RFAL - ECOLI - GREMLIN Contacts

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RFAL - O-antigen ligase

UniProt:	P27243	Sequences: MLTSFKLHSLKPYTLKSSMILEIITYILCFFSMIIAFVDNTFSIKIYNITAIVCLLSLILRGRQENYNIKNLILPLSIFLIGLLDLIWYSAFKVDNSPFRATYHSYLNTAKIFIFGSFIVFLTLTSQLKSKKESVLYTLYSLSFLIAGYAMYINSIHENDRISFGVGTATGAAYSTMLIGIVSGVAILYTKKNHPFLFLLNSCAVLYVLALTQTRATLLLFPIICVAALIAYYNKSPKKFTSSIVLLIAILASIVIIFNKPIQNRYNEALNDLNSYTNANSVTSLGARLAMYEIGLNIFIKSPFSFRSAESRAESMNLLVAEHNRLRGALEFSNVHLHNEIIEAGSLKGLMGIFSTLFLYFSLFYIAYKKRALGLLILTLGIVGIGLSDVIIWARSIPIIIISAIVLLLVINNRNNTIN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11424
Length:	419 (363)
Sequences:	8770 (8066)
Seq/√Len:	423.3

ECOLI - RFAL
BACSU - TUAE
HALSA - Q9HSV6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
302_S	307_R	5.337	1.00
299_F	345_G	5.097	1.00
348_K	352_G	4.743	1.00
307_R	311_S	4.536	1.00
161_R	169_A	3.890	1.00
343_E	347_L	3.725	1.00
345_G	353_I	3.325	1.00
173_A	217_T	3.030	1.00
344_A	356_T	2.979	1.00
84_L	355_S	2.923	1.00
170_T	214_T	2.859	1.00
295_G	342_I	2.839	1.00
180_G	202_S	2.785	1.00
361_F	365_Y	2.706	1.00
295_G	337_L	2.642	1.00
296_L	300_I	2.615	1.00
292_Y	342_I	2.608	1.00
181_I	224_I	2.595	1.00
37_F	41_T	2.535	1.00
339_N	342_I	2.434	1.00
340_E	386_G	2.372	1.00
300_I	303_P	2.241	1.00
337_L	343_E	2.241	1.00
298_I	307_R	2.215	1.00
307_R	346_S	2.184	1.00
365_Y	369_K	2.175	1.00
309_A	348_K	2.058	1.00
295_G	299_F	2.048	1.00
146_I	164_F	2.032	1.00
351_M	355_S	2.020	1.00
213_Q	218_L	1.993	1.00
150_A	172_A	1.989	1.00
299_F	350_L	1.969	1.00
143_S	179_I	1.965	1.00
351_M	354_F	1.937	1.00
177_M	381_G	1.898	1.00
170_T	217_T	1.888	1.00
88_W	91_A	1.886	1.00
295_G	346_S	1.878	1.00
353_I	357_L	1.866	1.00
33_M	37_F	1.865	1.00
133_E	137_Y	1.851	1.00
77_S	358_F	1.846	1.00
341_I	387_L	1.830	1.00
216_A	388_S	1.825	1.00
176_T	212_T	1.822	1.00
402_I	406_V	1.813	1.00
166_V	175_S	1.781	1.00
88_W	92_F	1.766	1.00
168_T	389_D	1.763	1.00
92_F	98_P	1.763	1.00
341_I	383_V	1.754	1.00
299_F	303_P	1.712	1.00
143_S	205_V	1.706	1.00
297_N	300_I	1.706	1.00
173_A	212_T	1.689	1.00
140_Y	183_S	1.680	1.00
170_T	338_H	1.675	1.00
301_K	319_L	1.646	1.00
224_I	377_I	1.643	1.00
305_S	351_M	1.640	1.00
398_P	402_I	1.621	1.00
180_G	221_F	1.613	1.00
220_L	224_I	1.609	1.00
336_H	389_D	1.605	1.00
291_M	338_H	1.602	1.00
172_A	176_T	1.581	1.00
385_I	389_D	1.571	1.00
298_I	346_S	1.554	1.00
176_T	205_V	1.552	1.00
77_S	355_S	1.541	1.00
177_M	224_I	1.530	1.00
172_A	212_T	1.521	1.00
134_S	138_T	1.502	1.00
85_D	88_W	1.487	1.00
299_F	346_S	1.466	1.00
265_R	268_E	1.464	1.00
291_M	337_L	1.460	1.00
406_V	410_V	1.446	1.00
84_L	351_M	1.423	1.00
187_I	202_S	1.415	1.00
76_L	80_L	1.402	1.00
180_G	205_V	1.363	1.00
298_I	301_K	1.362	1.00
113_F	117_S	1.359	1.00
192_K	195_P	1.358	1.00
199_L	203_C	1.355	1.00
216_A	220_L	1.343	1.00
296_L	299_F	1.337	1.00
374_G	378_L	1.319	1.00
84_L	88_W	1.309	1.00
138_T	142_L	1.297	1.00
339_N	387_L	1.294	1.00
375_L	378_L	1.291	1.00
337_L	346_S	1.291	1.00
220_L	384_G	1.282	1.00
265_R	269_A	1.277	1.00
293_E	297_N	1.270	1.00
170_T	389_D	1.263	1.00
137_Y	141_S	1.258	1.00
168_T	338_H	1.250	1.00
179_I	205_V	1.250	1.00
129_K	133_E	1.250	1.00
302_S	305_S	1.247	1.00
112_I	116_G	1.235	1.00
153_I	164_F	1.233	1.00
310_E	347_L	1.229	1.00
172_A	208_V	1.219	1.00
92_F	311_S	1.209	1.00
130_S	134_S	1.208	1.00
295_G	312_R	1.206	1.00
84_L	91_A	1.205	1.00
120_V	123_T	1.202	1.00
299_F	351_M	1.200	1.00
228_A	377_I	1.193	1.00
85_D	348_K	1.193	1.00
119_I	122_L	1.187	1.00
336_H	390_V	1.187	1.00
146_I	165_G	1.174	1.00
299_F	353_I	1.169	1.00
311_S	347_L	1.162	1.00
297_N	301_K	1.162	1.00
80_L	84_L	1.161	1.00
373_L	377_I	1.158	1.00
344_A	353_I	1.156	1.00
69_I	72_L	1.154	1.00
181_I	378_L	1.153	1.00
385_I	390_V	1.139	1.00
336_H	343_E	1.138	1.00
342_I	345_G	1.137	1.00
343_E	390_V	1.137	1.00
117_S	121_F	1.131	1.00
312_R	316_M	1.123	1.00
95_D	98_P	1.122	1.00
109_T	112_I	1.115	1.00
183_S	201_N	1.113	1.00
285_L	292_Y	1.102	1.00
180_G	209_L	1.101	1.00
52_I	56_L	1.098	1.00
161_R	214_T	1.096	1.00
148_G	152_Y	1.091	1.00
196_F	199_L	1.087	1.00
196_F	200_L	1.086	1.00
203_C	207_Y	1.085	1.00
144_F	201_N	1.084	1.00
207_Y	211_L	1.084	1.00
358_F	362_S	1.082	1.00
290_A	293_E	1.081	1.00
399_I	402_I	1.081	1.00
224_I	381_G	1.080	1.00
341_I	353_I	1.076	1.00
34_I	37_F	1.076	1.00
187_I	199_L	1.074	1.00
201_N	205_V	1.073	1.00
284_S	289_L	1.072	1.00
223_I	384_G	1.072	1.00
37_F	40_N	1.069	1.00
162_I	208_V	1.068	1.00
295_G	338_H	1.066	1.00
227_A	377_I	1.062	1.00
367_A	375_L	1.062	1.00
292_Y	339_N	1.061	1.00
168_T	171_G	1.060	1.00
385_I	388_S	1.058	1.00
345_G	348_K	1.058	1.00
147_A	208_V	1.052	1.00
51_A	55_L	1.050	1.00
209_L	221_F	1.048	1.00
227_A	231_A	1.039	1.00
354_F	358_F	1.037	1.00
128_L	131_K	1.037	1.00
294_I	297_N	1.034	1.00
345_G	352_G	1.034	1.00
287_A	291_M	1.033	1.00
171_G	336_H	1.031	1.00
286_G	289_L	1.029	1.00
289_L	293_E	1.025	1.00
312_R	337_L	1.025	1.00
185_V	189_Y	1.024	1.00
48_N	52_I	1.021	1.00
190_T	195_P	1.020	1.00
225_C	229_L	1.018	1.00
186_A	198_F	1.017	1.00
137_Y	198_F	1.016	1.00
150_A	162_I	1.011	1.00
170_T	173_A	1.010	1.00
108_N	112_I	1.003	1.00
182_V	374_G	1.001	1.00
390_V	393_W	0.997	1.00
49_I	53_V	0.995	1.00
357_L	361_F	0.991	1.00
150_A	164_F	0.986	1.00
344_A	348_K	0.981	1.00
298_I	302_S	0.973	1.00
185_V	374_G	0.973	1.00
239_K	242_S	0.972	1.00
152_Y	156_I	0.968	1.00
367_A	408_L	0.962	1.00
147_A	205_V	0.957	1.00
74_L	77_S	0.956	1.00
215_R	265_R	0.953	1.00
81_I	85_D	0.952	1.00
177_M	181_I	0.952	1.00
70_K	73_I	0.949	1.00
341_I	386_G	0.937	1.00
295_G	345_G	0.936	1.00
209_L	212_T	0.934	1.00
153_I	162_I	0.930	1.00
338_H	343_E	0.929	1.00
215_R	285_L	0.926	1.00
81_I	344_A	0.919	1.00
289_L	292_Y	0.918	1.00
282_V	286_G	0.914	1.00
312_R	347_L	0.914	1.00
345_G	351_M	0.912	1.00
214_T	217_T	0.910	1.00
47_Y	51_A	0.909	1.00
294_I	298_I	0.904	1.00
84_L	305_S	0.903	1.00
205_V	208_V	0.902	1.00
137_Y	186_A	0.901	1.00
285_L	289_L	0.900	1.00
150_A	153_I	0.900	1.00
178_L	181_I	0.897	1.00
284_S	287_A	0.895	1.00
75_P	121_F	0.894	1.00
366_I	369_K	0.893	1.00
388_S	392_I	0.891	1.00
174_Y	385_I	0.891	1.00
143_S	208_V	0.888	1.00
79_F	82_G	0.883	1.00
187_I	198_F	0.880	1.00
263_Q	267_N	0.877	1.00
116_G	120_V	0.873	1.00
261_P	264_N	0.872	1.00
362_S	365_Y	0.871	1.00
301_K	307_R	0.866	1.00
134_S	137_Y	0.866	1.00
348_K	351_M	0.866	1.00
50_T	54_C	0.864	1.00
72_L	75_P	0.862	1.00
378_L	404_A	0.861	1.00
183_S	205_V	0.859	1.00
191_K	195_P	0.858	1.00
78_I	85_D	0.855	1.00
206_L	221_F	0.854	1.00
141_S	145_L	0.853	1.00
57_S	61_R	0.853	1.00
71_N	75_P	0.850	1.00
164_F	172_A	0.846	1.00
381_G	385_I	0.844	1.00
131_K	134_S	0.842	1.00
183_S	202_S	0.838	1.00
61_R	64_Q	0.837	1.00
170_T	385_I	0.837	1.00
188_L	228_A	0.828	1.00
147_A	151_M	0.827	1.00
328_G	331_E	0.827	1.00
368_Y	371_R	0.825	1.00
147_A	176_T	0.824	1.00
202_S	206_L	0.824	1.00
283_T	287_A	0.820	1.00
209_L	217_T	0.820	1.00
389_D	397_I	0.819	1.00
359_L	363_L	0.818	1.00
220_L	381_G	0.818	1.00
109_T	113_F	0.811	1.00
259_N	263_Q	0.810	1.00
80_L	355_S	0.809	1.00
40_N	44_I	0.808	1.00
227_A	376_L	0.807	1.00
215_R	284_S	0.807	1.00
340_E	344_A	0.806	1.00
292_Y	338_H	0.804	1.00
362_S	366_I	0.803	1.00
184_G	202_S	0.801	1.00
303_P	307_R	0.800	1.00
153_I	338_H	0.800	1.00
153_I	163_S	0.796	1.00
292_Y	337_L	0.791	1.00
341_I	345_G	0.790	1.00
77_S	80_L	0.790	1.00
79_F	83_L	0.790	1.00
139_L	179_I	0.788	1.00
147_A	201_N	0.787	1.00
140_Y	205_V	0.784	1.00
246_L	250_I	0.784	1.00
144_F	204_A	0.779	1.00
89_Y	98_P	0.778	1.00
169_A	173_A	0.778	1.00
182_V	186_A	0.777	1.00
177_M	217_T	0.776	1.00
220_L	377_I	0.775	1.00
147_A	204_A	0.774	1.00
308_S	347_L	0.773	1.00
337_L	342_I	0.773	1.00
338_H	389_D	0.772	1.00
216_A	389_D	0.771	1.00
69_I	73_I	0.770	1.00
117_S	120_V	0.768	1.00
121_F	125_T	0.768	1.00
54_C	58_L	0.767	1.00
288_R	338_H	0.765	1.00
142_L	175_S	0.764	1.00
376_L	380_L	0.762	1.00
298_I	312_R	0.761	1.00
41_T	44_I	0.760	1.00
391_I	397_I	0.760	1.00
299_F	352_G	0.758	1.00
226_V	230_I	0.754	1.00
394_A	397_I	0.753	1.00
307_R	347_L	0.749	1.00
341_I	357_L	0.748	1.00
162_I	211_L	0.747	1.00
342_I	346_S	0.746	1.00
109_T	120_V	0.745	1.00
89_Y	92_F	0.743	1.00
130_S	133_E	0.743	1.00
90_S	93_K	0.741	1.00
112_I	115_F	0.738	1.00
94_V	97_S	0.736	1.00
216_A	385_I	0.734	1.00
197_L	201_N	0.731	1.00
385_I	391_I	0.730	1.00
312_R	346_S	0.730	1.00
283_T	286_G	0.729	1.00
47_Y	50_T	0.728	1.00
350_L	354_F	0.725	1.00
72_L	76_L	0.725	1.00
27_I	31_F	0.725	1.00
88_W	309_A	0.725	1.00
144_F	148_G	0.724	1.00
88_W	348_K	0.722	1.00
92_F	95_D	0.720	1.00
136_L	182_V	0.719	1.00
170_T	216_A	0.717	1.00
246_L	253_S	0.717	1.00
266_Y	269_A	0.716	1.00
181_I	185_V	0.713	1.00
33_M	36_A	0.710	1.00
152_Y	158_E	0.709	1.00
386_G	391_I	0.708	1.00
302_S	346_S	0.707	1.00
216_A	295_G	0.707	1.00
328_G	332_F	0.704	1.00
160_D	338_H	0.704	1.00
38_V	42_F	0.702	1.00
181_I	381_G	0.701	1.00
83_L	87_I	0.701	1.00
140_Y	143_S	0.699	1.00
384_G	388_S	0.698	1.00
250_I	254_I	0.698	1.00
169_A	214_T	0.696	1.00
75_P	79_F	0.694	1.00
176_T	208_V	0.693	1.00
40_N	43_S	0.692	1.00
55_L	58_L	0.691	1.00
109_T	116_G	0.691	1.00
341_I	356_T	0.691	1.00
170_T	174_Y	0.689	1.00
77_S	81_I	0.689	1.00
363_L	401_I	0.688	1.00
315_S	318_L	0.688	1.00
222_P	226_V	0.687	1.00
291_M	295_G	0.684	1.00
303_P	345_G	0.682	1.00
337_L	340_E	0.679	1.00
240_F	243_S	0.678	1.00
336_H	347_L	0.677	1.00
177_M	221_F	0.676	1.00
254_I	258_F	0.675	1.00
168_T	340_E	0.675	1.00
398_P	401_I	0.674	1.00
89_Y	95_D	0.671	1.00
229_L	233_Y	0.665	1.00
85_D	89_Y	0.665	1.00
390_V	394_A	0.665	1.00
171_G	389_D	0.661	0.99
75_P	78_I	0.661	0.99
253_S	256_I	0.660	0.99
154_N	162_I	0.659	0.99
395_R	398_P	0.659	0.99
295_G	298_I	0.654	0.99
243_S	247_L	0.654	0.99
150_A	208_V	0.654	0.99
264_N	267_N	0.647	0.99
220_L	385_I	0.647	0.99
355_S	359_L	0.643	0.99
241_T	244_I	0.640	0.99
114_I	118_F	0.640	0.99
242_S	245_V	0.639	0.99
30_F	33_M	0.638	0.99
63_R	66_N	0.637	0.99
233_Y	236_S	0.636	0.99
215_R	388_S	0.636	0.99
378_L	381_G	0.634	0.99
345_G	350_L	0.633	0.99
292_Y	336_H	0.633	0.99
329_A	332_F	0.631	0.99
368_Y	376_L	0.629	0.99
151_M	155_S	0.628	0.99
364_F	380_L	0.627	0.99
136_L	186_A	0.627	0.99
169_A	212_T	0.626	0.99
296_L	345_G	0.626	0.99
214_T	288_R	0.622	0.99
216_A	219_L	0.622	0.99
31_F	35_I	0.621	0.99
168_T	309_A	0.621	0.99
168_T	214_T	0.621	0.99
386_G	389_D	0.621	0.99
358_F	361_F	0.621	0.99
248_I	252_A	0.620	0.99
183_S	198_F	0.619	0.99
253_S	257_I	0.618	0.99
239_K	243_S	0.617	0.99
291_M	346_S	0.616	0.99
247_L	251_L	0.612	0.99
130_S	137_Y	0.612	0.99
336_H	339_N	0.611	0.99
382_I	391_I	0.610	0.99
337_L	390_V	0.608	0.99
308_S	312_R	0.606	0.99
65_E	68_N	0.605	0.99
340_E	343_E	0.604	0.99
296_L	342_I	0.601	0.99
136_L	140_Y	0.601	0.99
340_E	391_I	0.601	0.99
291_M	342_I	0.600	0.99
340_E	356_T	0.600	0.99
85_D	91_A	0.599	0.99
180_G	183_S	0.598	0.99
125_T	131_K	0.594	0.99
161_R	213_Q	0.594	0.99
267_N	270_L	0.592	0.99
73_I	77_S	0.591	0.99
368_Y	372_A	0.591	0.99
377_I	381_G	0.591	0.99
112_I	119_I	0.591	0.99
366_I	370_K	0.590	0.99
26_Y	30_F	0.589	0.99
298_I	319_L	0.589	0.99
261_P	265_R	0.589	0.99
260_K	263_Q	0.588	0.99
163_S	169_A	0.587	0.99
77_S	359_L	0.585	0.99
340_E	393_W	0.585	0.99
240_F	244_I	0.585	0.99
248_I	251_L	0.583	0.99
162_I	169_A	0.583	0.99
355_S	358_F	0.583	0.99
113_F	116_G	0.582	0.99
73_I	76_L	0.581	0.99
389_D	395_R	0.581	0.99
77_S	362_S	0.581	0.99
262_I	266_Y	0.579	0.99
28_L	33_M	0.576	0.99
81_I	84_L	0.576	0.99
379_T	401_I	0.573	0.99
115_F	119_I	0.572	0.99
173_A	177_M	0.572	0.99
294_I	316_M	0.571	0.98
66_N	69_I	0.571	0.98
190_T	194_H	0.570	0.98
151_M	204_A	0.568	0.98
364_F	379_T	0.568	0.98
84_L	348_K	0.567	0.98
168_T	343_E	0.566	0.98
243_S	246_L	0.566	0.98
343_E	393_W	0.565	0.98
298_I	316_M	0.565	0.98
161_R	265_R	0.564	0.98
74_L	362_S	0.563	0.98
95_D	99_F	0.562	0.98
396_S	402_I	0.562	0.98
200_L	204_A	0.560	0.98
153_I	158_E	0.560	0.98
399_I	403_S	0.560	0.98
396_S	400_I	0.560	0.98
396_S	399_I	0.559	0.98
82_G	85_D	0.557	0.98
337_L	347_L	0.555	0.98
120_V	126_S	0.554	0.98
112_I	123_T	0.553	0.98
206_L	210_A	0.552	0.98
230_I	234_N	0.551	0.98
143_S	147_A	0.549	0.98
198_F	202_S	0.547	0.98
161_R	212_T	0.547	0.98
307_R	315_S	0.546	0.98
71_N	79_F	0.545	0.98
58_L	62_G	0.544	0.98
343_E	346_S	0.542	0.98
37_F	42_F	0.541	0.98
304_F	351_M	0.540	0.98
53_V	57_S	0.540	0.98
248_I	255_V	0.540	0.98
343_E	389_D	0.538	0.98
382_I	390_V	0.536	0.98
242_S	246_L	0.533	0.98
258_F	261_P	0.532	0.98
173_A	214_T	0.531	0.98
312_R	343_E	0.530	0.98
47_Y	54_C	0.530	0.98
65_E	69_I	0.528	0.97
313_A	343_E	0.525	0.97
245_V	249_A	0.525	0.97
287_A	292_Y	0.522	0.97
179_I	182_V	0.522	0.97
110_A	113_F	0.521	0.97
251_L	255_V	0.521	0.97
25_T	29_C	0.520	0.97
298_I	315_S	0.519	0.97
218_L	262_I	0.519	0.97
81_I	88_W	0.519	0.97
118_F	122_L	0.518	0.97
163_S	168_T	0.518	0.97
51_A	62_G	0.516	0.97
164_F	175_S	0.515	0.97
151_M	208_V	0.515	0.97
170_T	390_V	0.513	0.97
109_T	117_S	0.513	0.97
146_I	150_A	0.511	0.97
252_A	256_I	0.511	0.97
266_Y	270_L	0.511	0.97
28_L	32_S	0.510	0.97
129_K	132_K	0.509	0.97
140_Y	186_A	0.508	0.97
383_V	386_G	0.508	0.97
382_I	389_D	0.508	0.97
121_F	124_L	0.507	0.97
169_A	172_A	0.506	0.97
177_M	385_I	0.505	0.97
382_I	392_I	0.505	0.97
185_V	188_L	0.505	0.97
262_I	269_A	0.505	0.97
81_I	348_K	0.505	0.97
282_V	285_L	0.505	0.97
63_R	68_N	0.504	0.97
183_S	186_A	0.504	0.97
305_S	309_A	0.503	0.97
176_T	209_L	0.502	0.97
313_A	317_N	0.501	0.97
389_D	392_I	0.500	0.97

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
3tx3A	2	0.1551	4.6	0.96	Contact Map
4ev6A	3	0.1575	4.6	0.96	Contact Map
3wxwA	1	0.2936	4.3	0.961	Contact Map
4i0uA	4	0.1527	3.9	0.962	Contact Map
3fymA	1	0	3.5	0.963	Contact Map
2rmfA	1	0.0573	2.9	0.964	Contact Map
2l27B	1	0.0573	2.7	0.964	Contact Map
1go9A	1	0.0573	2.5	0.965	Contact Map
4qncA	2	0.1862	2.3	0.966	Contact Map
2rm9A	1	0.0549	2.3	0.966	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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