HTRA - BACSU - GREMLIN Contacts

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HTRA - Serine protease Do-like HtrA

UniProt:	O34358	Sequences: MDNYRDENRTKGNENEVFLTKENDQSASYSARNVIHDQEKKKRGFGWFRPLLGGVIGGSLALGIYTFTPLGDHDSQDTAKQSSSQQQTQSVTATSTSSESKKSSSSSSAFKSEDSSKISDMVEDLSPAIVGITNLQAQSNSSLFGSSSSDSSEDTESGSGSGVIFKKENGKAYIITNNHVVEGASSLKVSLYDGTEVTAKLVGSDSLTDLAVLQISDDHVTKVANFGDSSDLRTGETVIAIGDPLGKDLSRTVTQGIVSGVDRTVSMSTSAGETSINVIQTDAAINPGNSGGPLLNTDGKIVGINSMKISEDDVEGIGFAIPSNDVKPIAEELLSKGQIERPYIGVSMLDLEQVPQNYQEGTLGLFGSQLNKGVYIREVASGSPAEKAGLKAEDIIIGLKGKEIDTGSELRNILYKDAKIGDTVEVKILRNGKEMTKKIKLDQKEEKTS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	449 (340)
Sequences:	2109 (1705)
Seq/√Len:	92.5

ECOLI - DEGP DEGQ DEGS
BACSU - HTRA HTRB YYXA
HALSA - Q9HSH6
SULSO - Q97VL1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
296_N	300_K	6.314	1.00
398_G	427_K	5.126	1.00
123_E	233_R	5.088	1.00
428_I	437_K	4.626	1.00
400_K	418_A	4.601	1.00
228_D	324_N	4.415	1.00
178_N	204_S	4.073	1.00
225_N	300_K	3.991	1.00
228_D	231_D	3.931	1.00
224_A	301_I	3.835	1.00
230_S	324_N	3.774	1.00
199_A	213_L	3.765	1.00
423_T	438_K	3.721	1.00
187_L	201_L	3.719	1.00
425_E	436_T	3.362	1.00
376_I	390_L	3.124	1.00
128_A	223_V	2.808	1.00
398_G	401_G	2.636	1.00
238_V	258_V	2.617	1.00
425_E	438_K	2.573	1.00
348_M	407_G	2.564	1.00
197_V	215_I	2.495	1.00
226_F	323_S	2.482	1.00
285_I	318_G	2.444	1.00
427_K	434_E	2.420	1.00
376_I	396_I	2.410	1.00
163_V	293_P	2.383	1.00
232_L	302_V	2.256	1.00
293_P	301_I	2.242	1.00
175_I	326_V	2.206	1.00
226_F	327_K	2.168	1.00
186_S	198_T	2.164	1.00
258_V	279_I	2.153	1.00
394_D	430_R	2.143	1.00
200_K	216_S	2.119	1.00
423_T	440_K	2.116	1.00
163_V	301_I	2.114	1.00
398_G	403_E	2.107	1.00
344_I	439_I	2.085	1.00
347_S	378_E	2.057	1.00
188_K	196_E	2.025	1.00
119_S	236_E	1.991	1.00
382_G	386_E	1.911	1.00
122_V	253_V	1.909	1.00
332_E	336_K	1.901	1.00
428_I	435_M	1.895	1.00
390_L	426_V	1.841	1.00
175_I	330_A	1.832	1.00
239_I	297_T	1.719	1.00
217_D	220_V	1.707	1.00
342_P	420_I	1.688	1.00
232_L	261_V	1.687	1.00
163_V	224_A	1.629	1.00
375_Y	393_E	1.628	1.00
327_K	331_E	1.626	1.00
135_L	186_S	1.621	1.00
125_L	295_L	1.593	1.00
238_V	297_T	1.589	1.00
402_K	413_I	1.578	1.00
164_I	191_L	1.562	1.00
212_V	334_L	1.549	1.00
134_N	187_L	1.541	1.00
215_I	220_V	1.538	1.00
427_K	436_T	1.532	1.00
227_G	323_S	1.525	1.00
336_K	340_E	1.514	1.00
119_S	233_R	1.491	1.00
117_K	236_E	1.473	1.00
237_T	255_Q	1.469	1.00
118_I	255_Q	1.450	1.00
343_Y	384_P	1.439	0.99
343_Y	445_E	1.438	0.99
405_D	409_E	1.434	0.99
118_I	239_I	1.394	0.99
397_I	427_K	1.393	0.99
384_P	442_D	1.376	0.99
224_A	295_L	1.373	0.99
181_V	187_L	1.369	0.99
234_T	261_V	1.363	0.99
245_L	314_V	1.363	0.99
117_K	120_D	1.361	0.99
121_M	295_L	1.356	0.99
255_Q	282_D	1.356	0.99
323_S	326_V	1.347	0.99
418_A	422_D	1.325	0.99
200_K	214_Q	1.323	0.99
406_T	409_E	1.317	0.99
191_L	197_V	1.298	0.99
125_L	224_A	1.295	0.99
381_S	386_E	1.289	0.99
399_L	424_V	1.285	0.99
240_A	305_N	1.281	0.99
281_T	294_L	1.277	0.99
380_A	383_S	1.269	0.99
285_I	305_N	1.267	0.99
340_E	443_Q	1.266	0.99
352_E	355_P	1.265	0.99
390_L	437_K	1.258	0.99
385_A	388_A	1.257	0.99
133_T	190_S	1.256	0.99
173_Y	202_V	1.255	0.99
229_S	324_N	1.245	0.98
308_K	315_E	1.235	0.98
126_S	251_R	1.225	0.98
166_K	173_Y	1.218	0.98
174_I	215_I	1.207	0.98
174_I	213_L	1.200	0.98
173_Y	214_Q	1.199	0.98
127_P	222_K	1.195	0.98
400_K	413_I	1.194	0.98
391_K	430_R	1.188	0.98
191_L	215_I	1.181	0.98
226_F	301_I	1.170	0.98
424_V	441_L	1.161	0.98
210_L	304_I	1.159	0.98
188_K	198_T	1.157	0.98
379_V	392_A	1.153	0.98
350_D	407_G	1.150	0.97
308_K	314_V	1.150	0.97
398_G	434_E	1.141	0.97
372_K	405_D	1.136	0.97
426_V	437_K	1.132	0.97
418_A	441_L	1.127	0.97
237_T	297_T	1.125	0.97
304_I	326_V	1.125	0.97
249_L	317_I	1.121	0.97
132_I	213_L	1.112	0.97
168_E	214_Q	1.111	0.97
161_S	293_P	1.108	0.97
390_L	428_I	1.104	0.97
370_L	429_L	1.102	0.97
136_Q	156_E	1.093	0.97
331_E	335_S	1.087	0.96
172_A	214_Q	1.086	0.96
419_K	422_D	1.082	0.96
118_I	122_V	1.081	0.96
163_V	304_I	1.080	0.96
286_N	289_N	1.080	0.96
426_V	436_T	1.065	0.96
121_M	239_I	1.061	0.96
240_A	294_L	1.051	0.96
227_G	232_L	1.050	0.96
187_L	213_L	1.045	0.96
350_D	408_S	1.045	0.96
232_L	279_I	1.041	0.95
350_D	406_T	1.024	0.95
346_V	374_V	1.017	0.95
166_K	172_A	1.016	0.95
121_M	124_D	1.014	0.95
332_E	339_I	1.011	0.95
164_I	223_V	1.000	0.94
374_V	411_R	0.997	0.94
379_V	389_G	0.995	0.94
129_I	293_P	0.995	0.94
379_V	383_S	0.984	0.94
125_L	301_I	0.983	0.94
401_G	413_I	0.976	0.94
124_D	225_N	0.970	0.93
283_A	318_G	0.969	0.93
189_V	199_A	0.961	0.93
217_D	221_T	0.960	0.93
326_V	330_A	0.957	0.93
413_I	417_D	0.950	0.93
418_A	424_V	0.950	0.93
168_E	173_Y	0.950	0.93
387_K	442_D	0.949	0.93
252_T	317_I	0.946	0.92
397_I	429_L	0.944	0.92
203_G	333_L	0.943	0.92
430_R	435_M	0.942	0.92
385_A	389_G	0.939	0.92
352_E	356_Q	0.933	0.92
98_S	101_K	0.924	0.92
413_I	418_A	0.919	0.91
245_L	315_E	0.919	0.91
208_T	341_R	0.918	0.91
347_S	380_A	0.914	0.91
350_D	374_V	0.912	0.91
178_N	206_S	0.905	0.91
128_A	222_K	0.903	0.91
351_L	371_N	0.898	0.90
233_R	236_E	0.896	0.90
165_F	334_L	0.894	0.90
336_K	339_I	0.889	0.90
190_S	196_E	0.885	0.90
179_H	209_D	0.883	0.90
234_T	238_V	0.881	0.90
191_L	195_T	0.874	0.89
122_V	239_I	0.872	0.89
351_L	368_S	0.872	0.89
121_M	241_I	0.871	0.89
122_V	126_S	0.871	0.89
379_V	388_A	0.869	0.89
178_N	182_E	0.869	0.89
429_L	434_E	0.866	0.89
203_G	212_V	0.862	0.89
177_N	209_D	0.861	0.88
276_I	325_D	0.858	0.88
172_A	221_T	0.858	0.88
120_D	233_R	0.848	0.88
370_L	395_I	0.848	0.88
114_D	237_T	0.848	0.88
190_S	251_R	0.841	0.87
301_I	323_S	0.840	0.87
259_S	280_Q	0.840	0.87
343_Y	444_K	0.840	0.87
236_E	296_N	0.838	0.87
114_D	117_K	0.838	0.87
205_D	208_T	0.836	0.87
201_L	204_S	0.833	0.87
353_Q	357_N	0.830	0.87
179_H	288_G	0.828	0.86
287_P	311_E	0.827	0.86
232_L	238_V	0.824	0.86
179_H	290_S	0.817	0.86
404_I	426_V	0.809	0.85
277_N	325_D	0.809	0.85
131_G	243_D	0.809	0.85
118_I	253_V	0.804	0.85
202_V	214_Q	0.803	0.85
401_G	436_T	0.802	0.85
349_L	377_R	0.802	0.85
426_V	439_I	0.800	0.85
128_A	224_A	0.798	0.84
332_E	337_G	0.798	0.84
118_I	237_T	0.796	0.84
197_V	220_V	0.795	0.84
179_H	280_Q	0.793	0.84
118_I	121_M	0.792	0.84
243_D	250_S	0.792	0.84
245_L	309_I	0.791	0.84
158_G	184_A	0.789	0.84
343_Y	380_A	0.788	0.84
177_N	280_Q	0.786	0.83
181_V	204_S	0.786	0.83
397_I	434_E	0.778	0.83
263_R	280_Q	0.774	0.83
374_V	396_I	0.769	0.82
122_V	295_L	0.766	0.82
132_I	189_V	0.765	0.82
164_I	222_K	0.760	0.81
265_V	274_T	0.758	0.81
379_V	437_K	0.758	0.81
348_M	374_V	0.758	0.81
266_S	273_E	0.756	0.81
104_S	107_S	0.756	0.81
174_I	218_D	0.752	0.81
339_I	342_P	0.748	0.80
134_N	156_E	0.748	0.80
283_A	288_G	0.746	0.80
356_Q	371_N	0.744	0.80
310_S	313_D	0.744	0.80
172_A	217_D	0.743	0.80
251_R	293_P	0.742	0.80
344_I	384_P	0.740	0.80
285_I	289_N	0.737	0.79
167_K	217_D	0.734	0.79
135_L	188_K	0.730	0.79
124_D	222_K	0.728	0.79
160_G	180_V	0.727	0.78
216_S	219_H	0.727	0.78
368_S	371_N	0.726	0.78
286_N	290_S	0.726	0.78
263_R	319_F	0.723	0.78
347_S	377_R	0.723	0.78
254_T	259_S	0.719	0.78
239_I	255_Q	0.718	0.78
329_I	333_L	0.716	0.77
180_V	290_S	0.714	0.77
165_F	212_V	0.711	0.77
261_V	279_I	0.709	0.77
399_L	410_L	0.709	0.77
209_D	290_S	0.708	0.77
244_P	319_F	0.708	0.77
254_T	289_N	0.707	0.76
294_L	320_A	0.707	0.76
180_V	288_G	0.705	0.76
173_Y	334_L	0.702	0.76
134_N	184_A	0.699	0.76
293_P	305_N	0.697	0.75
259_S	286_N	0.696	0.75
86_Q	90_S	0.693	0.75
231_D	324_N	0.689	0.75
203_G	329_I	0.687	0.74
119_S	296_N	0.684	0.74
131_G	250_S	0.684	0.74
137_A	185_S	0.683	0.74
294_L	305_N	0.683	0.74
280_Q	288_G	0.680	0.74
238_V	302_V	0.679	0.74
85_Q	89_Q	0.678	0.73
131_G	158_G	0.676	0.73
93_A	98_S	0.672	0.73
121_M	255_Q	0.672	0.73
178_N	201_L	0.672	0.73
243_D	307_M	0.665	0.72
372_K	403_E	0.663	0.72
280_Q	319_F	0.663	0.72
97_S	100_S	0.663	0.72
178_N	208_T	0.662	0.72
179_H	319_F	0.660	0.71
163_V	295_L	0.660	0.71
402_K	417_D	0.658	0.71
399_L	426_V	0.656	0.71
259_S	263_R	0.655	0.71
396_I	410_L	0.655	0.71
172_A	220_V	0.655	0.71
210_L	321_I	0.654	0.71
167_K	223_V	0.654	0.71
278_V	309_I	0.653	0.71
344_I	424_V	0.651	0.70
348_M	411_R	0.651	0.70
278_V	342_P	0.651	0.70
166_K	334_L	0.650	0.70
245_L	308_K	0.648	0.70
177_N	290_S	0.648	0.70
344_I	410_L	0.647	0.70
409_E	412_N	0.644	0.70
179_H	283_A	0.643	0.69
209_D	319_F	0.642	0.69
177_N	288_G	0.642	0.69
227_G	258_V	0.641	0.69
181_V	213_L	0.640	0.69
376_I	426_V	0.636	0.69
121_M	310_S	0.635	0.69
220_V	224_A	0.635	0.69
160_G	179_H	0.635	0.69
241_I	295_L	0.633	0.68
176_T	211_A	0.632	0.68
194_G	198_T	0.632	0.68
227_G	300_K	0.631	0.68
88_T	91_V	0.629	0.68
87_Q	91_V	0.629	0.68
411_R	414_L	0.628	0.68
243_D	246_G	0.628	0.68
270_S	273_E	0.626	0.67
116_S	120_D	0.622	0.67
121_M	194_G	0.620	0.67
243_D	293_P	0.620	0.67
238_V	281_T	0.619	0.67
98_S	433_K	0.619	0.67
135_L	157_S	0.618	0.66
414_L	418_A	0.616	0.66
85_Q	90_S	0.616	0.66
224_A	323_S	0.615	0.66
128_A	323_S	0.614	0.66
104_S	152_S	0.614	0.66
95_S	103_S	0.614	0.66
241_I	252_T	0.614	0.66
338_Q	443_Q	0.613	0.66
95_S	98_S	0.613	0.66
142_S	150_D	0.612	0.66
244_P	249_L	0.612	0.66
133_T	196_E	0.611	0.66
209_D	280_Q	0.610	0.65
85_Q	93_A	0.610	0.65
131_G	245_L	0.610	0.65
439_I	442_D	0.608	0.65
339_I	422_D	0.606	0.65
385_A	390_L	0.606	0.65
157_S	201_L	0.605	0.65
243_D	340_E	0.603	0.65
111_K	114_D	0.598	0.64
259_S	316_G	0.598	0.64
404_I	410_L	0.597	0.64
254_T	316_G	0.597	0.64
210_L	330_A	0.596	0.64
226_F	330_A	0.596	0.64
280_Q	291_G	0.593	0.63
400_K	426_V	0.592	0.63
127_P	295_L	0.592	0.63
259_S	289_N	0.591	0.63
175_I	226_F	0.588	0.63
280_Q	286_N	0.588	0.63
159_S	250_S	0.587	0.62
230_S	262_D	0.585	0.62
200_K	218_D	0.585	0.62
391_K	394_D	0.584	0.62
308_K	317_I	0.584	0.62
309_I	314_V	0.584	0.62
281_T	284_A	0.584	0.62
86_Q	101_K	0.584	0.62
161_S	309_I	0.583	0.62
397_I	406_T	0.582	0.62
351_L	395_I	0.582	0.62
197_V	218_D	0.580	0.62
84_S	92_T	0.579	0.61
167_K	423_T	0.579	0.61
114_D	297_T	0.577	0.61
160_G	322_P	0.576	0.61
215_I	221_T	0.576	0.61
280_Q	289_N	0.576	0.61
118_I	257_I	0.575	0.61
86_Q	91_V	0.575	0.61
86_Q	89_Q	0.574	0.61
138_Q	156_E	0.572	0.60
399_L	404_I	0.572	0.60
317_I	384_P	0.571	0.60
179_H	289_N	0.570	0.60
87_Q	90_S	0.570	0.60
165_F	330_A	0.569	0.60
122_V	241_I	0.569	0.60
209_D	283_A	0.567	0.60
132_I	199_A	0.567	0.60
135_L	154_D	0.567	0.60
305_N	316_G	0.566	0.60
212_V	330_A	0.565	0.60
274_T	411_R	0.564	0.59
180_V	263_R	0.564	0.59
180_V	280_Q	0.564	0.59
122_V	125_L	0.564	0.59
84_S	87_Q	0.562	0.59
91_V	99_E	0.561	0.59
414_L	439_I	0.561	0.59
201_L	222_K	0.560	0.59
160_G	209_D	0.558	0.59
85_Q	88_T	0.557	0.58
249_L	319_F	0.554	0.58
177_N	285_I	0.553	0.58
131_G	159_S	0.553	0.58
139_S	153_E	0.553	0.58
209_D	288_G	0.553	0.58
209_D	293_P	0.553	0.58
346_V	390_L	0.552	0.58
374_V	407_G	0.552	0.58
131_G	308_K	0.551	0.58
281_T	320_A	0.551	0.58
89_Q	95_S	0.550	0.58
383_S	442_D	0.549	0.57
374_V	404_I	0.549	0.57
260_G	316_G	0.549	0.57
177_N	286_N	0.548	0.57
177_N	259_S	0.547	0.57
307_M	310_S	0.547	0.57
164_I	215_I	0.547	0.57
165_F	193_D	0.546	0.57
135_L	155_T	0.545	0.57
280_Q	290_S	0.545	0.57
177_N	180_V	0.544	0.57
264_T	275_S	0.544	0.57
95_S	102_K	0.541	0.56
94_T	98_S	0.541	0.56
177_N	289_N	0.540	0.56
94_T	100_S	0.540	0.56
136_Q	157_S	0.540	0.56
378_E	388_A	0.539	0.56
96_T	99_E	0.539	0.56
294_L	316_G	0.537	0.56
105_S	109_A	0.537	0.56
167_K	220_V	0.536	0.56
90_S	96_T	0.536	0.56
166_K	214_Q	0.536	0.56
280_Q	316_G	0.534	0.55
312_D	406_T	0.533	0.55
208_T	276_I	0.533	0.55
160_G	280_Q	0.532	0.55
116_S	119_S	0.531	0.55
244_P	250_S	0.529	0.55
179_H	286_N	0.528	0.54
311_E	315_E	0.528	0.54
259_S	284_A	0.527	0.54
265_V	272_G	0.527	0.54
378_E	392_A	0.527	0.54
128_A	295_L	0.524	0.54
108_S	298_D	0.523	0.54
388_A	439_I	0.521	0.54
265_V	307_M	0.520	0.53
236_E	300_K	0.520	0.53
117_K	237_T	0.517	0.53
134_N	158_G	0.517	0.53
177_N	318_G	0.517	0.53
308_K	316_G	0.516	0.53
260_G	270_S	0.516	0.53
386_E	389_G	0.516	0.53
180_V	209_D	0.514	0.53
189_V	215_I	0.513	0.52
97_S	106_S	0.513	0.52
139_S	151_S	0.513	0.52
244_P	289_N	0.512	0.52
335_S	402_K	0.512	0.52
371_N	395_I	0.512	0.52
86_Q	97_S	0.511	0.52
298_D	302_V	0.511	0.52
376_I	437_K	0.511	0.52
276_I	307_M	0.509	0.52
177_N	283_A	0.509	0.52
288_G	318_G	0.509	0.52
189_V	323_S	0.508	0.52
160_G	289_N	0.508	0.52
100_S	378_E	0.508	0.52
174_I	220_V	0.508	0.52
399_L	414_L	0.508	0.52
129_I	221_T	0.507	0.52
101_K	104_S	0.507	0.52
161_S	280_Q	0.507	0.52
422_D	441_L	0.506	0.51
166_K	221_T	0.506	0.51
400_K	425_E	0.505	0.51
179_H	263_R	0.504	0.51
250_S	317_I	0.503	0.51
274_T	412_N	0.503	0.51
276_I	306_S	0.502	0.51
208_T	329_I	0.502	0.51
90_S	433_K	0.502	0.51
181_V	184_A	0.501	0.51
265_V	275_S	0.501	0.51
155_T	390_L	0.501	0.51
289_N	316_G	0.500	0.51
134_N	342_P	0.500	0.51
179_H	291_G	0.500	0.51

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
1ky9A	5	0.6882	100	0.455	Contact Map
3pv2A	6	0.6503	100	0.466	Contact Map
3stjA	6	0.6659	100	0.482	Contact Map
4a8cA	5	0.6793	100	0.483	Contact Map
4ic6A	4	0.6971	100	0.511	Contact Map
1lcyA	3	0.6526	100	0.513	Contact Map
3qo6A	5	0.706	100	0.519	Contact Map
4ri0A	3	0.6815	100	0.526	Contact Map
4flnA	5	0.6704	100	0.53	Contact Map
3numA	3	0.4232	100	0.534	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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