INTZ - ECOLI - GREMLIN Contacts

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INTZ - Putative prophage CPZ-55 integrase

UniProt:	P76542	Sequences: MSKTPLTAKAIDAAQPQDKPYKLTDSLTPGLFLLVHPNGSKYWRFRYWLNKREFLQAIGVYPLITLKEARRRATESRSLIANGINPVEQARKEKAIDALNMAAGFKKVAEDWFATRVGGWSESYAKQVRSALEKDVYPVLGKRSIVDITARDVLALLQKKERTAPEQARKLRRRIGEIFKFAVITELVTRNPVADLDTALKARRPGHNAWIPISEIPAFYKALERAGSVQIQTAIRLLILTALRTAELRLCRWEWINLEDATITLPAEVMKARRPHVVPLSRQAVELLQDQFTRSGYSAFVFPGRFMDKPLSASAILKALERIGYKSIATGHGWRTTFSTALNESGRYSPDWIEIQLAHVPKGIRGVYNQAAYLKQRRAMMQDYADAIDSILAGNGNPLEPE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14172
Length:	402 (331)
Sequences:	18511 (15568)
Seq/√Len:	855.7

ECOLI - INTZ INTA INTS INTF INTB INTR INTD INTE INTQ XERC XERD
BACSU - INT XERC YOPP XERD YOMM
HALSA - Q9HR66 Q9HQV5 Q9HSI7 O54590 O52010
SULSO - Q980D9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
339_S	357_L	4.825	1.00
143_R	152_D	3.440	1.00
253_W	292_F	3.248	1.00
330_T	333_G	2.967	1.00
149_T	152_D	2.902	1.00
276_H	358_A	2.827	1.00
238_L	331_G	2.767	1.00
245_T	332_H	2.673	1.00
261_A	285_V	2.626	1.00
338_F	356_Q	2.615	1.00
257_N	260_D	2.547	1.00
242_A	338_F	2.494	1.00
233_T	291_Q	2.448	1.00
336_T	370_Q	2.425	1.00
252_R	299_A	2.413	1.00
72_R	75_E	2.351	1.00
46_R	53_E	2.236	1.00
264_T	277_V	2.198	1.00
238_L	248_L	2.153	1.00
106_K	137_Y	2.118	1.00
109_A	178_I	2.114	1.00
338_F	342_L	2.101	1.00
66_L	70_R	2.073	1.00
129_R	133_E	2.067	1.00
157_L	172_R	2.007	1.00
139_V	159_K	2.007	1.00
109_A	132_L	1.991	1.00
110_E	137_Y	1.964	1.00
350_P	365_R	1.950	1.00
106_K	110_E	1.940	1.00
262_T	277_V	1.935	1.00
253_W	301_V	1.931	1.00
108_V	182_A	1.910	1.00
343_N	353_I	1.878	1.00
166_E	170_K	1.877	1.00
279_P	356_Q	1.841	1.00
144_S	147_D	1.838	1.00
180_K	194_A	1.832	1.00
181_F	185_T	1.813	1.00
108_V	145_I	1.798	1.00
233_T	290_D	1.798	1.00
76_S	79_L	1.793	1.00
285_V	289_Q	1.788	1.00
153_V	193_V	1.775	1.00
274_R	360_V	1.764	1.00
75_E	79_L	1.764	1.00
316_I	320_L	1.734	1.00
243_L	248_L	1.732	1.00
186_E	190_R	1.719	1.00
113_F	129_R	1.715	1.00
349_S	352_W	1.698	1.00
212_P	215_E	1.692	1.00
106_K	142_K	1.686	1.00
48_W	53_E	1.676	1.00
261_A	282_R	1.665	1.00
65_T	68_E	1.657	1.00
148_I	179_F	1.628	1.00
131_A	174_R	1.621	1.00
108_V	181_F	1.603	1.00
343_N	369_N	1.592	1.00
240_L	281_S	1.591	1.00
78_S	82_N	1.558	1.00
124_Y	128_V	1.553	1.00
282_R	286_E	1.546	1.00
247_E	276_H	1.525	1.00
46_R	55_L	1.519	1.00
184_I	197_D	1.515	1.00
245_T	249_R	1.499	1.00
255_W	266_P	1.481	1.00
72_R	76_S	1.480	1.00
251_C	256_I	1.454	1.00
232_Q	236_R	1.451	1.00
172_R	176_G	1.430	1.00
215_E	218_A	1.423	1.00
111_D	115_T	1.417	1.00
361_P	366_G	1.411	1.00
216_I	239_I	1.401	1.00
252_R	300_F	1.401	1.00
254_E	299_A	1.384	1.00
239_I	334_W	1.375	1.00
160_K	171_L	1.374	1.00
113_F	125_A	1.367	1.00
233_T	287_L	1.364	1.00
154_L	185_T	1.364	1.00
117_V	125_A	1.356	1.00
348_Y	383_D	1.336	1.00
234_A	248_L	1.332	1.00
282_R	382_Q	1.332	1.00
339_S	353_I	1.331	1.00
363_G	366_G	1.329	1.00
130_S	134_K	1.318	1.00
104_G	107_K	1.312	1.00
211_I	329_A	1.312	1.00
342_L	353_I	1.309	1.00
342_L	348_Y	1.304	1.00
280_L	284_A	1.296	1.00
352_W	380_M	1.294	1.00
258_L	289_Q	1.290	1.00
251_C	263_I	1.283	1.00
154_L	158_Q	1.282	1.00
125_A	129_R	1.281	1.00
237_L	284_A	1.280	1.00
257_N	262_T	1.277	1.00
183_V	188_V	1.272	1.00
178_I	182_A	1.269	1.00
143_R	147_D	1.269	1.00
216_I	341_A	1.256	1.00
211_I	219_F	1.255	1.00
150_A	184_I	1.244	1.00
176_G	180_K	1.242	1.00
351_D	354_E	1.236	1.00
218_A	222_A	1.234	1.00
73_A	77_R	1.233	1.00
224_E	232_Q	1.231	1.00
243_L	265_L	1.228	1.00
180_K	191_N	1.227	1.00
110_E	114_A	1.222	1.00
75_E	78_S	1.219	1.00
184_I	195_D	1.218	1.00
156_L	171_L	1.209	1.00
348_Y	380_M	1.202	1.00
74_T	81_A	1.195	1.00
132_L	137_Y	1.190	1.00
364_I	367_V	1.181	1.00
354_E	362_K	1.174	1.00
280_L	285_V	1.162	1.00
217_P	221_K	1.155	1.00
122_E	126_K	1.145	1.00
133_E	137_Y	1.143	1.00
128_V	174_R	1.141	1.00
337_T	341_A	1.136	1.00
304_G	307_M	1.127	1.00
150_A	186_E	1.125	1.00
117_V	129_R	1.125	1.00
211_I	337_T	1.125	1.00
67_K	71_R	1.123	1.00
127_Q	130_S	1.115	1.00
140_L	156_L	1.114	1.00
317_L	320_L	1.112	1.00
281_S	284_A	1.108	1.00
252_R	255_W	1.103	1.00
283_Q	385_A	1.097	1.00
121_S	269_V	1.096	1.00
105_F	178_I	1.095	1.00
263_I	267_A	1.094	1.00
379_A	383_D	1.094	1.00
317_L	321_E	1.093	1.00
42_Y	57_A	1.090	1.00
354_E	365_R	1.090	1.00
121_S	124_Y	1.087	1.00
71_R	75_E	1.085	1.00
220_Y	236_R	1.081	1.00
116_R	120_W	1.079	1.00
359_H	364_I	1.076	1.00
120_W	128_V	1.074	1.00
108_V	185_T	1.073	1.00
340_T	369_N	1.066	1.00
361_P	364_I	1.063	1.00
234_A	302_F	1.059	1.00
245_T	331_G	1.059	1.00
44_R	57_A	1.053	1.00
164_A	167_Q	1.046	1.00
283_Q	286_E	1.038	1.00
79_L	84_I	1.038	1.00
102_A	146_V	1.037	1.00
106_K	141_G	1.034	1.00
151_R	185_T	1.028	1.00
70_R	74_T	1.022	1.00
179_F	192_P	1.015	1.00
255_W	269_V	1.009	1.00
236_R	287_L	1.005	1.00
172_R	193_V	1.001	1.00
74_T	77_R	0.997	1.00
213_I	341_A	0.997	1.00
315_A	318_K	0.997	1.00
351_D	355_I	0.996	1.00
237_L	248_L	0.995	1.00
210_W	337_T	0.994	1.00
291_Q	295_S	0.993	1.00
102_A	144_S	0.992	1.00
344_E	376_Q	0.980	1.00
110_E	129_R	0.979	1.00
237_L	263_I	0.977	1.00
78_S	81_A	0.976	1.00
66_L	69_A	0.975	1.00
213_I	217_P	0.975	1.00
151_R	155_A	0.974	1.00
179_F	193_V	0.972	1.00
281_S	385_A	0.970	1.00
126_K	130_S	0.968	1.00
254_E	298_S	0.967	1.00
341_A	344_E	0.966	1.00
376_Q	379_A	0.966	1.00
179_F	188_V	0.965	1.00
169_R	199_A	0.956	1.00
153_V	175_I	0.953	1.00
236_R	283_Q	0.950	1.00
68_E	71_R	0.942	1.00
45_F	72_R	0.942	1.00
120_W	125_A	0.941	1.00
222_A	322_R	0.941	1.00
145_I	179_F	0.937	1.00
240_L	284_A	0.933	1.00
160_K	168_A	0.932	1.00
108_V	178_I	0.929	1.00
77_R	81_A	0.921	1.00
378_R	382_Q	0.919	1.00
176_G	194_A	0.919	1.00
58_I	61_Y	0.918	1.00
170_K	173_R	0.916	1.00
105_F	109_A	0.915	1.00
237_L	302_F	0.914	1.00
270_M	275_P	0.912	1.00
223_L	235_I	0.908	1.00
355_I	377_R	0.906	1.00
183_V	190_R	0.905	1.00
354_E	366_G	0.905	1.00
253_W	295_S	0.901	1.00
122_E	125_A	0.900	1.00
340_T	370_Q	0.898	1.00
354_E	364_I	0.897	1.00
289_Q	292_F	0.896	1.00
356_Q	377_R	0.895	1.00
183_V	195_D	0.892	1.00
113_F	117_V	0.887	1.00
103_A	107_K	0.886	1.00
255_W	267_A	0.885	1.00
166_E	169_R	0.880	1.00
105_F	148_I	0.880	1.00
71_R	74_T	0.876	1.00
109_A	113_F	0.874	1.00
258_L	285_V	0.874	1.00
127_Q	131_A	0.874	1.00
152_D	155_A	0.869	1.00
365_R	369_N	0.868	1.00
224_E	236_R	0.863	1.00
149_T	189_T	0.860	1.00
105_F	175_I	0.859	1.00
248_L	331_G	0.858	1.00
251_C	301_V	0.857	1.00
123_S	126_K	0.855	1.00
68_E	72_R	0.850	1.00
333_G	336_T	0.850	1.00
167_Q	171_L	0.847	1.00
344_E	372_A	0.844	1.00
240_L	283_Q	0.843	1.00
231_I	315_A	0.841	1.00
116_R	177_E	0.838	1.00
116_R	119_G	0.836	1.00
67_K	70_R	0.835	1.00
284_A	287_L	0.832	1.00
149_T	186_E	0.832	1.00
148_I	153_V	0.831	1.00
345_S	383_D	0.831	1.00
58_I	72_R	0.829	1.00
179_F	183_V	0.826	1.00
123_S	127_Q	0.824	1.00
253_W	288_L	0.822	1.00
339_S	343_N	0.822	1.00
43_W	66_L	0.822	1.00
279_P	377_R	0.820	1.00
292_F	296_G	0.819	1.00
339_S	365_R	0.818	1.00
183_V	191_N	0.818	1.00
79_L	82_N	0.816	1.00
130_S	133_E	0.815	1.00
75_E	82_N	0.814	1.00
246_A	250_L	0.811	1.00
151_R	186_E	0.810	1.00
71_R	81_A	0.807	1.00
348_Y	352_W	0.805	1.00
209_A	215_E	0.801	1.00
235_I	334_W	0.799	1.00
362_K	366_G	0.798	1.00
176_G	193_V	0.798	1.00
103_A	111_D	0.796	1.00
103_A	187_L	0.796	1.00
352_W	376_Q	0.794	1.00
339_S	369_N	0.794	1.00
338_F	357_L	0.793	1.00
136_V	175_I	0.792	1.00
74_T	78_S	0.791	1.00
191_N	194_A	0.791	1.00
359_H	365_R	0.786	1.00
154_L	157_L	0.783	1.00
71_R	78_S	0.777	1.00
318_K	322_R	0.776	1.00
362_K	365_R	0.775	1.00
186_E	195_D	0.768	1.00
375_K	378_R	0.767	1.00
286_E	289_Q	0.765	1.00
222_A	323_I	0.764	1.00
155_A	159_K	0.758	1.00
111_D	187_L	0.758	1.00
69_A	73_A	0.756	1.00
112_W	116_R	0.753	1.00
112_W	177_E	0.752	1.00
139_V	155_A	0.750	1.00
357_L	365_R	0.748	1.00
104_G	144_S	0.747	1.00
38_N	41_K	0.742	1.00
42_Y	60_V	0.739	1.00
279_P	378_R	0.739	1.00
282_R	385_A	0.734	1.00
339_S	364_I	0.733	1.00
145_I	182_A	0.732	1.00
356_Q	381_M	0.731	1.00
382_Q	385_A	0.730	1.00
336_T	367_V	0.730	1.00
47_Y	54_F	0.727	1.00
304_G	309_K	0.727	1.00
329_A	333_G	0.726	1.00
208_N	330_T	0.726	1.00
182_A	188_V	0.723	1.00
223_L	232_Q	0.722	1.00
219_F	235_I	0.721	1.00
243_L	247_E	0.720	1.00
314_S	318_K	0.719	1.00
109_A	137_Y	0.716	1.00
120_W	124_Y	0.714	1.00
157_L	168_A	0.712	1.00
344_E	375_K	0.712	1.00
375_K	379_A	0.711	1.00
108_V	187_L	0.710	1.00
211_I	215_E	0.707	1.00
339_S	354_E	0.707	1.00
107_K	110_E	0.707	1.00
343_N	350_P	0.705	1.00
258_L	280_L	0.705	1.00
292_F	295_S	0.703	1.00
111_D	185_T	0.695	1.00
258_L	261_A	0.694	1.00
161_E	165_P	0.686	1.00
343_N	351_D	0.684	1.00
319_A	323_I	0.684	1.00
110_E	133_E	0.683	1.00
380_M	383_D	0.683	1.00
112_W	181_F	0.680	1.00
237_L	288_L	0.680	1.00
379_A	382_Q	0.680	1.00
70_R	73_A	0.675	1.00
134_K	138_P	0.675	1.00
64_I	68_E	0.674	1.00
361_P	365_R	0.671	1.00
317_L	328_I	0.671	1.00
245_T	313_A	0.670	1.00
136_V	141_G	0.668	1.00
137_Y	141_G	0.667	1.00
256_I	288_L	0.667	1.00
158_Q	185_T	0.664	1.00
115_T	158_Q	0.663	1.00
343_N	372_A	0.663	1.00
243_L	251_C	0.662	1.00
36_H	44_R	0.661	1.00
188_V	192_P	0.660	1.00
215_E	326_K	0.658	1.00
85_N	88_E	0.658	1.00
252_R	267_A	0.657	1.00
244_R	332_H	0.655	1.00
218_A	221_K	0.654	1.00
172_R	196_L	0.653	1.00
103_A	146_V	0.652	1.00
210_W	340_T	0.652	1.00
156_L	160_K	0.651	1.00
45_F	73_A	0.651	1.00
127_Q	170_K	0.649	1.00
139_V	156_L	0.648	1.00
114_A	117_V	0.646	1.00
237_L	241_T	0.646	1.00
134_K	171_L	0.644	1.00
183_V	194_A	0.643	1.00
45_F	76_S	0.643	1.00
349_S	376_Q	0.641	1.00
150_A	154_L	0.641	1.00
216_I	337_T	0.641	1.00
140_L	152_D	0.640	1.00
263_I	280_L	0.640	1.00
354_E	357_L	0.638	1.00
150_A	195_D	0.638	1.00
351_D	366_G	0.637	1.00
266_P	275_P	0.633	1.00
178_I	181_F	0.632	1.00
107_K	111_D	0.631	1.00
154_L	184_I	0.631	1.00
229_V	232_Q	0.630	1.00
340_T	371_A	0.629	1.00
345_S	348_Y	0.629	1.00
350_P	354_E	0.626	1.00
116_R	128_V	0.624	1.00
140_L	148_I	0.624	1.00
158_Q	161_E	0.623	1.00
111_D	155_A	0.623	1.00
80_I	85_N	0.619	1.00
239_I	337_T	0.618	1.00
132_L	136_V	0.617	1.00
169_R	173_R	0.616	1.00
256_I	263_I	0.614	1.00
143_R	148_I	0.612	1.00
179_F	191_N	0.612	1.00
44_R	55_L	0.607	1.00
111_D	181_F	0.606	1.00
354_E	361_P	0.606	1.00
351_D	365_R	0.606	1.00
344_E	371_A	0.605	1.00
184_I	194_A	0.603	1.00
243_L	263_I	0.600	1.00
131_A	171_L	0.599	1.00
83_G	86_P	0.596	1.00
264_T	275_P	0.595	1.00
214_S	218_A	0.595	1.00
242_A	357_L	0.595	1.00
213_I	345_S	0.593	1.00
332_H	357_L	0.593	1.00
36_H	40_S	0.592	1.00
241_T	278_V	0.590	1.00
57_A	60_V	0.589	1.00
343_N	365_R	0.588	1.00
180_K	183_V	0.584	1.00
177_E	181_F	0.583	1.00
349_S	380_M	0.583	1.00
287_L	290_D	0.579	1.00
342_L	356_Q	0.579	1.00
56_Q	76_S	0.577	1.00
220_Y	240_L	0.574	1.00
290_D	293_T	0.573	1.00
343_N	371_A	0.572	1.00
175_I	193_V	0.571	1.00
128_V	131_A	0.570	1.00
111_D	114_A	0.568	1.00
315_A	319_A	0.567	1.00
156_L	159_K	0.566	1.00
243_L	278_V	0.566	1.00
180_K	184_I	0.565	1.00
247_E	270_M	0.565	1.00
106_K	132_L	0.564	1.00
132_L	178_I	0.563	1.00
250_L	270_M	0.563	1.00
213_I	344_E	0.560	1.00
262_T	378_R	0.557	1.00
241_T	281_S	0.556	1.00
61_Y	72_R	0.554	1.00
300_F	303_P	0.554	1.00
257_N	264_T	0.554	1.00
45_F	77_R	0.553	1.00
279_P	381_M	0.553	1.00
350_P	366_G	0.550	1.00
159_K	162_R	0.549	1.00
239_I	341_A	0.547	1.00
321_E	328_I	0.546	1.00
359_H	363_G	0.546	1.00
204_R	273_R	0.545	1.00
249_R	313_A	0.544	1.00
132_L	174_R	0.543	1.00
229_V	233_T	0.542	1.00
79_L	83_G	0.540	1.00
339_S	359_H	0.540	1.00
45_F	58_I	0.540	1.00
316_I	331_G	0.538	1.00
230_Q	291_Q	0.534	1.00
272_A	358_A	0.534	1.00
300_F	310_P	0.533	1.00
157_L	199_A	0.531	1.00
286_E	290_D	0.531	1.00
270_M	358_A	0.530	1.00
373_Y	377_R	0.529	1.00
257_N	261_A	0.528	1.00
214_S	217_P	0.525	1.00
241_T	284_A	0.525	1.00
250_L	269_V	0.524	1.00
220_Y	224_E	0.524	1.00
348_Y	353_I	0.524	1.00
350_P	362_K	0.522	1.00
124_Y	127_Q	0.515	1.00
36_H	42_Y	0.514	1.00
232_Q	287_L	0.514	1.00
49_L	54_F	0.514	1.00
209_A	326_K	0.513	1.00
220_Y	232_Q	0.512	1.00
230_Q	233_T	0.511	1.00
45_F	80_I	0.511	1.00
180_K	195_D	0.511	1.00
103_A	144_S	0.510	1.00
209_A	333_G	0.508	1.00
161_E	168_A	0.507	1.00
173_R	177_E	0.507	1.00
381_M	384_Y	0.506	1.00
265_L	270_M	0.506	1.00
258_L	263_I	0.505	1.00
60_V	65_T	0.505	1.00
229_V	290_D	0.504	1.00
64_I	72_R	0.504	1.00
222_A	225_R	0.503	1.00
316_I	319_A	0.502	1.00
58_I	64_I	0.501	1.00
176_G	191_N	0.500	1.00
105_F	140_L	0.500	1.00

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
1z1bA	3	0.8308	100	0.346	Contact Map
2a3vA	3	0.6741	100	0.395	Contact Map
1a0pA	1	0.6294	100	0.398	Contact Map
1z19A	3	0.6667	100	0.403	Contact Map
1xo0A	3	0.6866	100	0.446	Contact Map
4a8eA	2	0.6368	100	0.447	Contact Map
3nkhA	2	0.4552	100	0.543	Contact Map
1aihA	2	0.4179	100	0.607	Contact Map
1ae9A	4	0.393	100	0.608	Contact Map
4e0gA	2	0.6493	99.9	0.635	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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