INTS - ECOLI - GREMLIN Contacts

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INTS - Putative prophage CPS-53 integrase

UniProt:	P37326	Sequences: MLTVKQIEAAKPKEKPYRLLDGNGLYLYVPVSGKKVWQLRYKIDGKEKILTVGKYPLMTLQEARDKAWTARKDISVGIDPVKAKKASSNNNSFSAIYKEWYEHKKQVWSVGYATELAKMFDDDILPIIGGLEIQDIEPMQLLEVIRRFEDRGAMERANKARRRCGEVFRYAIVTGRAKYNPAPDLADAMKGYRKKNFPFLPADQIPAFNKALATFSGSIVSLIATKVLRYTALRTKELRSMLWKNVDFENRIITIDASVMKGRKIHVVPMSDQVVELLTTLSSITKPVSEFVFAGRNDKKKPICENAVLLVIKQIGYEGLESGHGFRHEFSTIMNEHEWPADAIEVQLAHANGGSVRGIYNHAQYLDKRREMMQWWADWLDEKVE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12413
Length:	385 (329)
Sequences:	19541 (16582)
Seq/√Len:	914.2

ECOLI - INTS INTA INTZ INTF INTB INTR INTD INTE INTQ XERC XERD
BACSU - INT YOPP XERC YOMM XERD
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
331_S	348_L	4.824	1.00
131_L	140_Q	3.279	1.00
243_W	282_S	3.182	1.00
137_E	140_Q	2.978	1.00
322_S	325_G	2.852	1.00
228_L	323_G	2.810	1.00
266_H	349_A	2.778	1.00
251_R	275_V	2.741	1.00
232_A	330_F	2.668	1.00
235_T	324_H	2.610	1.00
330_F	347_Q	2.532	1.00
223_I	281_L	2.447	1.00
148_F	160_A	2.375	1.00
328_H	362_H	2.360	1.00
254_T	267_V	2.322	1.00
242_L	290_E	2.276	1.00
247_D	250_N	2.211	1.00
94_S	125_L	2.204	1.00
66_K	69_T	2.156	1.00
40_R	47_E	2.114	1.00
228_L	238_L	2.112	1.00
145_I	161_R	2.088	1.00
127_I	147_R	2.086	1.00
60_L	64_R	2.052	1.00
252_I	267_V	2.037	1.00
97_Y	167_V	2.012	1.00
330_F	334_M	1.963	1.00
97_Y	120_F	1.953	1.00
341_A	357_R	1.950	1.00
117_A	121_D	1.921	1.00
170_Y	174_T	1.913	1.00
94_S	98_K	1.884	1.00
155_E	159_K	1.851	1.00
308_V	312_I	1.848	1.00
98_K	125_L	1.835	1.00
340_P	343_A	1.834	1.00
335_N	344_I	1.833	1.00
243_W	292_V	1.824	1.00
275_V	279_T	1.820	1.00
70_A	73_D	1.810	1.00
269_P	347_Q	1.809	1.00
132_E	135_D	1.804	1.00
96_I	171_A	1.796	1.00
201_P	204_Q	1.785	1.00
223_I	280_T	1.783	1.00
101_Y	117_A	1.773	1.00
230_Y	271_S	1.753	1.00
233_L	238_L	1.752	1.00
264_K	351_A	1.733	1.00
169_R	183_P	1.731	1.00
141_L	182_A	1.690	1.00
96_I	133_I	1.690	1.00
109_S	259_V	1.666	1.00
119_M	163_R	1.666	1.00
42_K	47_E	1.663	1.00
335_N	361_N	1.624	1.00
94_S	130_G	1.614	1.00
175_G	179_Y	1.595	1.00
59_T	62_E	1.579	1.00
235_T	239_R	1.561	1.00
69_T	73_D	1.551	1.00
251_R	272_D	1.522	1.00
242_L	291_F	1.521	1.00
96_I	170_Y	1.512	1.00
112_Y	116_L	1.512	1.00
72_K	76_V	1.506	1.00
237_E	266_H	1.503	1.00
222_L	226_K	1.493	1.00
40_R	49_I	1.487	1.00
272_D	276_E	1.483	1.00
136_I	168_F	1.474	1.00
229_R	326_F	1.471	1.00
66_K	70_A	1.464	1.00
205_I	229_R	1.463	1.00
354_G	358_G	1.460	1.00
334_M	339_W	1.446	1.00
99_E	103_H	1.445	1.00
204_Q	207_A	1.439	1.00
161_R	165_G	1.389	1.00
223_I	277_L	1.383	1.00
245_N	256_D	1.379	1.00
142_L	174_T	1.378	1.00
67_A	71_R	1.376	1.00
334_M	344_I	1.352	1.00
241_M	246_V	1.349	1.00
352_N	358_G	1.343	1.00
224_A	238_L	1.342	1.00
92_S	95_A	1.341	1.00
173_V	186_A	1.339	1.00
244_K	290_E	1.337	1.00
105_K	113_A	1.333	1.00
207_A	211_A	1.322	1.00
248_F	279_T	1.322	1.00
118_K	122_D	1.308	1.00
213_A	222_L	1.306	1.00
101_Y	113_A	1.302	1.00
342_D	345_E	1.300	1.00
138_P	173_V	1.286	1.00
331_S	344_I	1.282	1.00
241_M	253_I	1.266	1.00
339_W	375_W	1.265	1.00
200_L	208_F	1.260	1.00
113_A	117_A	1.257	1.00
173_V	184_D	1.254	1.00
247_D	252_I	1.250	1.00
200_L	329_E	1.248	1.00
142_L	146_R	1.242	1.00
205_I	333_I	1.238	1.00
227_V	274_V	1.235	1.00
165_G	169_R	1.232	1.00
172_I	177_A	1.219	1.00
167_V	171_A	1.213	1.00
116_L	163_R	1.211	1.00
120_F	125_L	1.211	1.00
64_R	68_W	1.210	1.00
356_V	359_I	1.203	1.00
110_V	114_T	1.198	1.00
209_N	226_K	1.192	1.00
202_A	333_I	1.191	1.00
206_P	210_K	1.189	1.00
131_L	135_D	1.182	1.00
270_M	275_V	1.181	1.00
233_L	255_I	1.179	1.00
270_M	274_V	1.174	1.00
272_D	374_Q	1.161	1.00
242_L	245_N	1.158	1.00
69_T	72_K	1.157	1.00
61_Q	65_D	1.153	1.00
329_E	333_I	1.150	1.00
121_D	125_L	1.148	1.00
345_E	353_G	1.144	1.00
98_K	102_E	1.143	1.00
115_E	118_K	1.139	1.00
104_K	108_W	1.132	1.00
144_V	160_A	1.132	1.00
169_R	180_N	1.121	1.00
226_K	277_L	1.120	1.00
352_N	356_V	1.114	1.00
345_E	357_R	1.107	1.00
309_L	313_K	1.105	1.00
281_L	285_T	1.104	1.00
109_S	112_Y	1.100	1.00
68_W	75_S	1.099	1.00
36_V	51_T	1.096	1.00
108_W	116_L	1.096	1.00
342_D	346_V	1.094	1.00
271_S	274_V	1.089	1.00
38_Q	51_T	1.083	1.00
90_N	134_Q	1.082	1.00
96_I	174_T	1.079	1.00
202_A	206_P	1.074	1.00
65_D	69_T	1.072	1.00
224_A	293_F	1.070	1.00
307_A	310_L	1.069	1.00
128_I	144_V	1.069	1.00
253_I	257_A	1.064	1.00
144_V	148_F	1.064	1.00
90_N	132_E	1.062	1.00
68_W	71_R	1.059	1.00
145_I	149_E	1.059	1.00
332_T	361_N	1.056	1.00
235_T	323_G	1.053	1.00
309_L	312_I	1.051	1.00
260_M	265_I	1.048	1.00
273_Q	276_E	1.045	1.00
339_W	372_M	1.042	1.00
350_H	356_V	1.040	1.00
336_E	367_D	1.035	1.00
114_T	118_K	1.034	1.00
343_A	372_M	1.033	1.00
230_Y	274_V	1.033	1.00
153_A	156_R	1.026	1.00
39_L	66_K	1.012	1.00
333_I	336_E	1.011	1.00
139_M	143_E	1.009	1.00
226_K	273_Q	1.009	1.00
148_F	157_A	1.008	1.00
245_N	259_V	1.003	1.00
227_V	238_L	1.001	1.00
159_K	162_R	1.001	1.00
149_E	157_A	0.999	1.00
199_F	329_E	0.998	1.00
139_M	174_T	0.997	1.00
346_V	368_K	0.994	1.00
336_E	364_Q	0.993	1.00
94_S	129_G	0.988	1.00
168_F	181_P	0.979	1.00
72_K	75_S	0.975	1.00
158_N	188_A	0.968	1.00
93_F	167_V	0.963	1.00
71_R	75_S	0.961	1.00
230_Y	273_Q	0.960	1.00
172_I	179_Y	0.959	1.00
73_D	78_I	0.959	1.00
98_K	117_A	0.957	1.00
62_E	66_K	0.952	1.00
108_W	113_A	0.950	1.00
62_E	65_D	0.950	1.00
165_G	183_P	0.948	1.00
172_I	184_D	0.947	1.00
332_T	362_H	0.944	1.00
244_K	289_S	0.944	1.00
221_S	307_A	0.943	1.00
371_E	375_W	0.942	1.00
279_T	282_S	0.942	1.00
227_V	253_I	0.940	1.00
133_I	168_F	0.935	1.00
115_E	119_M	0.934	1.00
161_R	182_A	0.933	1.00
30_P	38_Q	0.929	1.00
91_N	95_A	0.924	1.00
65_D	68_W	0.924	1.00
345_E	358_G	0.920	1.00
168_F	177_A	0.918	1.00
168_F	182_A	0.916	1.00
141_L	164_C	0.916	1.00
156_R	160_A	0.914	1.00
138_P	175_G	0.910	1.00
97_Y	101_Y	0.907	1.00
96_I	167_V	0.904	1.00
137_E	178_K	0.900	1.00
110_V	113_A	0.900	1.00
65_D	75_S	0.898	1.00
211_A	314_Q	0.894	1.00
357_R	361_N	0.893	1.00
104_K	166_E	0.887	1.00
91_N	99_E	0.879	1.00
155_E	158_N	0.877	1.00
225_T	326_F	0.876	1.00
68_W	72_K	0.874	1.00
331_S	361_N	0.874	1.00
241_M	292_V	0.873	1.00
213_A	226_K	0.870	1.00
52_V	66_K	0.869	1.00
111_G	114_T	0.868	1.00
64_R	67_A	0.866	1.00
345_E	356_V	0.863	1.00
61_Q	64_R	0.861	1.00
104_K	107_V	0.860	1.00
93_F	164_C	0.860	1.00
339_W	343_A	0.857	1.00
353_G	358_G	0.852	1.00
172_I	183_P	0.852	1.00
140_Q	143_E	0.851	1.00
143_E	147_R	0.850	1.00
236_K	240_S	0.850	1.00
282_S	285_T	0.848	1.00
227_V	293_F	0.845	1.00
136_I	141_L	0.842	1.00
330_F	348_L	0.841	1.00
243_W	285_T	0.840	1.00
180_N	183_P	0.839	1.00
111_G	115_E	0.836	1.00
165_G	182_A	0.836	1.00
172_I	180_N	0.834	1.00
337_H	375_W	0.832	1.00
310_L	314_Q	0.830	1.00
149_E	154_M	0.829	1.00
331_S	335_N	0.829	1.00
353_G	357_R	0.827	1.00
208_F	225_T	0.825	1.00
212_L	225_T	0.819	1.00
142_L	145_I	0.819	1.00
93_F	97_Y	0.812	1.00
58_M	62_E	0.810	1.00
36_V	54_K	0.803	1.00
73_D	76_V	0.800	1.00
245_N	257_A	0.798	1.00
91_N	176_R	0.798	1.00
325_G	328_H	0.797	1.00
243_W	278_L	0.796	1.00
311_V	315_I	0.793	1.00
37_W	60_L	0.792	1.00
364_Q	367_D	0.779	1.00
348_L	357_R	0.779	1.00
127_I	143_E	0.778	1.00
274_V	277_L	0.775	1.00
248_F	275_V	0.774	1.00
133_I	171_A	0.773	1.00
331_S	357_R	0.773	1.00
137_E	175_G	0.769	1.00
350_H	357_R	0.768	1.00
93_F	136_I	0.767	1.00
69_T	76_V	0.765	1.00
32_S	35_K	0.765	1.00
227_V	278_L	0.763	1.00
331_S	356_V	0.762	1.00
335_N	341_A	0.758	1.00
295_G	301_K	0.756	1.00
158_N	162_R	0.753	1.00
63_A	67_A	0.751	1.00
211_A	315_I	0.751	1.00
139_M	175_G	0.749	1.00
200_L	204_Q	0.746	1.00
138_P	142_L	0.746	1.00
276_E	279_T	0.745	1.00
328_H	359_I	0.738	1.00
229_R	329_E	0.735	1.00
219_I	222_L	0.735	1.00
198_P	318_E	0.735	1.00
103_H	146_R	0.735	1.00
127_I	144_V	0.734	1.00
95_A	99_E	0.732	1.00
212_L	222_L	0.726	1.00
60_L	63_A	0.725	1.00
353_G	356_V	0.724	1.00
168_F	172_I	0.721	1.00
65_D	72_K	0.721	1.00
108_W	112_Y	0.718	1.00
335_N	342_D	0.718	1.00
370_R	374_Q	0.718	1.00
197_F	322_S	0.718	1.00
99_E	176_R	0.717	1.00
207_A	210_K	0.717	1.00
238_L	323_G	0.715	1.00
100_W	166_E	0.714	1.00
115_E	159_K	0.711	1.00
100_W	170_Y	0.710	1.00
97_Y	125_L	0.709	1.00
124_I	164_C	0.705	1.00
175_G	184_D	0.704	1.00
122_D	160_A	0.704	1.00
282_S	286_K	0.702	1.00
234_R	324_H	0.702	1.00
347_Q	373_M	0.700	1.00
233_L	237_E	0.698	1.00
246_V	278_L	0.698	1.00
118_K	121_D	0.697	1.00
248_F	251_R	0.695	1.00
41_Y	48_K	0.694	1.00
306_N	310_L	0.693	1.00
202_A	337_H	0.692	1.00
96_I	176_R	0.691	1.00
169_R	172_I	0.690	1.00
105_K	117_A	0.688	1.00
100_W	104_K	0.688	1.00
227_V	231_T	0.682	1.00
145_I	157_A	0.681	1.00
92_S	132_E	0.681	1.00
345_E	352_N	0.679	1.00
253_I	270_M	0.676	1.00
256_D	265_I	0.676	1.00
74_I	79_D	0.676	1.00
232_A	348_L	0.675	1.00
231_T	268_V	0.675	1.00
198_P	204_Q	0.675	1.00
341_A	358_G	0.674	1.00
331_S	345_E	0.673	1.00
367_D	370_R	0.671	1.00
254_T	265_I	0.670	1.00
352_N	357_R	0.667	1.00
235_T	305_E	0.666	1.00
335_N	364_Q	0.666	1.00
39_L	70_A	0.664	1.00
99_E	170_Y	0.663	1.00
166_E	170_Y	0.663	1.00
99_E	102_E	0.662	1.00
98_K	121_D	0.661	1.00
38_Q	49_I	0.659	1.00
219_I	280_T	0.658	1.00
168_F	180_N	0.655	1.00
248_F	270_M	0.654	1.00
51_T	54_K	0.653	1.00
342_D	357_R	0.652	1.00
95_A	98_K	0.650	1.00
122_D	126_P	0.648	1.00
99_E	174_T	0.647	1.00
205_I	329_E	0.644	1.00
231_T	274_V	0.644	1.00
233_L	241_M	0.642	1.00
365_Y	368_K	0.642	1.00
77_G	80_P	0.640	1.00
342_D	358_G	0.638	1.00
39_L	67_A	0.637	1.00
119_M	160_A	0.631	1.00
269_P	368_K	0.631	1.00
161_R	185_L	0.630	1.00
171_A	177_A	0.629	1.00
200_L	320_L	0.627	1.00
36_V	58_M	0.627	1.00
102_E	105_K	0.627	1.00
231_T	271_S	0.627	1.00
177_A	181_P	0.623	1.00
307_A	311_V	0.620	1.00
209_N	222_L	0.617	1.00
233_L	268_V	0.613	1.00
219_I	223_I	0.611	1.00
229_R	333_I	0.611	1.00
142_L	173_V	0.611	1.00
146_R	149_E	0.609	1.00
101_Y	105_K	0.608	1.00
169_R	173_V	0.607	1.00
104_K	116_L	0.606	1.00
262_G	349_A	0.605	1.00
198_P	319_G	0.604	1.00
220_V	281_L	0.604	1.00
331_S	350_H	0.604	1.00
128_I	136_I	0.604	1.00
116_L	119_M	0.603	1.00
73_D	77_G	0.602	1.00
343_A	371_E	0.602	1.00
144_V	147_R	0.599	1.00
204_Q	318_E	0.599	1.00
308_V	323_G	0.599	1.00
54_K	59_T	0.598	1.00
246_V	253_I	0.597	1.00
234_R	257_A	0.595	1.00
138_P	184_D	0.595	1.00
350_H	354_G	0.594	1.00
367_D	371_E	0.593	1.00
202_A	336_E	0.592	1.00
120_F	124_I	0.592	1.00
345_E	348_L	0.590	1.00
124_I	129_G	0.590	1.00
146_R	174_T	0.590	1.00
334_M	347_Q	0.589	1.00
277_L	280_T	0.588	1.00
39_L	52_V	0.586	1.00
172_I	175_G	0.586	1.00
164_C	182_A	0.585	1.00
125_L	129_G	0.582	1.00
154_M	158_N	0.582	1.00
309_L	319_G	0.581	1.00
233_L	253_I	0.581	1.00
276_E	280_T	0.580	1.00
203_D	207_A	0.579	1.00
341_A	345_E	0.579	1.00
239_R	305_E	0.577	1.00
347_Q	368_K	0.577	1.00
291_F	294_A	0.576	1.00
199_F	332_T	0.573	1.00
128_I	140_Q	0.572	1.00
320_L	325_G	0.571	1.00
120_F	163_R	0.571	1.00
335_N	363_A	0.571	1.00
222_L	277_L	0.570	1.00
335_N	357_R	0.570	1.00
291_F	302_P	0.568	1.00
209_N	230_Y	0.568	1.00
366_L	370_R	0.567	1.00
280_T	283_S	0.566	1.00
336_E	366_L	0.566	1.00
71_R	74_I	0.566	1.00
138_P	174_T	0.564	1.00
211_A	214_T	0.562	1.00
94_S	120_F	0.561	1.00
91_N	134_Q	0.559	1.00
99_E	143_E	0.558	1.00
336_E	363_A	0.557	1.00
146_R	150_D	0.556	1.00
144_V	164_C	0.555	1.00
280_T	284_I	0.552	1.00
324_H	348_L	0.551	1.00
231_T	238_L	0.550	1.00
173_V	183_P	0.549	1.00
30_P	34_K	0.546	1.00
317_Y	320_L	0.546	1.00
310_L	313_K	0.545	1.00
209_N	213_A	0.544	1.00
103_H	170_Y	0.544	1.00
247_D	254_T	0.543	1.00
167_V	170_Y	0.542	1.00
242_L	257_A	0.540	1.00
339_W	344_I	0.540	1.00
297_N	301_K	0.540	1.00
193_R	263_R	0.536	1.00
119_M	159_K	0.533	1.00
148_F	152_G	0.532	1.00
335_N	340_P	0.529	1.00
147_R	151_R	0.527	1.00
50_L	70_A	0.525	1.00
92_S	130_G	0.522	1.00
124_I	144_V	0.518	1.00
341_A	353_G	0.518	1.00
332_T	363_A	0.517	1.00
212_L	311_V	0.516	1.00
169_R	184_D	0.514	1.00
333_I	337_H	0.514	1.00
223_I	293_F	0.513	1.00
343_A	368_K	0.512	1.00
224_A	323_G	0.512	1.00
248_F	278_L	0.511	1.00
226_K	274_V	0.509	1.00
79_D	82_K	0.509	1.00
198_P	325_G	0.508	1.00
197_F	325_G	0.505	1.00
162_R	166_E	0.504	1.00
91_N	132_E	0.504	1.00
237_E	349_A	0.504	1.00
32_S	38_Q	0.504	1.00
34_K	54_K	0.503	1.00
226_K	230_Y	0.501	1.00
120_F	167_V	0.501	1.00
112_Y	115_E	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	0.8701	100	0.305	Contact Map
1z19A	3	0.7013	100	0.37	Contact Map
1a0pA	1	0.6623	100	0.373	Contact Map
2a3vA	3	0.7117	100	0.379	Contact Map
4a8eA	2	0.6727	100	0.416	Contact Map
1xo0A	3	0.7247	100	0.429	Contact Map
3nkhA	2	0.4831	100	0.524	Contact Map
1ae9A	4	0.4104	100	0.591	Contact Map
1aihA	2	0.4364	99.9	0.605	Contact Map
4e0gA	2	0.6805	99.9	0.63	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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