Q9HMW2 - HALSA - GREMLIN Contacts

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Q9HMW2 - Oligopeptide transport permease protein

UniProt:	Q9HMW2	Sequences: MAAEDADTATFEDIDWDAQGISTLGVSRAGLAELLSYLGLIVAFVYDYTWNTGPLVFRWDVLSVEWLFIGTLIAIVFHAVIPLSQKPRLRAFYWRRFKKNQVAVVALGWLAVMFVVGVLGPLLIDPPTTQFTNQSVPPVGMSTTVGGVVKTGTWQYPLGTSAKGQGILTLVVYGMRVSMEVGLIATIFSVIIGSAVGAVAAFATSVGRGRIDELLMRYVDVQSVFPDFMLLLLLTYLFGSELWMIILLFGFFSWEGIARTVRGEALQRASEEYITAAEASGANMLYIVRQHLIPNSANSIIISATVGIPGFILGEASLAFLGFSDPTTYSWGRTIATGQVNLASAWWIATIPGVFLFLTVLSFYYVGESLRDAMDPRQEVDGGGGL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	386 (292)
Sequences:	2585 (1819)
Seq/√Len:	106.5

ECOLI - YEJE DPPC YEJB GSID SAPC DDPC NIKB DDPB NIKC OPPC DPPB GSIC OPPB SAPB
BACSU - DPPC APPC OPPC DPPB OPPB APPB
HALSA - Q9HMW2 Q9HMX1 Q9HMI1 Q9HMX0 Q9HMW3 Q9HMI2
SULSO - Q97YP2 Q97YP9 Q97VK7 Q97UH2 Q97UG3 Q97VF6 Q97VF8 Q97UH1 Q97YQ0 Q97VK6 Q97YP1 Q97UG4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
196_V	215_L	6.026	1.00
158_L	171_V	4.875	1.00
94_W	98_K	4.410	1.00
331_W	359_T	3.878	1.00
282_A	286_Y	3.724	1.00
203_A	284_M	3.664	1.00
97_F	366_V	3.203	1.00
214_L	218_Y	2.998	1.00
315_E	330_S	2.941	1.00
161_S	165_Q	2.931	1.00
115_V	119_L	2.928	1.00
175_M	331_W	2.926	1.00
127_P	130_Q	2.884	1.00
117_G	175_M	2.818	1.00
158_L	351_I	2.729	1.00
154_W	157_P	2.642	1.00
116_V	172_V	2.530	1.00
167_I	334_T	2.487	1.00
108_G	112_V	2.483	1.00
124_I	169_T	2.481	1.00
158_L	168_L	2.288	1.00
265_A	292_L	2.213	1.00
98_K	104_V	2.199	1.00
119_L	122_L	2.191	1.00
188_F	250_G	2.085	1.00
168_L	172_V	2.079	1.00
103_A	369_S	2.063	1.00
184_I	246_I	2.060	1.00
201_A	265_A	2.049	1.00
202_F	284_M	2.046	1.00
198_A	265_A	1.994	1.00
109_W	358_L	1.989	1.00
217_R	220_D	1.961	1.00
208_R	212_D	1.902	1.00
331_W	355_F	1.901	1.00
371_R	375_D	1.896	1.00
268_R	292_L	1.852	1.00
277_A	291_H	1.843	1.00
212_D	262_R	1.800	1.00
200_A	216_M	1.794	1.00
210_R	214_L	1.790	1.00
89_L	93_Y	1.786	1.00
156_Y	166_G	1.766	1.00
107_L	111_A	1.764	1.00
274_I	292_L	1.759	1.00
88_R	91_A	1.727	1.00
268_R	273_Y	1.724	1.00
87_P	91_A	1.714	1.00
106_A	362_S	1.657	1.00
105_V	108_G	1.638	1.00
216_M	220_D	1.629	1.00
203_A	211_I	1.627	1.00
167_I	348_I	1.619	1.00
350_T	354_V	1.614	1.00
277_A	287_I	1.609	1.00
283_N	286_Y	1.590	1.00
171_V	355_F	1.589	1.00
227_D	231_L	1.532	1.00
185_A	311_F	1.530	1.00
278_E	284_M	1.439	1.00
216_M	258_A	1.423	1.00
149_V	152_G	1.418	1.00
107_L	366_V	1.408	1.00
124_I	172_V	1.404	1.00
153_T	156_Y	1.402	1.00
90_R	374_M	1.400	1.00
104_V	108_G	1.388	1.00
120_G	123_L	1.385	1.00
150_K	153_T	1.373	1.00
120_G	173_Y	1.373	1.00
272_E	275_T	1.368	1.00
182_G	312_I	1.359	1.00
120_G	124_I	1.357	1.00
173_Y	176_R	1.353	1.00
180_E	246_I	1.335	0.99
265_A	296_S	1.324	0.99
113_M	359_T	1.322	0.99
309_P	363_F	1.307	0.99
346_W	350_T	1.305	0.99
285_L	289_R	1.300	0.99
185_A	250_G	1.299	0.99
249_F	253_S	1.295	0.99
267_Q	271_E	1.294	0.99
109_W	362_S	1.288	0.99
198_A	288_V	1.286	0.99
296_S	299_S	1.282	0.99
331_W	334_T	1.280	0.99
216_M	219_V	1.265	0.99
210_R	213_E	1.242	0.99
106_A	365_Y	1.231	0.99
264_E	267_Q	1.230	0.99
257_I	307_G	1.223	0.99
275_T	279_A	1.213	0.99
110_L	363_F	1.207	0.99
305_T	367_G	1.202	0.99
198_A	293_I	1.196	0.99
302_I	305_T	1.195	0.99
147_G	152_G	1.193	0.99
90_R	94_W	1.191	0.99
175_M	359_T	1.179	0.99
94_W	107_L	1.177	0.99
123_L	168_L	1.175	0.99
200_A	215_L	1.170	0.99
105_V	109_W	1.158	0.98
335_I	338_G	1.156	0.98
195_A	289_R	1.147	0.98
121_P	176_R	1.142	0.98
125_D	169_T	1.139	0.98
351_I	354_V	1.138	0.98
368_E	372_D	1.138	0.98
100_N	103_A	1.137	0.98
102_V	106_A	1.131	0.98
278_E	287_I	1.117	0.98
189_S	307_G	1.103	0.98
196_V	258_A	1.099	0.98
102_V	365_Y	1.096	0.98
249_F	314_G	1.093	0.98
156_Y	160_T	1.092	0.98
165_Q	170_L	1.089	0.98
215_L	219_V	1.079	0.98
219_V	258_A	1.067	0.97
202_F	287_I	1.062	0.97
246_I	250_G	1.061	0.97
152_G	155_Q	1.057	0.97
91_A	95_R	1.057	0.97
317_S	321_L	1.052	0.97
200_A	259_R	1.046	0.97
110_L	362_S	1.045	0.97
227_D	230_L	1.037	0.97
354_V	358_L	1.036	0.97
203_A	288_V	1.035	0.97
180_E	184_I	1.034	0.97
353_G	356_L	1.033	0.97
166_G	169_T	1.033	0.97
106_A	369_S	1.028	0.97
338_G	348_I	1.028	0.97
111_A	114_F	1.023	0.97
218_Y	222_Q	1.005	0.96
75_I	78_H	1.003	0.96
202_F	288_V	0.994	0.96
248_L	252_F	0.992	0.96
342_L	350_T	0.989	0.96
196_V	199_V	0.988	0.96
198_A	296_S	0.987	0.96
327_T	375_D	0.982	0.96
142_S	145_V	0.980	0.96
201_A	269_A	0.974	0.96
153_T	157_P	0.972	0.96
309_P	360_V	0.971	0.96
147_G	150_K	0.970	0.95
178_S	182_G	0.970	0.95
192_I	195_A	0.970	0.95
355_F	359_T	0.970	0.95
241_E	244_M	0.965	0.95
78_H	81_I	0.960	0.95
113_M	358_L	0.956	0.95
216_M	266_L	0.954	0.95
79_A	82_P	0.952	0.95
126_P	132_T	0.947	0.95
95_R	98_K	0.944	0.95
97_F	104_V	0.942	0.95
114_F	118_V	0.940	0.95
90_R	93_Y	0.933	0.94
87_P	95_R	0.929	0.94
277_A	282_A	0.920	0.94
256_G	310_G	0.917	0.94
222_Q	255_E	0.917	0.94
178_S	315_E	0.909	0.94
253_S	314_G	0.909	0.94
223_S	255_E	0.907	0.94
189_S	253_S	0.907	0.94
132_T	156_Y	0.893	0.93
108_G	111_A	0.891	0.93
100_N	369_S	0.890	0.93
243_W	246_I	0.889	0.93
217_R	266_L	0.885	0.93
199_V	203_A	0.884	0.93
368_E	371_R	0.875	0.92
338_G	349_A	0.872	0.92
145_V	150_K	0.868	0.92
342_L	345_A	0.864	0.92
220_D	266_L	0.856	0.91
190_V	304_A	0.851	0.91
268_R	271_E	0.849	0.91
101_Q	104_V	0.848	0.91
171_V	334_T	0.847	0.91
364_Y	368_E	0.845	0.91
254_W	330_S	0.842	0.91
320_F	339_Q	0.840	0.91
145_V	148_V	0.839	0.91
167_I	351_I	0.838	0.91
213_E	217_R	0.837	0.91
151_T	347_W	0.835	0.90
104_V	107_L	0.835	0.90
199_V	215_L	0.835	0.90
170_L	327_T	0.829	0.90
256_G	303_S	0.828	0.90
157_P	168_L	0.826	0.90
97_F	365_Y	0.823	0.90
220_D	223_S	0.821	0.90
313_L	353_G	0.821	0.90
230_L	252_F	0.820	0.90
342_L	346_W	0.818	0.89
112_V	116_V	0.816	0.89
216_M	259_R	0.816	0.89
260_T	299_S	0.814	0.89
257_I	303_S	0.812	0.89
264_E	299_S	0.810	0.89
192_I	254_W	0.808	0.89
243_W	247_L	0.803	0.89
130_Q	133_N	0.803	0.89
244_M	248_L	0.801	0.88
163_K	366_V	0.796	0.88
111_A	115_V	0.791	0.88
333_R	337_T	0.787	0.88
286_Y	289_R	0.784	0.87
211_I	214_L	0.781	0.87
119_L	176_R	0.780	0.87
74_A	77_F	0.778	0.87
240_S	244_M	0.778	0.87
97_F	103_A	0.776	0.87
286_Y	290_Q	0.776	0.87
273_Y	295_N	0.775	0.87
126_P	156_Y	0.772	0.87
129_T	133_N	0.769	0.86
115_V	123_L	0.766	0.86
329_Y	333_R	0.766	0.86
114_F	183_L	0.763	0.86
120_G	169_T	0.763	0.86
184_I	187_I	0.761	0.86
128_T	173_Y	0.759	0.86
220_D	259_R	0.753	0.85
260_T	303_S	0.751	0.85
312_I	359_T	0.743	0.84
227_D	314_G	0.742	0.84
109_W	113_M	0.732	0.84
321_L	347_W	0.731	0.84
118_V	122_L	0.731	0.84
197_G	201_A	0.730	0.83
128_T	132_T	0.729	0.83
110_L	366_V	0.728	0.83
180_E	242_L	0.726	0.83
254_W	315_E	0.724	0.83
128_T	328_T	0.722	0.83
257_I	315_E	0.721	0.83
247_L	283_N	0.721	0.83
106_A	361_L	0.721	0.83
128_T	169_T	0.716	0.82
201_A	361_L	0.715	0.82
80_V	83_L	0.715	0.82
123_L	169_T	0.712	0.82
253_S	307_G	0.712	0.82
251_F	279_A	0.710	0.82
124_I	173_Y	0.705	0.81
229_M	248_L	0.703	0.81
116_V	120_G	0.703	0.81
361_L	365_Y	0.702	0.81
145_V	152_G	0.702	0.81
106_A	109_W	0.701	0.81
353_G	360_V	0.696	0.80
191_I	194_S	0.694	0.80
151_T	154_W	0.690	0.80
372_D	375_D	0.690	0.80
305_T	363_F	0.690	0.80
280_S	365_Y	0.689	0.80
315_E	319_A	0.687	0.80
275_T	377_R	0.685	0.79
174_G	334_T	0.681	0.79
215_L	218_Y	0.678	0.79
102_V	105_V	0.678	0.79
231_L	248_L	0.676	0.78
113_M	362_S	0.674	0.78
219_V	255_E	0.674	0.78
182_G	308_I	0.674	0.78
271_E	275_T	0.673	0.78
88_R	373_A	0.670	0.78
192_I	196_V	0.670	0.78
309_P	349_A	0.669	0.78
296_S	300_I	0.662	0.77
148_V	152_G	0.661	0.77
316_A	336_A	0.659	0.77
186_T	246_I	0.659	0.77
307_G	311_F	0.658	0.77
146_G	151_T	0.658	0.77
193_G	197_G	0.657	0.76
261_V	264_E	0.656	0.76
349_A	353_G	0.656	0.76
212_D	266_L	0.656	0.76
347_W	351_I	0.653	0.76
244_M	247_L	0.653	0.76
179_M	183_L	0.653	0.76
252_F	267_Q	0.650	0.76
319_A	324_S	0.649	0.76
181_V	315_E	0.649	0.76
229_M	351_I	0.647	0.75
92_F	96_R	0.647	0.75
181_V	185_A	0.647	0.75
203_A	283_N	0.646	0.75
152_G	158_L	0.646	0.75
157_P	351_I	0.643	0.75
203_A	209_G	0.643	0.75
182_G	229_M	0.639	0.74
158_L	355_F	0.638	0.74
170_L	333_R	0.638	0.74
193_G	312_I	0.637	0.74
196_V	219_V	0.634	0.74
182_G	311_F	0.631	0.74
91_A	94_W	0.630	0.73
193_G	217_R	0.627	0.73
171_V	351_I	0.627	0.73
245_I	254_W	0.627	0.73
183_L	187_I	0.626	0.73
191_I	195_A	0.625	0.73
261_V	291_H	0.620	0.72
325_D	329_Y	0.619	0.72
91_A	98_K	0.618	0.72
146_G	152_G	0.618	0.72
238_F	248_L	0.616	0.72
129_T	132_T	0.615	0.72
375_D	378_Q	0.614	0.72
264_E	273_Y	0.613	0.71
245_I	363_F	0.613	0.71
266_L	270_S	0.612	0.71
335_I	356_L	0.611	0.71
145_V	149_V	0.611	0.71
338_G	341_N	0.608	0.71
235_T	241_E	0.607	0.71
245_I	365_Y	0.606	0.71
154_W	195_A	0.605	0.70
302_I	368_E	0.604	0.70
292_L	297_A	0.603	0.70
329_Y	364_Y	0.600	0.70
224_V	375_D	0.600	0.70
358_L	362_S	0.600	0.70
327_T	368_E	0.599	0.70
79_A	192_I	0.598	0.70
109_W	359_T	0.596	0.69
118_V	176_R	0.596	0.69
172_V	375_D	0.592	0.69
236_Y	335_I	0.589	0.68
319_A	330_S	0.589	0.68
232_L	329_Y	0.588	0.68
274_I	287_I	0.588	0.68
96_R	373_A	0.586	0.68
264_E	268_R	0.586	0.68
100_N	372_D	0.584	0.68
274_I	277_A	0.583	0.68
234_L	339_Q	0.582	0.67
245_I	320_F	0.582	0.67
200_A	266_L	0.581	0.67
337_T	340_V	0.580	0.67
161_S	170_L	0.578	0.67
114_F	179_M	0.577	0.67
363_F	377_R	0.577	0.67
363_F	366_V	0.576	0.67
309_P	315_E	0.575	0.67
360_V	364_Y	0.570	0.66
324_S	330_S	0.570	0.66
186_T	194_S	0.569	0.66
184_I	279_A	0.568	0.66
254_W	258_A	0.568	0.66
224_V	368_E	0.567	0.65
265_A	268_R	0.567	0.65
284_M	288_V	0.567	0.65
92_F	379_E	0.566	0.65
77_F	80_V	0.564	0.65
187_I	304_A	0.562	0.65
131_F	163_K	0.558	0.64
194_S	300_I	0.557	0.64
253_S	310_G	0.556	0.64
283_N	289_R	0.556	0.64
200_A	220_D	0.555	0.64
234_L	245_I	0.554	0.64
125_D	128_T	0.553	0.64
368_E	375_D	0.551	0.63
259_R	324_S	0.547	0.63
188_F	243_W	0.547	0.63
208_R	269_A	0.545	0.62
128_T	133_N	0.545	0.62
76_V	79_A	0.544	0.62
227_D	253_S	0.543	0.62
197_G	212_D	0.541	0.62
162_A	337_T	0.540	0.62
242_L	246_I	0.540	0.62
222_Q	254_W	0.540	0.62
313_L	317_S	0.540	0.62
189_S	311_F	0.539	0.62
189_S	257_I	0.539	0.62
126_P	155_Q	0.538	0.61
85_Q	91_A	0.537	0.61
150_K	156_Y	0.537	0.61
125_D	168_L	0.536	0.61
231_L	235_T	0.535	0.61
253_S	257_I	0.534	0.61
156_Y	169_T	0.532	0.61
119_L	172_V	0.530	0.60
163_K	234_L	0.529	0.60
215_L	258_A	0.528	0.60
196_V	211_I	0.528	0.60
323_F	363_F	0.526	0.60
165_Q	329_Y	0.526	0.60
181_V	245_I	0.526	0.60
79_A	83_L	0.525	0.60
299_S	303_S	0.525	0.60
116_V	355_F	0.523	0.59
80_V	85_Q	0.523	0.59
96_R	369_S	0.523	0.59
217_R	367_G	0.522	0.59
311_F	331_W	0.522	0.59
238_F	247_L	0.521	0.59
275_T	278_E	0.520	0.59
233_L	236_Y	0.520	0.59
192_I	315_E	0.517	0.58
110_L	329_Y	0.514	0.58
142_S	146_G	0.513	0.58
201_A	292_L	0.513	0.58
122_L	125_D	0.512	0.58
170_L	375_D	0.511	0.58
235_T	335_I	0.510	0.57
149_V	348_I	0.510	0.57
343_A	346_W	0.508	0.57
126_P	130_Q	0.508	0.57
287_I	377_R	0.508	0.57
118_V	183_L	0.507	0.57
133_N	145_V	0.506	0.57
181_V	246_I	0.506	0.57
241_E	252_F	0.506	0.57
258_A	352_P	0.506	0.57
121_P	225_F	0.505	0.57
132_T	147_G	0.505	0.57
229_M	360_V	0.504	0.57
237_L	240_S	0.504	0.57
82_P	85_Q	0.504	0.57
189_S	250_G	0.503	0.56
76_V	109_W	0.503	0.56
185_A	189_S	0.502	0.56
302_I	371_R	0.500	0.56
99_K	111_A	0.500	0.56

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
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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
4tquM	1	0.6554	100	0.723	Contact Map
3tuiA	2	0.5259	99.9	0.747	Contact Map
3d31C	2	0.601	99.9	0.755	Contact Map
3rlfG	1	0.6736	99.9	0.763	Contact Map
3rlfF	1	0.886	99.9	0.766	Contact Map
2onkC	2	0.614	99.9	0.769	Contact Map
4tquN	1	0.6891	99.9	0.769	Contact Map
4ymuD	2	0.5415	99.9	0.775	Contact Map
2yevC	1	0.0881	20.2	0.97	Contact Map
3j9pD	4	0.772	20	0.97	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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