INTA - ECOLI - GREMLIN Contacts

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INTA - Prophage CP4-57 integrase

UniProt:	P32053	Sequences: MARKTKPLTDTEIKAAKPKDADYQLYDGDGLTLLIKSSGSKLWQFRYYRPLTKQRTKQSFGAYPAVSLSDARKLRAESKVLLAKDIDPQEHQKEQVRNSQEAKTNTFLLVAERWWNVKKTSVTEDYADDIWRSLERDIFPAIGDISITEIKAHTLVKAVQPVQARGALETVRRLCQRINEVMIYAQNTGLIDAVPSVNIGKAFEKPQKKNMPSIRPDQLPQLMHTMRTASISMSTRCLFMWQLLTITRPAEAAEARWDEIDFNASEWKIPAARMKMNRDHTVPLSDGALAILEMMKPLSGGREFIFPSRIKPNQPMNSQTVNAALKRAGLGGVLVSHGLRSIASTALNEEGFPPDVIEAALAHVDKNEVRRAYNRSDYLEQRRPMMQWWADLVKAADSGSIVLTHLSKIRLVG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11783
Length:	413 (334)
Sequences:	17781 (14989)
Seq/√Len:	820.2

ECOLI - INTA INTZ INTS INTF INTB INTR INTD INTE INTQ XERC XERD
BACSU - INT XERC YOPP XERD YOMM
HALSA - Q9HR66 Q9HQV5 Q9HSI7 O52010 O54590
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
344_S	361_L	4.641	1.00
145_I	154_T	3.344	1.00
257_W	296_K	3.148	1.00
151_K	154_T	2.950	1.00
335_V	338_G	2.841	1.00
280_H	362_A	2.756	1.00
242_Q	336_S	2.664	1.00
265_S	289_L	2.657	1.00
343_A	360_A	2.618	1.00
249_P	337_H	2.578	1.00
246_I	343_A	2.485	1.00
237_C	295_M	2.401	1.00
341_S	375_R	2.301	1.00
256_R	303_E	2.300	1.00
268_K	281_T	2.272	1.00
162_V	174_L	2.264	1.00
108_L	139_F	2.224	1.00
74_L	77_E	2.195	1.00
242_Q	252_A	2.133	1.00
141_A	161_P	2.119	1.00
111_A	181_V	2.099	1.00
261_D	264_A	2.078	1.00
46_R	55_R	2.078	1.00
159_V	175_C	2.064	1.00
68_L	72_R	2.013	1.00
111_A	134_L	2.009	1.00
354_P	370_R	1.993	1.00
131_W	135_E	1.986	1.00
169_E	173_R	1.971	1.00
343_A	347_L	1.949	1.00
184_Y	188_T	1.934	1.00
112_E	139_F	1.928	1.00
108_L	112_E	1.915	1.00
266_E	281_T	1.908	1.00
78_S	81_L	1.902	1.00
348_N	357_I	1.852	1.00
321_V	325_L	1.850	1.00
289_L	293_E	1.850	1.00
110_V	185_A	1.833	1.00
146_S	149_E	1.825	1.00
247_T	252_A	1.824	1.00
257_W	305_I	1.811	1.00
115_W	131_W	1.804	1.00
110_V	147_I	1.783	1.00
155_L	196_S	1.751	1.00
237_C	294_M	1.744	1.00
189_G	193_A	1.731	1.00
183_I	197_V	1.726	1.00
283_P	360_A	1.705	1.00
48_Y	55_R	1.691	1.00
278_R	364_V	1.690	1.00
244_L	285_S	1.680	1.00
108_L	144_D	1.670	1.00
133_S	177_R	1.659	1.00
348_N	374_N	1.650	1.00
353_P	356_V	1.646	1.00
46_R	57_K	1.603	1.00
110_V	184_Y	1.598	1.00
265_S	286_D	1.594	1.00
215_R	218_Q	1.575	1.00
150_I	182_M	1.567	1.00
77_E	81_L	1.549	1.00
67_S	70_D	1.524	1.00
249_P	253_A	1.511	1.00
219_L	243_L	1.487	1.00
251_E	280_H	1.473	1.00
259_E	270_P	1.466	1.00
74_L	78_S	1.465	1.00
236_R	240_M	1.453	1.00
243_L	339_L	1.453	1.00
255_A	260_I	1.451	1.00
368_E	372_A	1.451	1.00
80_V	84_K	1.450	1.00
113_R	117_V	1.444	1.00
218_Q	221_Q	1.420	1.00
175_C	179_N	1.408	1.00
156_V	188_T	1.401	1.00
106_T	109_L	1.399	1.00
256_R	304_F	1.398	1.00
237_C	291_I	1.393	1.00
365_D	371_R	1.393	1.00
119_K	127_A	1.391	1.00
286_D	290_A	1.391	1.00
262_F	293_E	1.375	1.00
347_L	352_F	1.366	1.00
365_D	368_E	1.363	1.00
187_N	200_G	1.361	1.00
126_Y	130_I	1.359	1.00
352_F	388_W	1.341	1.00
214_I	222_L	1.332	1.00
258_D	303_E	1.325	1.00
221_Q	225_T	1.323	1.00
344_S	357_I	1.317	1.00
347_L	357_I	1.311	1.00
115_W	127_A	1.306	1.00
127_A	131_W	1.303	1.00
132_R	136_R	1.299	1.00
77_E	80_V	1.291	1.00
284_L	288_A	1.289	1.00
187_N	198_N	1.288	1.00
152_A	187_N	1.288	1.00
355_D	358_E	1.286	1.00
238_L	252_A	1.285	1.00
259_E	273_R	1.284	1.00
219_L	346_A	1.279	1.00
76_A	83_A	1.278	1.00
214_I	334_L	1.278	1.00
75_R	79_K	1.268	1.00
286_D	387_Q	1.266	1.00
156_V	160_Q	1.264	1.00
227_R	236_R	1.255	1.00
255_A	267_W	1.251	1.00
179_N	183_I	1.249	1.00
322_N	326_K	1.244	1.00
241_W	288_A	1.241	1.00
145_I	149_E	1.235	1.00
181_V	185_A	1.226	1.00
356_V	385_M	1.210	1.00
284_L	289_L	1.198	1.00
247_T	269_I	1.196	1.00
134_L	139_F	1.193	1.00
119_K	131_W	1.183	1.00
135_E	139_F	1.169	1.00
142_I	158_A	1.168	1.00
368_E	371_R	1.164	1.00
130_I	177_R	1.160	1.00
295_M	299_S	1.159	1.00
352_F	385_M	1.158	1.00
186_Q	191_I	1.151	1.00
223_M	240_M	1.145	1.00
72_R	76_A	1.141	1.00
322_N	325_L	1.131	1.00
118_K	122_V	1.131	1.00
285_S	288_A	1.126	1.00
152_A	189_G	1.126	1.00
104_T	148_T	1.126	1.00
183_I	194_V	1.125	1.00
128_D	132_R	1.125	1.00
238_L	306_F	1.120	1.00
287_G	390_A	1.120	1.00
369_V	372_A	1.113	1.00
79_K	83_A	1.108	1.00
104_T	146_S	1.107	1.00
256_R	259_E	1.107	1.00
249_P	336_S	1.107	1.00
129_D	132_R	1.105	1.00
42_L	59_S	1.098	1.00
358_E	366_K	1.096	1.00
220_P	224_H	1.095	1.00
355_D	359_A	1.090	1.00
44_Q	59_S	1.090	1.00
365_D	369_V	1.088	1.00
73_K	77_E	1.085	1.00
308_S	312_P	1.083	1.00
76_A	79_K	1.083	1.00
182_M	195_P	1.083	1.00
261_D	266_E	1.082	1.00
384_P	388_W	1.079	1.00
267_W	271_A	1.078	1.00
240_M	291_I	1.077	1.00
81_L	86_I	1.076	1.00
214_I	342_I	1.074	1.00
158_A	174_L	1.074	1.00
60_F	63_Y	1.070	1.00
320_T	323_A	1.060	1.00
363_H	369_V	1.060	1.00
349_E	380_E	1.060	1.00
342_I	346_A	1.053	1.00
69_S	73_K	1.047	1.00
124_E	128_D	1.047	1.00
122_V	130_I	1.045	1.00
358_E	370_R	1.044	1.00
216_P	346_A	1.042	1.00
158_A	162_V	1.037	1.00
155_L	178_I	1.034	1.00
110_V	188_T	1.031	1.00
123_T	126_Y	1.024	1.00
216_P	220_P	1.017	1.00
153_H	157_K	1.016	1.00
287_G	290_A	1.015	1.00
244_L	288_A	1.013	1.00
45_F	74_L	1.007	1.00
345_T	374_N	1.006	1.00
213_S	342_I	1.000	1.00
151_K	189_G	0.997	1.00
112_E	116_N	0.997	1.00
346_A	349_E	0.987	1.00
108_L	143_G	0.987	1.00
36_K	44_Q	0.985	1.00
175_C	196_S	0.985	1.00
167_A	170_T	0.984	1.00
112_E	131_W	0.984	1.00
147_I	182_M	0.983	1.00
80_V	83_A	0.982	1.00
107_F	181_V	0.973	1.00
258_D	302_R	0.972	1.00
241_W	252_A	0.970	1.00
240_M	287_G	0.962	1.00
293_E	296_K	0.957	1.00
285_S	390_A	0.957	1.00
153_H	188_T	0.955	1.00
105_N	109_L	0.953	1.00
182_M	191_I	0.952	1.00
345_T	375_R	0.946	1.00
179_N	197_V	0.939	1.00
72_R	75_R	0.936	1.00
241_W	267_W	0.934	1.00
162_V	171_V	0.933	1.00
70_D	73_K	0.929	1.00
110_V	181_V	0.928	1.00
255_A	305_I	0.925	1.00
182_M	196_S	0.922	1.00
173_R	176_Q	0.919	1.00
349_E	377_D	0.912	1.00
73_K	76_A	0.910	1.00
244_L	287_G	0.909	1.00
137_D	165_R	0.904	1.00
76_A	80_V	0.903	1.00
358_E	371_R	0.900	1.00
352_F	356_V	0.900	1.00
320_T	324_A	0.897	1.00
321_V	324_A	0.895	1.00
169_E	172_R	0.892	1.00
154_T	157_K	0.892	1.00
111_A	115_W	0.890	1.00
77_E	84_K	0.890	1.00
107_F	111_A	0.887	1.00
69_S	72_R	0.884	1.00
319_Q	323_A	0.883	1.00
186_Q	198_N	0.883	1.00
227_R	240_M	0.879	1.00
107_F	178_I	0.879	1.00
383_R	387_Q	0.876	1.00
68_L	71_A	0.874	1.00
73_K	83_A	0.873	1.00
296_K	299_S	0.871	1.00
170_T	174_L	0.868	1.00
186_Q	197_V	0.864	1.00
344_S	348_N	0.862	1.00
370_R	374_N	0.862	1.00
157_K	161_P	0.859	1.00
343_A	361_L	0.858	1.00
70_D	74_L	0.857	1.00
105_N	113_R	0.856	1.00
118_K	121_S	0.856	1.00
129_D	133_S	0.854	1.00
107_F	150_I	0.850	1.00
241_W	306_F	0.850	1.00
124_E	127_A	0.843	1.00
350_E	388_W	0.843	1.00
71_A	75_R	0.842	1.00
250_A	254_E	0.840	1.00
179_N	196_S	0.839	1.00
122_V	127_A	0.837	1.00
151_K	192_D	0.836	1.00
259_E	271_A	0.835	1.00
118_K	180_E	0.833	1.00
105_N	190_L	0.831	1.00
163_Q	166_G	0.829	1.00
344_S	370_R	0.828	1.00
194_V	197_V	0.828	1.00
42_L	62_A	0.826	1.00
226_M	239_F	0.822	1.00
186_Q	194_V	0.821	1.00
125_D	128_D	0.821	1.00
366_K	371_R	0.820	1.00
239_F	339_L	0.820	1.00
156_V	159_V	0.812	1.00
296_K	300_G	0.812	1.00
141_A	158_A	0.810	1.00
38_S	41_K	0.806	1.00
150_I	155_L	0.805	1.00
115_W	119_K	0.805	1.00
254_E	273_R	0.802	1.00
73_K	80_V	0.799	1.00
334_L	338_G	0.799	1.00
81_L	84_K	0.798	1.00
132_R	135_E	0.796	1.00
153_H	189_G	0.795	1.00
387_Q	390_A	0.794	1.00
147_I	185_A	0.792	1.00
249_P	318_S	0.792	1.00
262_F	289_L	0.788	1.00
358_E	369_V	0.786	1.00
137_D	174_L	0.786	1.00
35_I	38_S	0.784	1.00
222_L	239_F	0.782	1.00
320_T	325_L	0.778	1.00
257_W	299_S	0.777	1.00
257_W	292_L	0.776	1.00
288_A	291_I	0.774	1.00
268_K	279_D	0.770	1.00
111_A	139_F	0.770	1.00
252_A	336_S	0.768	1.00
360_A	386_M	0.766	1.00
114_W	184_Y	0.764	1.00
106_T	146_S	0.761	1.00
344_S	374_N	0.760	1.00
338_G	341_S	0.760	1.00
43_W	68_L	0.760	1.00
138_I	178_I	0.759	1.00
225_T	328_A	0.756	1.00
241_W	292_L	0.755	1.00
109_L	113_R	0.753	1.00
125_D	129_D	0.752	1.00
189_G	198_N	0.751	1.00
60_F	74_L	0.751	1.00
186_Q	193_A	0.750	1.00
87_D	90_E	0.750	1.00
211_M	335_V	0.746	1.00
290_A	293_E	0.746	1.00
385_M	388_W	0.743	1.00
225_T	327_R	0.740	1.00
348_N	354_P	0.740	1.00
323_A	327_R	0.739	1.00
141_A	157_K	0.737	1.00
117_V	160_Q	0.736	1.00
366_K	370_R	0.736	1.00
380_E	384_P	0.734	1.00
182_M	186_Q	0.733	1.00
344_S	369_V	0.722	1.00
267_W	284_L	0.721	1.00
185_A	191_I	0.713	1.00
358_E	365_D	0.712	1.00
159_V	171_V	0.711	1.00
361_L	370_R	0.709	1.00
363_H	370_R	0.709	1.00
348_N	377_D	0.709	1.00
113_R	190_L	0.706	1.00
110_V	190_L	0.706	1.00
341_S	372_A	0.704	1.00
175_C	199_I	0.702	1.00
137_D	140_P	0.700	1.00
152_A	156_V	0.700	1.00
138_I	143_G	0.698	1.00
283_P	383_R	0.698	1.00
308_S	314_Q	0.698	1.00
114_W	180_E	0.697	1.00
172_R	176_Q	0.697	1.00
260_I	292_L	0.697	1.00
116_N	119_K	0.695	1.00
348_N	355_D	0.695	1.00
233_M	236_R	0.694	1.00
226_M	236_R	0.694	1.00
355_D	370_R	0.692	1.00
221_Q	224_H	0.692	1.00
59_S	62_A	0.690	1.00
241_W	245_T	0.689	1.00
214_I	218_Q	0.687	1.00
344_S	358_E	0.684	1.00
247_T	251_E	0.677	1.00
359_A	381_Q	0.677	1.00
248_R	337_H	0.674	1.00
182_M	194_V	0.673	1.00
262_F	265_S	0.672	1.00
270_P	279_D	0.672	1.00
235_T	320_T	0.668	1.00
286_D	390_A	0.667	1.00
247_T	267_W	0.666	1.00
45_F	78_S	0.666	1.00
36_K	40_S	0.665	1.00
112_E	135_E	0.664	1.00
247_T	255_A	0.664	1.00
45_F	75_R	0.661	1.00
183_I	187_N	0.660	1.00
365_D	370_R	0.660	1.00
114_W	118_K	0.658	1.00
218_Q	331_G	0.658	1.00
109_L	112_E	0.657	1.00
219_L	342_I	0.656	1.00
122_V	126_Y	0.656	1.00
358_E	368_E	0.654	1.00
345_T	376_S	0.649	1.00
35_I	41_K	0.649	1.00
354_P	371_R	0.641	1.00
180_E	184_Y	0.638	1.00
158_A	178_I	0.638	1.00
118_K	130_I	0.638	1.00
256_R	271_A	0.636	1.00
191_I	195_P	0.636	1.00
113_R	116_N	0.635	1.00
246_I	361_L	0.634	1.00
58_Q	78_S	0.634	1.00
113_R	184_Y	0.634	1.00
82_L	87_D	0.633	1.00
366_K	369_V	0.629	1.00
45_F	60_F	0.629	1.00
349_E	376_S	0.628	1.00
36_K	42_L	0.628	1.00
245_T	288_A	0.627	1.00
134_L	138_I	0.625	1.00
245_T	282_V	0.625	1.00
304_F	307_P	0.624	1.00
44_Q	57_K	0.624	1.00
133_S	174_L	0.624	1.00
142_I	150_I	0.622	1.00
355_D	371_R	0.620	1.00
276_M	362_A	0.620	1.00
129_D	173_R	0.619	1.00
163_Q	171_V	0.617	1.00
113_R	188_T	0.617	1.00
137_D	162_V	0.616	1.00
47_Y	56_T	0.614	1.00
108_L	134_L	0.613	1.00
243_L	346_A	0.612	1.00
247_T	282_V	0.611	1.00
212_P	218_Q	0.607	1.00
337_H	361_L	0.605	1.00
213_S	345_T	0.601	1.00
354_P	358_E	0.599	1.00
233_M	237_C	0.599	1.00
262_F	284_L	0.598	1.00
348_N	370_R	0.598	1.00
243_L	342_I	0.597	1.00
85_D	88_P	0.597	1.00
304_F	315_P	0.595	1.00
216_P	350_E	0.593	1.00
384_P	387_Q	0.592	1.00
158_A	161_P	0.590	1.00
179_N	194_V	0.589	1.00
291_I	294_M	0.588	1.00
290_A	294_M	0.587	1.00
263_N	266_E	0.587	1.00
225_T	228_T	0.587	1.00
223_M	244_L	0.586	1.00
253_A	318_S	0.584	1.00
139_F	143_G	0.584	1.00
354_P	366_K	0.576	1.00
160_Q	188_T	0.571	1.00
256_R	273_R	0.570	1.00
183_I	186_Q	0.568	1.00
344_S	363_H	0.568	1.00
348_N	376_S	0.565	1.00
130_I	133_S	0.565	1.00
187_N	197_V	0.565	1.00
260_I	267_W	0.564	1.00
217_D	221_Q	0.564	1.00
79_K	82_L	0.564	1.00
152_A	198_N	0.564	1.00
261_D	268_K	0.564	1.00
216_P	349_E	0.563	1.00
45_F	79_K	0.562	1.00
142_I	154_T	0.562	1.00
156_V	187_N	0.562	1.00
323_A	326_K	0.558	1.00
294_M	298_L	0.557	1.00
358_E	361_L	0.556	1.00
347_L	360_A	0.554	1.00
181_V	184_Y	0.554	1.00
176_Q	180_E	0.554	1.00
159_V	163_Q	0.553	1.00
113_R	157_K	0.552	1.00
134_L	181_V	0.552	1.00
60_F	78_S	0.552	1.00
105_N	146_S	0.550	1.00
212_P	331_G	0.550	1.00
81_L	85_D	0.548	1.00
245_T	285_S	0.547	1.00
105_N	148_T	0.547	1.00
262_F	305_I	0.544	1.00
207_Q	277_N	0.544	1.00
152_A	188_T	0.544	1.00
172_R	204_E	0.541	1.00
321_V	336_S	0.540	1.00
112_E	134_L	0.539	1.00
183_I	198_N	0.537	1.00
261_D	265_S	0.536	1.00
352_F	357_I	0.534	1.00
380_E	383_R	0.532	1.00
71_A	74_L	0.531	1.00
133_S	173_R	0.530	1.00
145_I	150_I	0.530	1.00
262_F	292_L	0.529	1.00
168_L	172_R	0.528	1.00
212_P	338_G	0.526	1.00
233_M	294_M	0.525	1.00
223_M	236_R	0.524	1.00
126_Y	129_D	0.523	1.00
217_D	220_P	0.521	1.00
245_T	252_A	0.519	1.00
276_M	364_V	0.519	1.00
322_N	333_V	0.518	1.00
234_S	237_C	0.516	1.00
223_M	227_R	0.516	1.00
294_M	297_P	0.513	1.00
63_Y	74_L	0.513	1.00
156_V	199_I	0.512	1.00
178_I	196_S	0.511	1.00
134_L	177_R	0.509	1.00
248_R	271_A	0.507	1.00
137_D	167_A	0.507	1.00
62_A	67_S	0.507	1.00
263_N	293_E	0.506	1.00
291_I	295_M	0.505	1.00
324_A	327_R	0.504	1.00
377_D	380_E	0.504	1.00
78_S	82_L	0.502	1.00
268_K	271_A	0.502	1.00
40_S	62_A	0.502	1.00
266_E	383_R	0.501	1.00
67_S	71_A	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	0.8111	100	0.367	Contact Map
1z19A	3	0.6513	100	0.415	Contact Map
1a0pA	1	0.615	100	0.42	Contact Map
2a3vA	3	0.661	100	0.424	Contact Map
4a8eA	2	0.6247	100	0.463	Contact Map
1xo0A	3	0.6731	100	0.465	Contact Map
3nkhA	2	0.4479	100	0.566	Contact Map
1ae9A	4	0.3826	100	0.624	Contact Map
1aihA	2	0.4068	100	0.629	Contact Map
4e0gA	2	0.6416	99.9	0.656	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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