_G	0.698	0.66
119_Q	122_G	0.696	0.66
299_G	303_M	0.695	0.65
198_P	278_M	0.695	0.65
125_M	241_S	0.693	0.65
317_A	321_D	0.691	0.65
110_I	134_I	0.688	0.65
177_A	231_N	0.688	0.65
300_R	303_M	0.687	0.65
62_I	65_D	0.684	0.64
225_L	280_V	0.682	0.64
157_L	329_R	0.680	0.64
240_A	259_L	0.680	0.64
211_V	285_I	0.678	0.64
84_Q	87_R	0.676	0.63
177_A	180_I	0.675	0.63
188_Q	321_D	0.668	0.62
169_W	186_A	0.668	0.62
162_I	219_L	0.667	0.62
88_V	323_L	0.651	0.60
64_L	68_V	0.650	0.60
142_W	285_I	0.649	0.60
96_G	158_F	0.649	0.60
315_I	318_I	0.648	0.60
101_L	153_L	0.646	0.60
184_L	195_Y	0.645	0.60
120_I	326_A	0.644	0.60
168_I	228_L	0.644	0.60
143_S	147_V	0.644	0.60
80_R	216_I	0.643	0.59
170_L	177_A	0.642	0.59
188_Q	198_P	0.640	0.59
92_Y	97_F	0.639	0.59
265_M	268_V	0.636	0.59
293_M	300_R	0.636	0.59
234_P	237_L	0.635	0.59
116_I	175_R	0.635	0.59
181_R	227_I	0.632	0.58
219_L	223_I	0.628	0.58
72_I	323_L	0.626	0.57
187_M	219_L	0.624	0.57
167_G	171_A	0.618	0.56
62_I	67_W	0.616	0.56
136_I	210_G	0.609	0.55
115_L	327_V	0.609	0.55
68_V	125_M	0.607	0.55
70_E	82_V	0.607	0.55
103_G	109_A	0.606	0.55
196_L	270_Q	0.605	0.55
109_A	329_R	0.605	0.55
116_I	131_V	0.604	0.55
120_I	219_L	0.603	0.55
281_I	302_D	0.603	0.55
225_L	266_A	0.601	0.54
145_A	320_L	0.600	0.54
246_A	251_M	0.599	0.54
225_L	288_G	0.598	0.54
93_I	96_G	0.598	0.54
292_Q	296_R	0.597	0.54
74_W	79_F	0.596	0.54
158_F	327_V	0.596	0.54
68_V	76_V	0.591	0.53
127_V	130_L	0.591	0.53
168_I	244_F	0.589	0.53
279_V	282_A	0.588	0.53
244_F	289_G	0.587	0.53
93_I	174_P	0.587	0.53
94_L	292_Q	0.587	0.53
184_L	220_P	0.585	0.52
301_L	326_A	0.584	0.52
104_M	157_L	0.583	0.52
110_I	199_I	0.582	0.52
225_L	274_L	0.578	0.52
293_M	297_G	0.578	0.52
276_L	282_A	0.573	0.51
112_V	116_I	0.573	0.51
145_A	212_V	0.572	0.51
156_L	217_F	0.571	0.51
194_V	284_M	0.571	0.51
87_R	292_Q	0.570	0.51
73_D	85_G	0.569	0.50
217_F	310_G	0.566	0.50
131_V	329_R	0.566	0.50
267_G	322_R	0.566	0.50
248_P	251_M	0.564	0.50
257_L	261_M	0.560	0.49
212_V	308_V	0.560	0.49
267_G	289_G	0.559	0.49
169_W	192_A	0.559	0.49
165_P	168_I	0.559	0.49
66_S	236_D	0.556	0.49
77_T	92_Y	0.554	0.49
118_W	156_L	0.554	0.49
126_G	130_L	0.554	0.49
136_I	140_G	0.554	0.49
283_S	293_M	0.553	0.48
70_E	174_P	0.552	0.48
130_L	329_R	0.551	0.48
223_I	316_L	0.550	0.48
243_S	250_Q	0.549	0.48
187_M	285_I	0.545	0.48
135_A	138_A	0.545	0.48
124_G	131_V	0.541	0.47
76_V	156_L	0.541	0.47
185_D	270_Q	0.540	0.47
65_D	72_I	0.540	0.47
79_F	91_D	0.540	0.47
186_A	299_G	0.539	0.47
306_A	310_G	0.538	0.47
153_L	315_I	0.537	0.47
220_P	250_Q	0.536	0.46
135_A	298_I	0.535	0.46
194_V	294_V	0.535	0.46
187_M	209_P	0.535	0.46
103_G	241_S	0.534	0.46
200_V	293_M	0.534	0.46
80_R	299_G	0.534	0.46
70_E	127_V	0.534	0.46
118_W	125_M	0.533	0.46
70_E	104_M	0.533	0.46
106_A	111_I	0.531	0.46
270_Q	273_M	0.528	0.45
228_L	266_A	0.526	0.45
195_Y	260_A	0.526	0.45
165_P	289_G	0.525	0.45
188_Q	269_N	0.524	0.45
113_F	123_V	0.524	0.45
117_A	146_M	0.523	0.45
208_V	284_M	0.523	0.45
207_N	292_Q	0.523	0.45
255_V	328_G	0.523	0.45
84_Q	88_V	0.521	0.45
217_F	274_L	0.521	0.45
120_I	180_I	0.520	0.44
107_P	114_A	0.520	0.44
98_Q	150_A	0.520	0.44
199_I	287_V	0.520	0.44
178_K	181_R	0.520	0.44
236_D	286_A	0.517	0.44
103_G	153_L	0.517	0.44
120_I	125_M	0.516	0.44
269_N	278_M	0.516	0.44
292_Q	299_G	0.515	0.44
198_P	310_G	0.515	0.44
100_L	178_K	0.514	0.44
135_A	315_I	0.514	0.44
149_L	174_P	0.514	0.44
144_Q	147_V	0.511	0.43
70_E	166_L	0.511	0.43
270_Q	278_M	0.510	0.43
141_A	305_L	0.508	0.43
186_A	311_V	0.508	0.43
166_L	219_L	0.507	0.43
181_R	251_M	0.507	0.43
201_M	285_I	0.506	0.43
195_Y	279_V	0.506	0.43
214_T	308_V	0.505	0.43
98_Q	154_T	0.505	0.43
62_I	66_S	0.504	0.43
206_G	239_E	0.504	0.43
229_G	267_G	0.503	0.42
88_V	179_I	0.503	0.42
185_D	191_P	0.502	0.42
269_N	321_D	0.501	0.42
199_I	225_L	0.501	0.42
182_P	322_R	0.500	0.42

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
2onkC	2	0.6582	100	0.557	Contact Map
3d31C	2	0.6469	100	0.565	Contact Map
4tquM	1	0.6921	100	0.593	Contact Map
3rlfF	1	0.8898	100	0.609	Contact Map
3tuiA	2	0.5678	100	0.618	Contact Map
4ymuD	2	0.5791	100	0.618	Contact Map
4tquN	1	0.6893	100	0.633	Contact Map
3rlfG	1	0.6836	100	0.633	Contact Map
2kogA	1	0.3136	32.5	0.955	Contact Map
4mrsA	2	0.3051	27	0.957	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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