YFJV - ECOLI - GREMLIN Contacts

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YFJV - Putative arsenical pump membrane protein (Fragment)

UniProt:	P52137	Sequences: RALFTWKVLLGAAVDALFANDGAALILTPIVIAMLIALGFSQGTTLAFVMAAGFIADTASLPLIVSNLVNIVSADFFGLSFAQYASVMISVDAAAIAATLIMLYLFFRRVIPATYXVSLLKTPASAIKDLATFRAGWIVLLLLLVGFFFLEPQGILVSAIAAAGAAVLFVVAKRGHSINTGKVLRGAPWQIVIFSLGMYIVVYGLRNAGFTEYLSGVLNLLADKGLWAATFGTGFLTAFLSSVMNNMPTVLIGALSIDGSTATGVVKEAMIYANVIGCDLGPKITPIGSLATLLWLHVLAQKNMTITWGYYFRTGIVMTVPVLFVTLAALAWRLSVTL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13208
Length:	338 (280)
Sequences:	7484 (5226)
Seq/√Len:	312.3

ECOLI - YFJV ARSB YBHI CITT TTDT YBIR YFBS
BACSU - YWRK YDFA YFLS
HALSA - Q9HMC9
SULSO - Q980X8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
80_S	83_Q	3.544	1.00
64_I	74_A	3.523	1.00
123_P	126_A	3.452	1.00
307_T	310_Y	3.374	1.00
310_Y	313_R	3.311	1.00
130_L	134_R	3.053	1.00
212_E	216_G	2.883	1.00
181_G	185_R	2.840	1.00
49_V	295_W	2.784	1.00
286_P	296_L	2.712	1.00
46_L	310_Y	2.700	1.00
137_W	141_L	2.684	1.00
179_N	182_K	2.617	1.00
132_T	136_G	2.572	1.00
147_F	150_L	2.553	1.00
131_A	134_R	2.449	1.00
95_A	322_V	2.428	1.00
143_L	147_F	2.315	1.00
122_T	125_S	2.262	1.00
101_I	105_L	2.227	1.00
41_S	45_T	2.218	1.00
82_A	86_S	2.208	1.00
140_L	144_L	2.145	1.00
231_F	327_L	2.033	1.00
62_P	92_D	2.031	1.00
309_G	313_R	2.016	1.00
144_L	147_F	2.002	1.00
142_L	146_G	1.958	1.00
144_L	164_G	1.957	1.00
134_R	137_W	1.941	1.00
141_L	148_F	1.907	1.00
203_Y	207_N	1.898	1.00
133_F	136_G	1.881	1.00
83_Q	86_S	1.872	1.00
140_L	148_F	1.856	1.00
242_S	284_I	1.829	1.00
213_Y	217_V	1.809	1.00
320_V	324_F	1.801	1.00
72_V	254_A	1.800	1.00
59_A	96_I	1.782	1.00
235_F	327_L	1.740	1.00
250_V	278_C	1.728	1.00
146_G	150_L	1.716	1.00
328_A	332_W	1.631	1.00
105_L	108_R	1.601	1.00
235_F	323_L	1.591	1.00
238_A	323_L	1.582	1.00
139_V	147_F	1.571	1.00
102_M	321_P	1.563	1.00
112_P	115_Y	1.558	1.00
129_D	134_R	1.555	1.00
134_R	138_I	1.554	1.00
139_V	143_L	1.554	1.00
98_A	325_V	1.518	1.00
213_Y	216_G	1.504	1.00
315_G	319_T	1.499	1.00
263_T	267_K	1.482	1.00
124_A	127_I	1.477	1.00
86_S	90_S	1.470	1.00
98_A	321_P	1.461	1.00
131_A	135_A	1.452	1.00
65_V	81_F	1.447	1.00
138_I	142_L	1.438	1.00
63_L	66_S	1.431	1.00
135_A	139_V	1.429	1.00
107_F	314_T	1.422	1.00
60_S	67_N	1.413	1.00
144_L	148_F	1.388	1.00
53_G	295_W	1.380	1.00
157_V	161_A	1.373	1.00
132_T	135_A	1.369	1.00
73_S	275_V	1.367	1.00
101_I	104_Y	1.361	1.00
122_T	126_A	1.357	1.00
284_I	319_T	1.341	1.00
239_F	243_V	1.339	1.00
140_L	147_F	1.307	1.00
217_V	220_L	1.295	1.00
61_L	92_D	1.288	1.00
136_G	147_F	1.280	1.00
241_S	288_G	1.280	1.00
147_F	151_E	1.276	1.00
144_L	149_F	1.275	1.00
111_I	115_Y	1.272	1.00
61_L	280_L	1.266	1.00
111_I	114_T	1.265	1.00
216_G	219_N	1.259	1.00
166_A	170_V	1.250	1.00
107_F	110_V	1.247	1.00
133_F	137_W	1.242	1.00
238_A	319_T	1.242	1.00
138_I	141_L	1.237	1.00
156_L	159_A	1.236	1.00
69_V	250_V	1.235	1.00
316_I	320_V	1.235	1.00
137_W	148_F	1.229	1.00
99_T	318_M	1.224	1.00
180_T	184_L	1.218	1.00
129_D	132_T	1.218	1.00
69_V	247_M	1.208	1.00
62_P	89_I	1.204	1.00
85_A	89_I	1.201	1.00
225_G	228_A	1.195	1.00
227_W	331_A	1.189	1.00
234_G	277_G	1.187	1.00
58_T	99_T	1.185	1.00
88_M	276_I	1.184	1.00
235_F	239_F	1.172	1.00
312_F	316_I	1.164	1.00
91_V	329_A	1.162	1.00
72_V	251_L	1.140	1.00
136_G	140_L	1.123	1.00
145_V	148_F	1.118	1.00
49_V	52_A	1.105	1.00
141_L	147_F	1.099	1.00
141_L	145_V	1.096	1.00
124_A	128_K	1.090	1.00
195_S	247_M	1.088	1.00
136_G	139_V	1.083	1.00
181_G	184_L	1.083	1.00
217_V	221_L	1.083	1.00
83_Q	268_E	1.078	1.00
137_W	147_F	1.077	1.00
227_W	328_A	1.076	1.00
168_L	172_A	1.074	1.00
104_Y	109_R	1.068	1.00
234_G	273_A	1.063	1.00
94_A	325_V	1.052	1.00
237_T	278_C	1.052	1.00
209_G	212_E	1.048	1.00
273_A	277_G	1.045	1.00
134_R	144_L	1.043	1.00
134_R	148_F	1.037	1.00
146_G	149_F	1.027	1.00
47_A	103_L	1.024	1.00
46_L	50_M	1.017	1.00
161_A	164_G	1.016	1.00
264_G	267_K	1.010	1.00
127_I	134_R	1.000	1.00
158_S	161_A	0.999	1.00
241_S	246_N	0.997	1.00
134_R	147_F	0.994	1.00
178_I	182_K	0.993	1.00
118_S	122_T	0.993	1.00
257_I	274_N	0.989	1.00
246_N	288_G	0.988	1.00
41_S	110_V	0.984	1.00
164_G	168_L	0.980	1.00
116_X	119_L	0.979	1.00
111_I	116_X	0.969	1.00
89_I	93_A	0.969	1.00
129_D	133_F	0.968	1.00
54_F	99_T	0.965	1.00
114_T	117_V	0.965	1.00
51_A	55_I	0.956	1.00
143_L	146_G	0.952	1.00
128_K	134_R	0.952	1.00
129_D	135_A	0.952	1.00
130_L	133_F	0.951	1.00
64_I	71_I	0.946	1.00
53_G	292_T	0.936	1.00
134_R	141_L	0.934	1.00
130_L	135_A	0.928	1.00
183_V	187_A	0.923	1.00
139_V	142_L	0.922	1.00
273_A	330_L	0.922	1.00
317_V	320_V	0.919	1.00
258_D	261_T	0.917	1.00
236_L	240_L	0.917	1.00
97_A	101_I	0.915	1.00
148_F	151_E	0.913	1.00
49_V	306_I	0.910	1.00
167_V	171_V	0.905	1.00
61_L	88_M	0.904	1.00
263_T	266_V	0.904	1.00
216_G	220_L	0.904	1.00
195_S	282_P	0.903	1.00
152_P	156_L	0.903	1.00
137_W	140_L	0.899	1.00
93_A	97_A	0.898	1.00
64_I	85_A	0.896	1.00
191_I	297_H	0.894	1.00
292_T	295_W	0.892	1.00
233_T	237_T	0.888	1.00
157_V	160_I	0.884	1.00
158_S	164_G	0.876	1.00
91_V	325_V	0.875	1.00
102_M	106_F	0.872	1.00
146_G	151_E	0.872	1.00
305_T	309_G	0.870	1.00
328_A	331_A	0.868	1.00
134_R	145_V	0.860	1.00
124_A	130_L	0.858	1.00
246_N	282_P	0.851	1.00
55_I	59_A	0.851	1.00
149_F	153_Q	0.848	1.00
237_T	277_G	0.848	1.00
67_N	289_S	0.847	1.00
241_S	282_P	0.847	1.00
289_S	292_T	0.841	1.00
169_F	173_K	0.840	1.00
104_Y	108_R	0.839	1.00
255_L	258_D	0.837	1.00
82_A	85_A	0.835	1.00
68_L	247_M	0.835	1.00
46_L	107_F	0.834	1.00
247_M	290_L	0.831	1.00
133_F	144_L	0.824	1.00
135_A	138_I	0.823	1.00
91_V	95_A	0.823	1.00
50_M	54_F	0.822	1.00
158_S	165_A	0.815	1.00
136_G	146_G	0.815	1.00
311_Y	315_G	0.814	1.00
94_A	329_A	0.812	1.00
155_I	160_I	0.807	1.00
129_D	137_W	0.805	1.00
224_K	229_A	0.800	1.00
69_V	279_D	0.800	1.00
194_F	198_M	0.799	1.00
59_A	63_L	0.794	1.00
206_R	212_E	0.793	1.00
105_L	109_R	0.792	1.00
178_I	181_G	0.790	1.00
95_A	280_L	0.790	1.00
319_T	323_L	0.787	1.00
286_P	293_L	0.784	1.00
88_M	275_V	0.784	1.00
242_S	288_G	0.780	1.00
157_V	165_A	0.776	0.99
226_L	230_T	0.776	0.99
161_A	168_L	0.775	0.99
237_T	242_S	0.769	0.99
61_L	279_D	0.769	0.99
137_W	144_L	0.766	0.99
112_P	118_S	0.763	0.99
264_G	268_E	0.758	0.99
258_D	262_A	0.758	0.99
282_P	288_G	0.758	0.99
59_A	66_S	0.755	0.99
143_L	148_F	0.753	0.99
262_A	267_K	0.753	0.99
318_M	322_V	0.752	0.99
266_V	269_A	0.750	0.99
130_L	148_F	0.747	0.99
69_V	289_S	0.746	0.99
145_V	149_F	0.745	0.99
203_Y	206_R	0.744	0.99
58_T	92_D	0.743	0.99
230_T	273_A	0.740	0.99
57_D	291_A	0.737	0.99
160_I	164_G	0.736	0.99
237_T	274_N	0.735	0.99
76_F	254_A	0.733	0.99
237_T	253_G	0.733	0.99
182_K	185_R	0.732	0.99
324_F	328_A	0.729	0.99
50_M	314_T	0.727	0.99
242_S	319_T	0.727	0.99
188_P	191_I	0.722	0.99
91_V	276_I	0.722	0.99
237_T	241_S	0.721	0.99
205_L	211_T	0.720	0.99
254_A	275_V	0.716	0.99
249_T	253_G	0.711	0.99
130_L	137_W	0.707	0.99
234_G	326_T	0.707	0.99
247_M	250_V	0.706	0.99
208_A	255_L	0.706	0.99
49_V	53_G	0.705	0.99
60_S	297_H	0.699	0.99
60_S	66_S	0.699	0.99
165_A	172_A	0.697	0.99
70_N	279_D	0.696	0.99
134_R	142_L	0.688	0.99
54_F	283_K	0.688	0.99
76_F	258_D	0.687	0.99
114_T	118_S	0.687	0.99
141_L	144_L	0.682	0.99
316_I	319_T	0.680	0.99
88_M	272_Y	0.678	0.99
41_S	46_L	0.675	0.99
113_A	119_L	0.673	0.99
157_V	172_A	0.672	0.99
136_G	150_L	0.671	0.99
254_A	271_I	0.671	0.99
258_D	271_I	0.670	0.99
69_V	291_A	0.668	0.98
68_L	292_T	0.666	0.98
254_A	257_I	0.666	0.98
238_A	322_V	0.663	0.98
218_L	236_L	0.662	0.98
283_K	292_T	0.661	0.98
265_V	268_E	0.661	0.98
53_G	283_K	0.660	0.98
128_K	132_T	0.658	0.98
178_I	183_V	0.658	0.98
184_L	187_A	0.656	0.98
143_L	164_G	0.652	0.98
246_N	289_S	0.652	0.98
113_A	116_X	0.646	0.98
108_R	112_P	0.645	0.98
144_L	150_L	0.645	0.98
168_L	178_I	0.642	0.98
142_L	151_E	0.642	0.98
89_I	92_D	0.641	0.98
245_N	248_P	0.641	0.98
156_L	160_I	0.640	0.98
245_N	282_P	0.638	0.98
40_F	45_T	0.635	0.98
65_V	68_L	0.634	0.98
288_G	319_T	0.634	0.98
115_Y	118_S	0.632	0.98
140_L	143_L	0.632	0.98
57_D	289_S	0.632	0.98
233_T	274_N	0.631	0.98
289_S	293_L	0.629	0.98
95_A	325_V	0.626	0.98
250_V	254_A	0.619	0.98
285_T	288_G	0.618	0.98
326_T	330_L	0.616	0.97
127_I	133_F	0.614	0.97
92_D	330_L	0.613	0.97
315_G	318_M	0.612	0.97
55_I	96_I	0.611	0.97
169_F	172_A	0.608	0.97
46_L	306_I	0.608	0.97
52_A	55_I	0.608	0.97
309_G	312_F	0.605	0.97
167_V	172_A	0.604	0.97
123_P	127_I	0.603	0.97
286_P	312_F	0.601	0.97
81_F	85_A	0.601	0.97
83_Q	87_V	0.600	0.97
214_L	217_V	0.598	0.97
75_D	78_G	0.597	0.97
57_D	283_K	0.594	0.97
275_V	279_D	0.593	0.97
128_K	131_A	0.592	0.97
57_D	292_T	0.592	0.97
197_G	251_L	0.591	0.97
125_S	128_K	0.590	0.97
69_V	195_S	0.589	0.97
66_S	195_S	0.588	0.97
233_T	257_I	0.587	0.97
254_A	258_D	0.586	0.97
184_L	190_Q	0.585	0.97
57_D	279_D	0.585	0.97
280_L	322_V	0.583	0.96
102_M	317_V	0.583	0.96
244_M	249_T	0.581	0.96
320_V	323_L	0.580	0.96
139_V	150_L	0.572	0.96
138_I	145_V	0.569	0.96
88_M	199_Y	0.569	0.96
189_W	196_L	0.569	0.96
77_F	271_I	0.569	0.96
100_L	104_Y	0.565	0.96
92_D	97_A	0.565	0.96
319_T	322_V	0.564	0.96
131_A	148_F	0.564	0.96
158_S	170_V	0.563	0.96
67_N	291_A	0.562	0.96
90_S	329_A	0.559	0.96
164_G	173_K	0.558	0.95
238_A	277_G	0.557	0.95
53_G	311_Y	0.555	0.95
149_F	152_P	0.555	0.95
120_L	123_P	0.554	0.95
136_G	148_F	0.554	0.95
312_F	315_G	0.552	0.95
116_X	120_L	0.551	0.95
74_A	78_G	0.550	0.95
313_R	316_I	0.550	0.95
247_M	289_S	0.547	0.95
230_T	330_L	0.547	0.95
234_G	242_S	0.547	0.95
307_T	313_R	0.544	0.95
54_F	318_M	0.543	0.95
182_K	186_G	0.542	0.95
60_S	63_L	0.541	0.95
62_P	96_I	0.540	0.95
234_G	327_L	0.539	0.95
65_V	85_A	0.539	0.95
240_L	249_T	0.536	0.94
134_R	140_L	0.533	0.94
72_V	247_M	0.533	0.94
275_V	292_T	0.532	0.94
191_I	247_M	0.531	0.94
238_A	242_S	0.531	0.94
215_S	256_S	0.530	0.94
141_L	150_L	0.529	0.94
67_N	279_D	0.528	0.94
98_A	102_M	0.527	0.94
49_V	305_T	0.525	0.94
158_S	168_L	0.525	0.94
195_S	199_Y	0.522	0.94
196_L	200_I	0.521	0.94
68_L	282_P	0.520	0.93
282_P	289_S	0.518	0.93
276_I	326_T	0.518	0.93
286_P	311_Y	0.518	0.93
164_G	167_V	0.517	0.93
265_V	270_M	0.517	0.93
180_T	183_V	0.515	0.93
202_V	211_T	0.515	0.93
113_A	117_V	0.515	0.93
198_M	285_T	0.511	0.93
120_L	128_K	0.511	0.93
222_A	229_A	0.510	0.93
306_I	310_Y	0.510	0.93
106_F	109_R	0.508	0.93
283_K	322_V	0.508	0.93
206_R	211_T	0.506	0.93
194_F	197_G	0.505	0.92
158_S	172_A	0.504	0.92
69_V	290_L	0.502	0.92
164_G	172_A	0.502	0.92
225_G	232_G	0.501	0.92
96_I	100_L	0.500	0.92

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
4f35D	2	0.9172	100	0.416	Contact Map
4r1iA	2	0.9822	99.9	0.628	Contact Map
4r0cA	3	0.9645	99.8	0.684	Contact Map
1ldfA	3	0.3254	32.3	0.949	Contact Map
3qnqA	2	0.3609	21.7	0.953	Contact Map
4nefA	4	0.3669	14.3	0.956	Contact Map
3c02A	3	0.3314	12.4	0.957	Contact Map
3d9sA	3	0.3402	9.7	0.959	Contact Map
3qe7A	2	0.2663	9.7	0.959	Contact Map
2b6oA	6	0.3432	8.8	0.96	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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